PROXIMA

Novaflow x Schuele Lab, Stanford

Reference library

The public data behind PROXIMA

PROXIMA benchmarks iPSC-derived neurons and microglia, by bulk and single-cell RNA-seq, against published cells made the same way and against fetal and adult human brain. Every dataset it uses is listed here, linked to its public record.

How the library is used. The 1,163 series are a searchable library. PROXIMA uses their curated metadata to find protocol-matched comparators for a new dataset. Scores are computed against a fixed scoring set, listed below, not against all 1,163 series.

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Scoring set

These fixed references are what PROXIMA scores against. Where a DOI is shown it was checked against the publisher record.

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Human brain atlases 2

Brain atlasScience · 2023

Braun et al. 2023

Comprehensive cell atlas of the first-trimester developing human brain

Used as Fetal brain classes (single-cell, pseudobulk)

DOI 10.1126/science.adf1226

Brain atlasScience · 2023

Siletti et al. 2023

Transcriptomic diversity of cell types across the adult human brain

Used as Adult brain classes (single-nucleus, pseudobulk)

DOI 10.1126/science.add7046

Microglia references 9

Bulk RNA-seqn = 3

Heiss 2026

Source iPSC microglia, EB-derived macrophage precursor

Assay Bulk RNA-seq (library type not stated)

Data: Supplementary File 1DOI 10.3389/fnagi.2026.1756410

3' QuantSeqn = 1

McQuade 2026, iTF microglia (derived profile)

Source iPSC microglia, transcription-factor induced

Assay 3' QuantSeq, profile derived from the paper

Data: From the paperDOI 10.1038/s44400-026-00125-4

Untreated or vehicle-only samples. Abud 2017 blood dendritic cells are shown as a comparator only and are not counted.

Published NGN2 neuron units 34

34 units from 33 public GEO series, 771 samples. 30 of the 33 series are in the 1,511-series atlas. DOIs are the publications linked to each GEO record.

Not in v1.14 samples

GSE126890

Amgen Inc.

NGN2 (dox-inducible / transduced)

GEO GSE126890No paper linked

Not in v1.19 samples

GSE139273

NINDS/NIH

NGN2 + BRN3A (sensory)

GEO GSE139273No paper linked

Not in v1.19 samples

GSE149864

Aarhus University

NGN2 + regional pre-patterning (ESC)

GEO GSE149864No paper linked

In v1.17 samples

GSE189614

NorthShore University HealthSystem

NGN2 (dox-inducible / transduced)

GEO GSE189614No paper linked

In v1.114 samples

GSE248342

University of Michigan

NGN2 (dox-inducible / transduced)

GEO GSE248342No paper linked

In v1.112 samples

GSE248344

University of Michigan

NGN2 (dox-inducible / transduced)

GEO GSE248344No paper linked

In v1.142 samples

GSE275765

Thomas Jefferson University

NGN2 (dox-inducible / transduced)

GEO GSE275765No paper linked

Not in v1.118 samples

GSE319077

Boston Children's Hospital

NGN2 (dox-inducible / transduced)

GEO GSE319077No paper linked

Search and screening

PRISMA 2020 flow. Human iPSC- or ESC-derived CNS cells, transcriptomic data, public raw reads.

  1. Records identified in GEO and ArrayExpress3,711

    GEO 3,355 · ArrayExpress 356

  2. Duplicates removed408
  3. Records screened (title and summary)3,303
  4. Excluded at screening1,546
  5. Series assessed at full record1,757
  6. Excluded at full record246
  7. Series included1,511

    1,080 bulk RNA-seq · 431 single-cell RNA-seq

  8. PROXIMA reference set v1.11,163

    1,155 of its series are among the 1,511 included

Counts: GEO and ArrayExpress search, October 21, 2026. Screening was model-assisted with adjudication; no human full-text screen yet. Agreement between two independent model-based screeners on 200 random records: Cohen's kappa 0.86 (95% CI 0.79 to 0.93). Human second screen pending.

Reference set v1.1 by lineage

Tap a lineage to list its series. A series can carry more than one lineage. Astrocytes, OPC / oligodendrocytes and organoids enter beside neurons or microglia, or from reference set v1.0.

Assays: bulk 873, single-cell or single-nucleus 264, both 25.

Poster QR codes

The two codes printed on the poster. Tap a code to show it full screen so a colleague can scan it from your phone.

QR code for https://proxima.novaflow.ai/references
ReferencesReference library, this pageproxima.novaflow.ai/references
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DemoThe PROXIMA demo videoproxima.novaflow.ai/demo
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All 1,163 series

Each accession opens its GEO or ArrayExpress page. Metadata as deposited and curated in the review. Institution is the last field of the deposited contact.

Export results

AccessionYearLineageModel classAssayInstitution
E-MTAB-15054 ArrayExpressIdentifying GFAP-Expressing Cell Susceptibility to SARS-CoV-2 Infection using Human iPSC-derived neural cells2026Cortical / excitatoryAstrocytes2D directed differentiationbulkbulk RNA-seqFaculty of Medicine Siriraj Hospital, Mahidol University Faculty of Medicine …
E-MTAB-15192 ArrayExpressSingle cell RNA-seq of human cortical organoids carrying the CEP41 R242H mutation2026OrganoidsOrganoidsingle-cell/nucleusscRNA-seqCentre for Discovery Brain Sciences, University of Edinburgh
E-MTAB-15433 ArrayExpressRNA-seq in WTC11 i3 lower-motor neurons with and without TDP-43 knockdown2026NGN2 / TF-programmedMotorTF programmingbulkbulk RNA-seqUniversity College London
E-MTAB-15659 ArrayExpressPosterior brain organoids multi-omics atlas2026DopaminergicOrganoidsOrganoidsingle-cell/nucleusmultiomeETH Zurich, Department of Biosystems Science and Engineering ETH Zurich …
E-MTAB-15765 ArrayExpressTranscriptional profiling of iPSC derived motor neurons from spinal and bulbar muscular atrophy patients at key stages motor neurogenesis2026Motor2D directed differentiationbulkbulk RNA-seqUCL
E-MTAB-15826 ArrayExpressscRNA-seq CRISPR screening of human posterior brain organoids2026OrganoidsOrganoidsingle-cell/nucleusscRNA-seqETH Zurich, Department of Biosystems Science and Engineering ETH Zurich …
E-MTAB-16791 ArrayExpressBulk short- and long-read RNA-sequencing of iNeurons in Fragile-X and control cell-lines2026NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqKAIST
E-MTAB-17185 ArrayExpressbulk RNA-seq NOHA2026OrganoidsOrganoidbulkbulk RNA-seqHuman Technopole University of Milan
E-MTAB-17432 ArrayExpressSingle-cell RNA sequencing data of human dorsal forebrain organoids derived from three iPSC lines2026OrganoidsOrganoidsingle-cell/nucleusscRNA-seqKarlsruhe Institute of Technology Karlsruhe Institute of Technology
GSE217876 GEODevelopment and characterization of 3D spinal cord organoids to advance the study of amyotrophic lateral sclerosis2026MotorOrganoids no exact timepointOrganoidbulkbulk RNA-seqIRCCS Mondino Foundation
GSE226507 GEOSystematic characterization of brain cellular crosstalk reveals a novel role for SEMA6D in TREM2-associated microglial function in Alzheimer’s disease2026Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqWashington University School of Medicine
GSE256148 GEOIL-17 signaling pathway and NMDAR1 antibodies shape NMDAR encephalitis2026OrganoidsOrganoidbulkbulk RNA-seqThe First Affiliated Hospital of University of South China
GSE268177 GEOModulating alternative splicing of MECP2: A potential therapeutic strategy for Rett syndrome2026NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqBaylor College of Medicine
GSE268265 GEOGene expression profile at single cell level of human iPSC-derived hippocampal organoids at differentiation day 1542026OrganoidsOrganoidsingle-cell/nucleusscRNA-seqEmory University
GSE273833 GEOTRAF7 Mutations Stabilize K/NRAS and Hyperactivate MAPK Signaling to Cause CAFDADD Neurodevelopmental Defects2026Cortical / excitatoryOrganoids no exact timepointOrganoidbulkbulk RNA-seqShanghai Children’s Hospital, School of Medicine, Shanghai Jiao Tong …
GSE273922 GEOSingle-cell transcriptomic analysis of midbrain organoids of bipolar disorder patients reveals a mechanism of lithium response2026DopaminergicOrganoids no exact timepointOrganoidsingle-cell/nucleusscRNA-seqTsinghua university
GSE274283 GEOBulk RNA sequencing analysis of a iPSC-derived neurons, microglia and astrocytes models of mitochondrial unfolded protein response (UPRmt) activation.2026Other neuronsMicrogliaAstrocytes no exact timepointNot statedbulkbulk RNA-seqInstitut Imagine, INSERM UMR1163
GSE274289 GEOSingle cell analysis of a iPSC-derived glial-neurons triculture model of mitochondrial unfolded protein response (UPRmt) activation.2026Other neuronsMicrogliaAstrocytes no exact timepointNot statedsingle-cell/nucleusscRNA-seqInstitut Imagine, INSERM UMR1163
GSE276377 GEOα-Synuclein blocks endoplasmic reticulum protein translocation in Parkinson’s disease [bulk RNA-seq]2026DopaminergicNot statedbulkbulk RNA-seqUniversity of Oxford
GSE276559 GEOα-Synuclein blocks endoplasmic reticulum protein translocation in Parkinson’s disease [scRNA-seq]2026Dopaminergic2D directed differentiationsingle-cell/nucleusscRNA-seqUniversity of Oxford
GSE277199 GEORole of MicroRNA155 in Hippocampal Neurogenesis and GABAergic Signaling in Alzheimer’s Disease [MIR155 Knockout RNA Sequencing Data]2026Inhibitory no exact timepointNot statedbulkbulk RNA-seqIcahn School of Medicine at Mount Sinai
GSE277200 GEORole of MicroRNA155 in Hippocampal Neurogenesis and GABAergic Signaling in Alzheimer’s Disease [MIR155 Overexpression RNA Sequencing Data]2026Inhibitory no exact timepointMixedbulkbulk RNA-seqIcahn School of Medicine at Mount Sinai
GSE277639 GEOElucidating ADNP Syndrome Gene Dysregulation through a Novel Approach in iPSC-Derived GABAergic Neuron Development2026NGN2 / TF-programmedInhibitory no exact timepointTF programmingsingle-cell/nucleusscRNA-seq+scATAC-seqMount Sinai
GSE277654 GEOCensus of clustered protocaherins in human semi-guided organoids and 1st trimester embryo at single-cell resolution [PCDH_merged]2026OrganoidsOrganoidsingle-cell/nucleusscRNA-seq+scATAC-seqUniversal Sequencing Technology Corp.
GSE277686 GEOCensus of clustered protocaherins in human semi-guided organoids and 1st trimester embryo at single-cell resolution2026OrganoidsOrganoidsingle-cell/nucleusscRNA-seq+multiomeUniversal Sequencing Technology Corp.
GSE278773 GEOBruton's tyrosine kinase inhibitors rescue neuronal impairment caused by B cell-mediated lymphotoxin-α release2026Other neurons no exact timepointNot statedbulkbulk RNA-seqUniversity Medical Center of the Johannes Gutenberg University Mainz
GSE279204 GEOEffects of telomere shortening on cell composition and cell state in 2- and 4-month human semi-guided organoids2026OrganoidsOrganoidsingle-cell/nucleusscRNA-seqUniversal Sequencing Technology Corp.
GSE280179 GEOThe restricted N-glycome of neurons is programmed during differentiation2026NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqUniversity of North Carolina at Chapel Hill
GSE281741 GEOSHANK3 deficiency alters early progenitor dynamics and reveals shared pathways with neurodegeneration2026Other neurons no exact timepointNot statedbulkbulk RNA-seqUniversidade de São Paulo
GSE282152 GEODissecting the transcriptome of Parkin (PRKN)-linked Parkinson’s disease using 2D and 3D hiPSC-neuronal models2026DopaminergicMixedbulkbulk RNA-seqEurac Research
GSE282668 GEOTGF-β signaling promotes astroglial activation and TDP-43 proteinopathy in organoid models of frontotemporal lobar degeneration2026Cortical / excitatoryAstrocytesOrganoidsOrganoidsingle-cell/nucleusscRNA-seqUC San Francisco
GSE282981 GEOA human model of histiocyte associated neurodegeneration2026Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity of Texas at Austin
GSE285967 GEOGene expression profile of human iPSC-derived hippocampal organoids at four developmental stages2026OrganoidsOrganoidbulkbulk RNA-seqEmory University
GSE287254 GEOImpact of 3D-printed perfusable synthetic vasculature on stem-cell based early-stage cerebral organoids2026OrganoidsOrganoidbulkbulk RNA-seqMIT
GSE287509 GEOPropofol Differentially Modulates Neurodevelopmental Processes in Region-Specific Human Brain Organoids2026OrganoidsOrganoidbulkbulk RNA-seqZunyi Medical University
GSE289420 GEOAstrocyte-derived cholesterol drives synaptic gene expression in developing neurons and reciprocal astrocytic transcriptional programs2026NGN2 / TF-programmedCortical / excitatoryAstrocytesTF programming (NGN2)bulkbulk RNA-seqUniversity of Helsinki
GSE289806 GEOEffect of interferon gamma on wild type and SORL1 knockout iPSC-derived microglia2026Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqColumbia University
GSE290048 GEOGeneration of human pineal gland organoids with melatonin production for disease modeling2026OrganoidsOrganoidbulk + single-cellscRNA-seq+bulk RNA-seqYale University
GSE290316 GEOHuman amygdala-like telencephalic organoids from Pluripotent Stem Cells2026OrganoidsOrganoidbulkbulk RNA-seqYale University
GSE290525 GEOHuman microglia remove intraneuronal a-synuclein aggregates in a stem cell model of Parkinson’s disease2026DopaminergicMicroglia no exact timepointMixedsingle-cell/nucleusscRNA-seqUniversity of Oxford
GSE290755 GEOModulation of the DNA/RNA Binding Protein ARID5A Regulates Microglial Activation and Response2026Microglia no exact timepointTF programmingbulkbulk RNA-seqUCSD
GSE291145 GEOModelling glucose neurotoxicity in iPSC-derived dopaminergic neurons and glia cells reveals the neuroprotective potential of p75NTR targeting2026Dopaminergic no exact timepoint2D directed differentiationbulkbulk RNA-seqIMBB-FORTH
GSE293037 GEOBulk transcriptome analysis of wildtype, TREM2 knockout, GPR34 knock-out or TREM2/GPR34 double knock-out iPSC-derived human microglia treated either with PBS or myelin.2026Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqDenali Therapeutics
GSE293169 GEOReprogramming-driven drug discovery uncovers sildenafil as a candidate drug for mitochondrial disease2026OrganoidsOrganoidsingle-cell/nucleussnRNA-seqMax-Delbrück-Center for Molecular Medicine (MDC) in the Helmholtz Association
GSE293298 GEOExpression of synaptic function genes in iPSC-derived induced human neurons2026NGN2 / TF-programmed no exact timepointTF programming (NGN2)single-cell/nucleussnRNA-seqRutgers University
GSE293664 GEOGene expression profile of control and NGB knockdown human cerebral organoids at day 65.2026OrganoidsOrganoidbulkbulk RNA-seqAcademia Sinica
GSE294023 GEOAlternative Anastrozole Target Protects Neurons in Preclinical Models of Inherited Tauopathy2026Cortical / excitatory2D directed differentiationbulkbulk RNA-seqIRCCS Azienda Ospedaliera Metropolitana Policlinico San Martino
GSE294290 GEOThe deubiquitinase OTULIN regulates tau expression in neurons [sAD2.1_WTC11_iPSNs]2026Other neurons no exact timepointNot statedbulkbulk RNA-seqUniversity of New Mexico
GSE295204 GEOTranscriptomic profiling of iPSC-derived microglia(iMGL) reveals FGL2-mediated Aβ uptake impairment and argatroban rescue associated with rs73375428 genotype.2026Microglia no exact timepointNot statedbulkbulk RNA-seqDGIST
GSE295508 GEOMT-targeted MT1/2 orchestrates mitochondrial fusion dynamics-mediated WNT/β-catenin signaling to promote DA neuronal differentiation of human iPS and nerve regeneration in PD mice2026Dopaminergic no exact timepoint2D directed differentiationbulkbulk RNA-seqPeking University Shenzhen Hospital
GSE295687 GEOATF2 phosphorylation is a core transcriptional driver of neuron apoptosis2026NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqNational Institutes of Health
GSE296202 GEOSynaptic effects of interleukin-6 on human iPSC-derived dopaminergic neurons2026Dopaminergic2D directed differentiationbulkbulk RNA-seqEmory University
GSE298622 GEOAutism-relevant oxysterol signaling regulates GABAergic neurogenesis and interneuron subtype specification2026Inhibitory2D directed differentiationbulkbulk RNA-seqCardiff University
GSE298806 GEOInnate immunocompetent iNSpheroids:A hiPSC-derived 3D model to study the central nervous system captures an early CNS response to rAAV2026Other neuronsMicrogliaAstrocytesOPC / oligodendrocytesOrganoids no exact timepointMixedbulkbulk RNA-seqETH Zurich
GSE299019 GEOInnate immunocompetent iNSpheroids: A hiPSC-derived 3D model to study the central nervous system captures an early CNS response to rAAV2026Other neuronsMicrogliaAstrocytesOPC / oligodendrocytesOrganoids no exact timepointMixedsingle-cell/nucleussnRNA-seqETH Zurich
GSE299260 GEOParkinson’s disease microglia induce endogenous α-synuclein pathology in patient specific midbrain organoids.2026Other neuronsMicrogliaOrganoids no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity of Luxembourg
GSE299369 GEOHuman microglia remove intraneuronal a-synuclein aggregates in a stem cell model of Parkinson’s disease [bulk RNA-Seq]2026DopaminergicMicroglia no exact timepointMixedbulkbulk RNA-seqUniversity of Oxford
GSE299717 GEOHuman myeloid ontogeny drives differentiation potential in the brain environment [RNA-seq]2026Microglia no exact timepointXenograftbulkbulk RNA-seqUniversity of Texas at Austin
GSE299790 GEOHuman microglia remove intraneuronal a-synuclein aggregates in a stem cell model of Parkinson’s disease [scRNA-Seq]2026DopaminergicMicroglia no exact timepointMixedsingle-cell/nucleusscRNA-seqUniversity of Oxford
GSE299792 GEOActivating and repressive FOX family proteins regulate HSV-1 chromatin and the lytic-latent balance through epigenetic modulators2026NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqHarvard Medical School
GSE299856 GEOTargeting the STING-NFκB Pathway via BTK Inhibition: A Dual-Mechanism Therapeutic Strategy Mitigating Neuronal and Microglial Dysfunction in Amyotrophic Lateral Sclerosis [scRNA-seq]2026Other neuronsMicroglia no exact timepoint2D directed differentiationsingle-cell/nucleusscRNA-seqPeking Union Medical College Hospital (PUMCH), Peking Union Medical College …
GSE299859 GEOTargeting the STING-NFκB Pathway via BTK Inhibition: A Dual-Mechanism Therapeutic Strategy Mitigating Neuronal and Microglial Dysfunction in Amyotrophic Lateral Sclerosis [RNA-seq]2026MotorMicroglia no exact timepoint2D directed differentiationbulkbulk RNA-seqPeking Union Medical College Hospital (PUMCH), Peking Union Medical College …
GSE299913 GEOSNCA triplication disrupts proteostasis and extracellular architecture prior to neurodegeneration in human midbrain organoids [RNA-seq]2026Other neuronsOrganoidsOrganoidbulkbulk RNA-seqQueen's University Belfast
GSE299954 GEOMeCP2 gene dosage-dependent neurodevelopmentally restricted defects arise by SWI/SNF-mediated aberrant activation of cell fate-determining bivalent genes [RNA-Seq]2026Other neurons no exact timepointNot statedbulkbulk RNA-seqSan Raffaele Scientific Institute
GSE300875 GEOMitochondrial toxins cause widespread downregulation of pathways in X-linked dystonia-parkinsonism patient-derived neurons2026Other neurons no exact timepointNot statedbulkbulk RNA-seqUniversity of Lübeck
GSE301134 GEOLoss of schizophrenia risk gene XPO7 disrupts neuronal excitability and network regularity via altered Na+ channel dynamics in human neurons2026NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqBroad Institute of MIT and Harvard
GSE301365 GEOSingle-cell analysis of human iPSC-derived midbrain organoids generated with triphasic Wnt modulation combined with a dynamic bioreactor2026DopaminergicOrganoidsOrganoidsingle-cell/nucleusscRNA-seqInstitut Imagine, INSERM UMR1163
GSE301408 GEOMitochondrial double-stranded RNA triggers chronic stress in aged neurons2026Other neurons no exact timepointNot statedbulkbulk RNA-seq+RIP-Seq+RiboseqUniversity of Arizona
GSE301700 GEOAutophagy activators normalize aberrant Tau proteostasis and rescue synapses in human familial Alzheimer’s disease iPSC-derived cortical organoids2026Cortical / excitatoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqThe Scripps Research Institute
GSE302350 GEOKMT2D-deficiency destabilizes lineage progression in immature neural progenitors2026OrganoidsOrganoidsingle-cell/nucleussnRNA-seq+scATAC-seq (multiome)Center for Regenerative Medicine
GSE302689 GEONeural Cell Models of Specific Reading Disabilities: Identification of Migration and Transcriptome Alterations2026Other neurons no exact timepointNot statedbulkbulk RNA-seqUHN
GSE303735 GEOUnraveling Single-Cell Regulatory Networks in iPSC-Derived Neurons from Veterans with Gulf War Illness2026Cortical / excitatoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqTexas A&M University
GSE303931 GEOGlobal transcriptional changes across multiple isogenic C9orf72 Patient iPSC-derived neurons2026NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqUMass Chan Medical School
GSE303993 GEODeveloping Midbrain-like Organoid of Gaucher Disease as A Platform for Drug Assessment2026DopaminergicOrganoidsOrganoidbulkbulk RNA-seqCincinnati Children's Hospital Medical Center
GSE304101 GEOLoss of ATM causes R-loop-associated transcriptional dysregulation and attenuates the related response to DNA damage [RNA-Seq]2026Other neurons no exact timepointNot statedbulkbulk RNA-seqEmory University
GSE304324 GEOCaspase inhibition restores dopaminergic identity through the PKA–CREB–BDNF axis in Parkinson’s disease neurons2026Dopaminergic2D directed differentiationbulkbulk RNA-seqMagna Graecia University of Catanzaro
GSE304777 GEOLive-cell transcriptomics with engineered virus-like particles [RNA-seq: iNGN Time-course]2026NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqBoston Children's Hospital
GSE305237 GEOMutation-Agnostic Base Editing of the Progerin Farnesylation Site Rescues Hutchinson-Gilford Progeria Syndrome Phenotypes in Neuromuscular Organoids2026Other neuronsOrganoids no exact timepointOrganoidsingle-cell/nucleusscRNA-seqSeoul National University
GSE305269 GEOSPG11 organoids reveal lysosomal calcium regulation of neural progenitor proliferation2026OrganoidsOrganoidbulkbulk RNA-seqParis Brain Institute - ICM
GSE305401 GEODifferential microglial responses to structurally distinct alpha-synuclein polymorphs2026Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqcedars-sinai medical center
GSE305481 GEOGenome-scale metabolic modelling uncovers cell-type specific signatures associated with APOE variants2026Other neuronsMicrogliaAstrocytes no exact timepointNot statedbulkbulk RNA-seqNatonal Institutes of Health
GSE306153 GEORNA-seq of patient-derived glutamatergic neurons carrying Leigh Syndrome causing compound heterozygous mutations in the SURF1 gene treated with Omaveloxolone.2026NGN2 / TF-programmedCortical / excitatory no exact timepointTF programming (NGN2)bulkbulk RNA-seqTranscripta Bio
GSE306202 GEOModeling Stimulus-Induced Stress Responses in Microglia-like Cells Using a Commercial iPSC-dCas9-KRAB Line2026Microglia2D directed differentiationbulkbulk RNA-seqRush University Medical Center
GSE307049 GEOThe Neuronal Primary Cilium is a Key Regulator of Homeostatic Plasticity2026Other neuronsNot statedbulkbulk RNA-seqRadboudUMC
GSE307429 GEOStem-cell modeling of cerebellar dysfunction of Angelman syndrome2026Other neuronsOrganoids2D directed differentiationbulkbulk RNA-seqInstituto Superior Tecnico
GSE307787 GEOMolecular and Proteomic Profiling of Human Cerebral Organoid‑Derived Small Extracellular Vesicles2026OrganoidsOrganoidbulkbulk RNA-seqIzmir Biomedicine and Genome Center
GSE307960 GEOReproducibility assessment of the hiPSC-derived Brain Spheroid model across multiple laboratories and cell lines2026AstrocytesOPC / oligodendrocytesOrganoidsOrganoidbulkbulk RNA-seqUniversity of Lausanne
GSE308345 GEOSLITRK2 knockdown in human motor neurons rescues axonal and functional neuromuscular deficits in FUS-ALS2026Motor2D directed differentiationbulkbulk RNA-seqUniversity Medical Center Utrecht
GSE308370 GEOPhenotypic Screening of human iPSC-Derived Neurons identifies Thienopyridone as a Neuritogenic Small Molecule2026Cortical / excitatoryOrganoids no exact timepointOrganoidbulkbulk RNA-seqKyoto University
GSE309078 GEOUltrasound-Amplified Exosome Secretion and Antibody-Free SERS Profiling for APOE Genotype-Dependent Signatures2026OrganoidsOrganoidbulkbulk RNA-seqSungkyunkwan University
GSE309354 GEOInflammatory signaling differentially changes chromatin accessibility and gene expression of the PD- associated kinase LRRK2 between human and mice [multiome]2026Microglia no exact timepoint2D directed differentiationsingle-cell/nucleussnRNA-seq+scATAC-seqNational Institutue on Aging, NIH
GSE310131 GEOLong-read proteogenomic atlas of human neuronal differentiation reveals isoform diversity informing neurodevelopmental risk mechanisms2026NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqCentre for Addiction and Mental Health
GSE310490 GEOPTEN variant and genetic backgrounds combine to modify cerebellar neuronal differentiation in autism spectrum disorder2026Other neuronsOrganoidsOrganoidbulkbulk RNA-seqCase Western Reserve University
GSE310722 GEOTDP-43 dysfunction leads to the accumulation of cryptic transposable element-derived exons in iPSC derived neurons and ALS/FTD patient tissues [i3N RNAseq]2026NGN2 / TF-programmedCortical / excitatory no exact timepointTF programming (NGN2)bulkbulk RNA-seqNYU Grossman School of Medicine
GSE310723 GEOTDP-43 dysfunction leads to the accumulation of cryptic transposable element-derived exons in iPSC derived neurons and ALS/FTD patient tissues [i3N isoseq]2026NGN2 / TF-programmedCortical / excitatory no exact timepointTF programming (NGN2)bulkbulk RNA-seqNYU Grossman School of Medicine
GSE310824 GEOHuman neuromodulatory assembloids to study serotonin signaling and disease2026OrganoidsOrganoidsingle-cell/nucleusscRNA-seqStanford University
GSE311009 GEOA human iPSC model of Tauopathies engineered for 4R Tau isoform expression endogenously develops late-stage neuronal Tau pathology2026Cortical / excitatory2D directed differentiationbulkbulk RNA-seqUniversity Hospital LMU Munich
GSE311173 GEOSingle cell transcriptomic characterization of iPSC-derived glial cell co-culture system with added microglia and cytokines2026Other neuronsMicrogliaAstrocytesOPC / oligodendrocytes2D directed differentiationsingle-cell/nucleusscRNA-seqJohns Hopkins University
GSE311240 GEOLong-read proteogenomic atlas of human neuronal differentiation reveals isoform diversity informing neurodevelopmental risk mechanisms.2026NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqCentre for Addiction and Mental Health
GSE312373 GEOGPCR endocytosis rewires neuronal gene expression and cellular architecture2026NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seq+Ribo-seqDuke University
GSE312445 GEOSingle-cell multiomics of neuronal activation reveals context dependent genetic controls of brain disorders2026Cortical / excitatoryInhibitory no exact timepoint2D directed differentiationsingle-cell/nucleusscRNA-seqEndeavor Health
GSE312628 GEOTubulin autoregulation mediator TTC5 regulates neuronal morphology and migration2026NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqNIH
GSE312664 GEOHuman microglia in brain assembloids display region-specific diversity and respond to hyperexcitable neurons carrying SCN2A mutation2026MicrogliaOrganoids no exact timepointOrganoidsingle-cell/nucleusscRNA-seqPurdue University
GSE312740 GEOImmune response to adeno-associated viral vectors in a human iPSC-derived microglia chimeric mouse model2026MicrogliaMixedbulkbulk RNA-seqUCB
GSE313678 GEOProteosome inhibitor repurposing rescues hypomyelination in HIKESHI-associated Leukodystrophy2026OPC / oligodendrocytesNot statedbulkbulk RNA-seqUniversity Colorado Denver
GSE315100 GEOSoluble DLK1 secreted by telomere-shortening-induced senescent microglia impairs oligodendrocyte functions and alters neuronal activity(ipsc_cell)2026Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqWeill Cornell Medicine
GSE315101 GEOSoluble DLK1 secreted by telomere-shortening-induced senescent microglia impairs oligodendrocyte functions and alters neuronal activity [DLK1_snRNA-seq]2026Other neuronsOPC / oligodendrocytes no exact timepointNot statedbulkbulk RNA-seqWeill Cornell Medicine
GSE315126 GEOiPSC-derived forebrain neurons RNA-seq2026Cortical / excitatoryNot statedbulkbulk RNA-seqMayo Clinic
GSE315127 GEOiPSC-derived forebrain organoid bulk RNA-seq2026Cortical / excitatoryOrganoids no exact timepointOrganoidbulkbulk RNA-seqMayo Clinic
GSE315269 GEOThe causes and consequences of human-specific DNA methylation [RNA-Seq]2026DopaminergicNot statedbulkbulk RNA-seqStanford University
GSE315443 GEOMBNL2 dysfunction in outer radial glial cells is associated with disrupted corticogenesis in congenital myotonic dystrophy [scRNA-Seq]2026Cortical / excitatoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqUniversité Laval
GSE315738 GEOEffect of GBA1 deficiency in human iPSC-derived dopaminergic neurons and astrocytes2026DopaminergicAstrocytes no exact timepointNot statedbulkbulk RNA-seqUniversity of Washington
GSE316010 GEOMitochondrially Transcribed dsRNA Mediates Manganese-induced Neuroinflammation2026OrganoidsOrganoidsingle-cell/nucleusscRNA-seqEmory University
GSE316101 GEOHuman spinal interneurons repair the injured spinal cord through synaptic integration [scRNA-seq]2026Inhibitory2D directed differentiationsingle-cell/nucleusscRNA-seqGladstone Institutes
GSE316340 GEOPharmaco-behavioral Profiling Identifies Suppressors of Autism Gene-Associated Phenotypes in Zebrafish2026NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqYale University
GSE316534 GEOModeling Spastic Paraplegia 4 using Human Corticospinal Motor Neuron enriched Cortical Organoids Uncovers Genotype–Phenotype Distinctions and HDAC6-Targetable Pathology2026Cortical / excitatoryMotorOrganoids no exact timepointOrganoidsingle-cell/nucleusscRNA-seqDrexel University
GSE316825 GEONeuronal late endosomes serve as selective RNA hubs disrupted by ALS-linked FUS mutation2026Motor no exact timepointNot statedbulkbulk RNA-seqSapienza University of Rome
GSE318601 GEOEarly differential impact of MeCP2 mutations on functional networks in Rett syndrome patient-derived human cortical organoids [RNA-Seq]2026Cortical / excitatoryOrganoids no exact timepointOrganoidbulkbulk RNA-seqMassachusetts Institute of Technology
GSE318782 GEOPost-transcriptional Regulation Maintains Neurogenic Potential of Human Neural Progenitor Cells2026Cortical / excitatory2D directed differentiationbulkbulk RNA-seqUniversity of Wisconsin-Madison
GSE318818 GEOSingle-cell profiling of limbic excitatory neurons reveals dysregulation of metabolic pathways in Parkinson’s disease2026NGN2 / TF-programmedCortical / excitatory no exact timepointTF programmingbulkbulk RNA-seqUniversity of California San Francisco
GSE319005 GEOIdentification of nHOTAIRM1 RNA interactome through nHOTAIRM1 Native RNA Pulldown in WT iPSC-derived spinal motor neurons2026Motor no exact timepointNot statedbulkbulk RNA-seqSapienza University of Rome
GSE319096 GEOA CRISPR screen in human iPSC-derived neurons reveals convergent transcriptomic effects of neurodevelopmental disorder genes [CRISPR Screen]2026NGN2 / TF-programmedCortical / excitatoryInhibitoryTF programming (NGN2)bulkbulk RNA-seqYale University
GSE319347 GEOHomo sapiens bulk RNA-seq for iMGLs and iMGL-motor neuron co-cultures with cGAS inhibitor2026MotorMicroglia no exact timepoint2D directed differentiationbulkbulk RNA-seqWeill cornell medicine
GSE319859 GEORNA-seq profiling of cerebral organoids derived from CBP mutant iPSCs2026OrganoidsOrganoidbulkbulk RNA-seqVan Andel Institute
GSE319887 GEOFriedreich’s ataxia transcriptomic dysregulation and identification of cell type-specific biomarkers: A systematic review and meta-analysis2026Other neuronsNot statedbulkbulk RNA-seqUniversity of Wollongong
GSE320222 GEOscRNA-seq of cerebral organoids derived from CBP mutant iPSCs2026OrganoidsOrganoidsingle-cell/nucleusscRNA-seqVan Andel Institute
GSE322198 GEOFemale iPSC X-chromosome inactivation (XCI) erosion and its transcriptomic effects during CRISPR gene editing and neural differentiation2026Other neurons no exact timepointNot statedbulkbulk RNA-seqEndeavor Health
GSE323384 GEOBulk RNAseq in control and LACTB KO iPSC-derived microglia2026Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqIcahn School of Medicine at Mount Sinai
GSE323982 GEOMEF2C controls lysosomal and lipid clearance programs linked to Alzheimer’s disease risk in macrophagesm [scRNAseq_WTC11_iMGL_ReN]2026Other neuronsMicroglia no exact timepoint2D directed differentiationbulkbulk RNA-seqIcahn School of Medicine at Mount Sinai
GSE323984 GEOMEF2C controls lysosomal and lipid clearance programs linked to Alzheimer’s disease risk in macrophages [bulkRNAseq_WTC11_iMGL]2026Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqIcahn School of Medicine at Mount Sinai
GSE324006 GEOMEF2C controls lysosomal and lipid clearance programs linked to Alzheimer’s disease risk in macrophages [scRNA-seq]2026Microglia no exact timepoint2D directed differentiationsingle-cell/nucleusscRNA-seqIcahn School of Medicine at Mount Sinai
GSE324010 GEONeutralization of Pathogenic PC-OxPL by AAV-Delivered scFv as a Therapeutic Strategy for Amyotrophic Lateral Sclerosis2026Motor no exact timepoint2D directed differentiationbulkbulk RNA-seqVectorY BV
GSE324301 GEOMitochondrial DNA heteroplasmy drives cortical neuronal disturbances in human organoids harbouring the common m.3243A>G mutation2026Cortical / excitatoryOrganoids no exact timepointOrganoidbulkbulk RNA-seqUniversity of Cambridge
GSE324347 GEOR-loop landscapes in the developing human brain are linked to neural differentiation and cell type-specific transcription [RNA-seq]2026Other neurons2D directed differentiationbulkbulk RNA-seqIcahn School of Medicine at Mount Sinai
GSE324494 GEOReduced LACTB expression in myeloid cells is associated with elevated succinyl-carnitine levels and reduced Alzheimer’s disease risk2026Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqIcahn School of Medicine at Mount Sinai
GSE324751 GEOA scalable human-zebrafish xenotransplantation model reveals gastrosome-mediated processing of dying neurons by human microglia2026Microglia2D directed differentiationbulkbulk RNA-seqETH Zurich
GSE324908 GEOAlternative splicing-triggered mRNA decay informs splice-switching targets for neurodevelopmental disorders2026NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqUniversity of Chicago
GSE324961 GEOmicroRNA-132 attenuates inflammation in induced pluripotent stem-cell derived microglia from Alzheimer’s disease patients2026Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqNetherlands Institute For Neuroscience
GSE325168 GEOBase editing restores CDKL5 expression and rescues neuronal deficits in a patient-derived model of CDKL5 deficiency disorder2026NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqThe Chinese University of Hong Kong
GSE325791 GEOChronic manganese exposure with and without latency period in hiPSC-derived cortical cultures2026Cortical / excitatory2D directed differentiationbulkbulk RNA-seqPurdue University
GSE325828 GEOCorticothalamic assembloids recapitulate human fetal brain morphologies and enhance neuronal complexity2026OrganoidsOrganoidbulkbulk RNA-seqUniversity of Campinas – UNICAMP
GSE326002 GEOA Scalable Human Brain Cell Atlas Dissects the Microglial Immune Codes and Cognitive Resilience2026Microglia2D directed differentiationbulkbulk RNA-seqThe Cleveland Clinic Research
GSE326006 GEOConvection-enhanced delivery of dexamethasone in glioma models suppresses myeloid inflammation while avoiding systemic toxicities2026Microglia no exact timepointNot statedbulkbulk RNA-seqColumbia University
GSE327314 GEOR-loop landscapes in the developing human brain are linked to neural differentiation and cell type-specific transcription [scRNA-seq]2026Other neurons2D directed differentiationsingle-cell/nucleusscRNA-seqIcahn School of Medicine at Mount Sinai
GSE327711 GEOGPR34 regulation of disease-associated microglial states in iMGL2026MicrogliaNot statedbulkbulk RNA-seqBroad Institute
GSE328042 GEORNA-seq profiling of iPSC-derived microglia (iMicroglia) with wild-type or GPNMB knockout genotype2026Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity of Pennsylvania
GSE328854 GEOAncestry-Specific Structural Variation at 17q21.31 Reveals a Novel H1 Sub-Haplotype and Functional Effects on Tau Biology2026Other neuronsAstrocytes no exact timepointNot statedbulkbulk RNA-seqIcahn School of Medicine at Mount Sinai
GSE329288 GEOMulti-omics profiling reveals convergent MAGEL2-driven defects in human corticogenesis across Prader-Willi and Schaaf-Yang syndromes.2026Cortical / excitatory2D directed differentiationbulkbulk RNA-seqHeidelberg University
GSE329743 GEOEther lipid remodeling during neuronal differentiation prevents ferroptosis2026NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqEPFL
GSE329848 GEOSTX1B Variant-Specific Synaptic Dysfunction Drives Network Hyperexcitability in Human iPSC-derived Neurons2026Cortical / excitatory no exact timepointNot statedbulkbulk RNA-seqUniversity of Tuebingen
GSE329931 GEODNA repair drives cisplatin-induced neuronal death [RNA-Seq]2026NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqNational Institutes of Health
GSE330092 GEO3D organoids containing endothelial and neural cells generation by serial inductions of differentiation on human iPSC-derived embryoid bodies2026Other neuronsOrganoids no exact timepointOrganoidbulkbulk RNA-seqNINDS/NIH
GSE330098 GEOMulti-tissue microphysiological system captures integrated responses to nutritional overload and metabolic therapy2026DopaminergicOrganoids no exact timepointOrganoidbulkbulk RNA-seqJohns Hopkins All Children's Hospital
GSE331298 GEOElectromagnetic modulation of the ALS transcriptome: towards a non-drug molecular cure2026Motor no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity Medical Center Rostock
GSE331395 GEOReplicative senescence in neural progenitors induces senescence-associated markers in midbrain organoids2026Other neuronsAstrocytesOrganoids no exact timepointNot statedbulkbulk RNA-seqMaastricht University
GSE332551 GEODisease-associated RNA and protein signatures in iPSC-derived microglia model of Alzheimer’s disease2026Microglia no exact timepointNot statedbulkbulk RNA-seq+small RNA-seqUniversity of Texas Medical Branch
GSE332573 GEOpolyA plus RNA-seq from bipolar neuron (ENCSR023VVO)2026Other neurons no exact timepointNot statedbulkbulk RNA-seqENCODE DCC
GSE334034 GEOTargeting mitochondrial ROS-CK2-SET-PP2A pathway with ceria nanoparticles to reverse Tau pathology in APOEε4-associated Alzheimer’s disease [RNA-seq]2026Other neuronsNot statedbulkbulk RNA-seqUniversity
GSE334035 GEOTargeting mitochondrial ROS-CK2-SET-PP2A pathway with ceria nanoparticles to reverse Tau pathology in APOEε4-associated Alzheimer’s disease [scRNA-seq]2026Other neuronsOrganoidsOrganoidsingle-cell/nucleusscRNA-seqUniversity
GSE334412 GEOBrain corticogenesis promotes SARS-CoV-2 neuro-glial tropism through lipid-dependent viral replication2026OrganoidsOrganoidsingle-cell/nucleussnRNA-seqYeungnam University
GSE334981 GEOCortical organoids reveal human-specific role of METTL5 in neurodevelopment via regulation of CHCHD2 [scRNA-seq]2026OrganoidsOrganoidsingle-cell/nucleusscRNA-seqUCSF
GSE335200 GEOMicroglia integrated neural spheroids enable neuroinflammatory responses and correct network dysfunction induced by alpha-synuclein mutation.2026Cortical / excitatoryInhibitoryDopaminergicMicrogliaAstrocytesOrganoids no exact timepointMixedbulkbulk RNA-seqNIH (National Institutes of Health)
GSE335293 GEOAn African Ancestry–Enriched H1 Sub-Haplotype Challenges MAPT Haplotype Assignment and Reveals Distinct Tau Regulatory Programs2026Other neurons no exact timepointNot statedbulkbulk RNA-seqIRCCS Azienda Ospedaliera Metropolitana Policlinico San Martino
GSE335887 GEOTranscriptional regulation of disease-relevant microglial activation programs2026MicrogliaMixedsingle-cell/nucleusscRNA-seqUniversity of California, San Francisco
GSE335920 GEOEffects of therapeutic acetaminophen exposure on human cortical organoid development [RNA-seq]2026OrganoidsOrganoidbulkbulk RNA-seqUCSD
GSE335985 GEOEffects of therapeutic acetaminophen exposure on human cortical organoid development [snRNA-seq]2026Cortical / excitatoryOrganoidsOrganoidsingle-cell/nucleussnRNA-seqUCSD
GSE336697 GEOA thioredoxin-Serinc2-lipid signaling axis modulates mood-related behaviors in mice2026Cortical / excitatoryOrganoids no exact timepointOrganoidbulkbulk RNA-seqShandong First Medical University
GSE337397 GEOKCNQ1 regulates human neuronal development through mitochondrial and insulin signalling pathways2026Cortical / excitatory no exact timepoint2D directed differentiationbulkbulk RNA-seqRadboud University Medical Center
GSE337924 GEOiPSC Neurodegenerative Disease Initiative isogenic CAG repeat iPSC line for Huntington’s disease2026Other neurons no exact timepointNot statedbulkbulk RNA-seqUC Irvine
GSE338530 GEOAPOE4 disrupts the central dogma by arresting neuronal proteome dynamics2026Other neurons2D directed differentiationbulkbulk RNA-seq+Ribo-seqUCSF
GSE338592 GEOIsogenic Human Stem Cell Models Reveal Mutation-Dependent Protective Mechanisms of APOE3 Christchurch2026Other neuronsAstrocytes no exact timepointMixedbulkbulk RNA-seqArizona State University
GSE338964 GEOComputational modeling and preclinical evaluation support targeting somatic instability for Huntington’s disease treatment.2026Other neurons no exact timepointNot statedbulkbulk RNA-seqLatus Bio
GSE339404 GEOBulk RNA sequencing of human forebrain organoids following Aβ42 treatment2026OrganoidsOrganoidbulkbulk RNA-seqTsinghua University
GSE339528 GEODevelopment and validation of a long-term co-maturation protocol for human stem cell-derived microglia and neuronal networks2026Other neuronsMicrogliaAstrocytesMixedsingle-cell/nucleusscRNA-seqRadboud University
GSE339602 GEOSingle-cell RNA sequencing of human iPSC-derived forebrain organoids following amyloid-β42 treatment, microglia co-culture, and maraviroc treatment2026MicrogliaOrganoidsMixedsingle-cell/nucleusscRNA-seqTsinghua University
GSE341485 GEOHeterogeneous epigenetic variation converges on splicing dysregulation in opioid addiction2026Inhibitory no exact timepoint2D directed differentiationbulkbulk RNA-seqWhitehead Institute for Biomedical Research
GSE342463 GEOCholesterol-mediated Lysosomal Dysfunction in APOE4 Astrocytes Promotes α-Synuclein Pathology in miBrains, a Human iPSC-derived Brain Tissue2026Other neuronsAstrocytesOrganoidsOrganoidsingle-cell/nucleussnRNA-seqIcahn School of Medicine at Mount Sinai
GSE343367 GEOJAX scRNAseq Study01- Single-cell RNA sequencing of male KOLF2.2J hiPSC-derived cortical brain organoids homozygous null for PAX62026OrganoidsOrganoidsingle-cell/nucleusscRNA-seqEMBL-EBI
GSE344273 GEOCACNA1C genetic variants differentially affect neuronal networks through divergent pathways2026Cortical / excitatory2D directed differentiationbulkbulk RNA-seqCardiff University
GSE344875 GEOIntegrative synaptosome multi-omics reveals disrupted synapse organization and localized cryptic transcripts in C9ORF72-Frontotemporal Dementia2026Cortical / excitatory no exact timepointNot statedbulkbulk RNA-seqTGen
GSE345799 GEOSex Steroid Hormone Signaling Tunes Metabolic and Neuronal Programs in Human Cortical Development2026NGN2 / TF-programmedCortical / excitatoryOrganoids no exact timepointTF programming (NGN2)bulkbulk RNA-seqNYU Langone
GSE348131 GEOA deep cellular atlas of the human ventral substantia nigra in Parkinson's identifies a genetic and molecular overlap with insulin resistance [ipsc-DaNs]2026Dopaminergic no exact timepointNot statedbulkbulk RNA-seqCardiff University
GSE348515 GEOMechanistic model-driven exometabolomic characterisation of human dopaminergic neuronal metabolism.2026Dopaminergic no exact timepoint2D directed differentiationbulkbulk RNA-seqLaboratoire national de santé
GSE348944 GEODynamic landscapes of gene regulatory networks in early mammalian neurogenesis: Insights into brain evolution and disorder risk2026OrganoidsOrganoidbulkbulk RNA-seqUniversity of Wisconsin - Madison
GSE349065 GEOsc-RNA-seq human cerebral organoid at D442026OrganoidsOrganoidsingle-cell/nucleusscRNA-seqKU Leuven
GSE350046 GEOLoss of schizophrenia and bipolar disorder risk gene Akap11 disrupts astrocyte lipid metabolism and increases neuronal activity [Akap11astro_neuron_coculture_bulkRNAseq]2026Other neuronsAstrocytesMixedbulkbulk RNA-seqBroad Institute of MIT and Harvard
GSE350712 GEOComparative evaluation of UBE3A-ATS targeting ASOs in a novel humanized mouse and human patient-derived models of Angelman syndrome2026Other neuronsOrganoids no exact timepointOrganoidbulkbulk RNA-seqHoffmann-La Roche
E-MTAB-14352 ArrayExpressRNA-seq of subcellular neuronal compartments2025Motor2D directed differentiationbulkbulk RNA-seqBerlin Institute for Medical Systems Biology
E-MTAB-14354 ArrayExpressRNA-seq of subcellular neuronal compartments of ALS model2025Motor no exact timepoint2D directed differentiationbulkbulk RNA-seqBerlin Institute for Medical Systems Biology
E-MTAB-14359 ArrayExpressRNA-seq of differentiation stages of motor neurons2025Motor2D directed differentiationbulkbulk RNA-seqBerlin Institute for Medical Systems
E-MTAB-14537 ArrayExpressRNA-sequencing using SLAM-sequencing protocol of human iPSC-derived lower motor neurons treated with BDNF for 1, 2, 6 h2025NGN2 / TF-programmedMotorTF programmingbulkbulk RNA-seqUniversity College London
E-MTAB-14543 ArrayExpressAscorbic Acid Ameliorates Molecular and Developmental Defects in Human Induced Pluripotent Stem Cell and Cerebral Organoid Models of Fragile X Syndrome2025OrganoidsOrganoidbulkbulk RNA-seqThe Azrieli Center for Stem Cells and Genetic Research Department of Genetics …
E-MTAB-14891 ArrayExpressscRNA-seq of motor neuron and microglia co-cultures derived from C9ORF72 HRE iPSCs (ALS patient), C9ORF72 KO iPSCs and control iPSCs in unstimulated and LPS stimulated conditions2025MotorMicroglia no exact timepointMixedsingle-cell/nucleusscRNA-seqAstex Pharmaceuticals Astex Pharmaceuticals
E-MTAB-15057 ArrayExpressscRNAseq datasets of human brain organoids generated for the manuscript "Morphodynamics of human early brain organoids2025OrganoidsOrganoidsingle-cell/nucleusscRNA-seqDepartment of Biosystems Science and Engineering, ETH Zürich, Basel …
E-MTAB-15308 ArrayExpressiPS2-10X-seq Neural organoid differentiation2025Cortical / excitatoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqDipartimento di Biotecnologie cellulari e scienze della salute
E-MTAB-16227 ArrayExpressMitochondria structure and function in OCRL depleted cells2025Other neuronsNot statedbulkbulk RNA-seqNational Centre for Biological Sciences-TIFR, Bengaluru
E-MTAB-16805 ArrayExpressSingle cell short- and long-read RNA-sequencing of iNeurons in Fragile-X and control cell-lines2025NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulk + single-cellscRNA-seq+bulk RNA-seqKAIST
GSE155661 GEOFragile X Syndrome Patient-Derived Neurons Developing in the Mouse Brain Show FMR1-Dependent Phenotypes2025Other neuronsXenograftsingle-cell/nucleusscRNA-seqUniversity of Leeds
GSE197454 GEONGLY1 mutations cause protein aggregation in human neurons2025NGN2 / TF-programmedCortical / excitatoryAstrocytesTF programming (NGN2)bulkbulk RNA-seqSalk Institute for Biological Studies
GSE199241 GEOZCCHC17 modulates neuronal RNA splicing and supports cognitive resilience in Alzheimer’s disease2025Other neurons no exact timepointNot statedbulkbulk RNA-seqColumbia University Irving Medical Center
GSE202894 GEOFragile X Syndrome Patient-Derived Neurons Developing in the Mouse Brain Show FMR1-Dependent Phenotypes2025Other neuronsXenograftbulkbulk RNA-seqUniversity of Leeds
GSE203201 GEOPremature neural differentiation in cerebral organoids derived from early-onset autism individuals in a birth cohort2025OrganoidsOrganoidsingle-cell/nucleusscRNA-seqNanjing medical university
GSE206602 GEOTranscriptomic and chromatin profiling of familial Alzheimer’s disease mutations in PSEN1, PSEN2, APP [RNA-seq]2025Other neurons no exact timepointNot statedbulkbulk RNA-seqUniversity of California, San Diego
GSE212502 GEOGene expression profile at single cell level of brain organoid at day56 of ctrl and WS [scRNA-seq]2025Cortical / excitatoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqzhejiang university
GSE214951 GEOMachine-guided cell-fate engineering2025MicrogliaAstrocytesTF programmingbulkbulk RNA-seqColossal Biosciences
GSE215362 GEODual developmental effects of ARX poly-alanine mutations in human cortical excitatory and inhibitory neurons2025Cortical / excitatoryInhibitoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqUniversity of Texas at San Antonio
GSE222754 GEOGene expression profiles of human iPSC-derived microglia in different culture conditions [Bulk RNAseq]2025Microglia2D directed differentiationbulkbulk RNA-seqWhitehead Institute for Biomedical Research
GSE224475 GEOETMR stem-like state and chemo-resistance are supported by perivascular cells at single-cell resolution (human+murine organoids subset)2025OrganoidsOrganoidbulkbulk RNA-seqWestfälische Wilhelms-Universität Münster
GSE224476 GEOETMR stem-like state and chemo-resistance are supported by perivascular cells at single-cell resolution (human organoids subset)2025OrganoidsOrganoidbulkbulk RNA-seqWestfälische Wilhelms-Universität Münster
GSE226477 GEOBulk RNA-seq of neuromuscular system models generated from human induced pluripotent stem cells (hiPSCs)2025Other neuronsOrganoidbulkbulk RNA-seqUniversity of Bologna
GSE226482 GEOSingle cell RNA sequencing of spinal motor neurons and interneurons differentiated from isogenic FUS and TARDBP human induced pluripotent stem cell lines harbouring ALS-causative mutations2025InhibitoryMotor no exact timepoint2D directed differentiationsingle-cell/nucleusscRNA-seqStockholm University
GSE229095 GEOSwift Induction of Human Spinal Lower Motor Neurons and Robust ALS Cell Screening via Single-Cell Imaging2025MotorMixedbulkbulk RNA-seqUniversity of Tokyo
GSE232646 GEOTranscriptomic Characterization Reveals Disrupted Medium Spiny Neuron Trajectories in Huntington's Disease and Possible Therapeutic Avenues [bulk RNA-seq]2025Inhibitory no exact timepoint2D directed differentiationbulkbulk RNA-seqBuck Institute
GSE232647 GEOTranscriptomic Characterization Reveals Disrupted Medium Spiny Neuron Trajectories in Huntington's Disease and Possible Therapeutic Avenues [Bulk RNA-seq treated with Cerulenin]2025Inhibitory no exact timepoint2D directed differentiationbulkbulk RNA-seqBuck Institute
GSE232648 GEOTranscriptomic Characterization Reveals Disrupted Medium Spiny Neuron Trajectories in Huntington's Disease and Possible Therapeutic Avenues [scRNA-seq]2025Inhibitory no exact timepoint2D directed differentiationsingle-cell/nucleusscRNA-seqBuck Institute
GSE233261 GEORNA Sequencing of induced pluripotent stem cell derived motor neurons from C9orf72 hexanucleotide repeat expansion carriers and controls2025Motor2D directed differentiationbulkbulk RNA-seqUniversity of Oxford
GSE236482 GEOMolecular signatures of hyperexcitability and lithium responsiveness in bipolar disorder patient neurons provides alternative therapeutic strategies2025Other neuronsNot statedbulkbulk RNA-seqMcGill University
GSE236595 GEOAn antisense oligonucleotide-based strategy to ameliorate cognitive dysfunction in the 22q11.2 Deletion Syndrome [RNA-seq]2025Cortical / excitatory no exact timepointNot statedbulkbulk RNA-seqColumbia University
GSE237165 GEOGenomic and transcriptomic profiles underlying the effect of SETD1A disruption on human neurodevelopmental trajectories2025Cortical / excitatoryOrganoidsOrganoidbulkbulk RNA-seqColumbia University
GSE239369 GEOSingle cell transcriptional profile of Zika-infected iPSC-derived neural cells2025Other neuronsNot statedsingle-cell/nucleusscRNA-seqUniversity of Minnesota
GSE239864 GEOGenomic and transcriptomic profiles underlying the effect of SETD1A disruption on human neurodevelopmental trajectories (scRNA-Seq)2025Cortical / excitatoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqColumbia University
GSE243254 GEOAddressing human astrogliosis in a human iPSC-derived 3D CNS model2025Other neuronsAstrocytesOPC / oligodendrocytesOrganoids no exact timepointOrganoidbulkbulk RNA-seqETH Zurich
GSE244189 GEOTranscriptomic analysis of ASD and IDD associated pathogenic MYT1L S707Q mutation in human cortical interneurons2025Cortical / excitatoryInhibitory2D directed differentiationbulkbulk RNA-seqWashington University School of Medicine
GSE244440 GEOA human-specific microRNA controls the timing of excitatory synaptogenesis (time course ribozero)2025Cortical / excitatoryMixedbulkbulk RNA-seqETH Zürich
GSE244441 GEOA human-specific microRNA controls the timing of excitatory synaptogenesis (pLNA dataset)2025NGN2 / TF-programmedCortical / excitatoryTF programmingbulkbulk RNA-seqETH Zürich
GSE244444 GEOA human-specific microRNA controls the timing of excitatory synaptogenesis2025NGN2 / TF-programmedCortical / excitatoryTF programmingbulkbulk RNA-seq+otherETH Zürich
GSE247456 GEOA programmed decline in ribosome levels governs human early neurodevelopment2025OrganoidsOrganoidbulkbulk RNA-seqUniversity of Texas Southwestern Medical Center
GSE247790 GEOAberrant splicing exonizes C9ORF72 repeat expansion in ALS/FTD2025Motor no exact timepointNot statedbulkbulk RNA-seqYale University
GSE248505 GEObulkRNA-SEQ OF MECP2 AND MECP2T203M D30 cerebral organoids.2025OrganoidsOrganoidbulkbulk RNA-seqBeijing Institute of Basic Medical Sciences
GSE248507 GEOscRNA-SEQ OF MECP2 AND MECP2T203M D30 cerebral organoids.2025OrganoidsOrganoidsingle-cell/nucleusscRNA-seqBeijing Institute of Basic Medical Sciences
GSE249572 GEOHuman neuron subtype programming through combinatorial patterning with scSeq readouts2025NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulk + single-cellbulk RNA-seq+scRNA-seq+multiomeETH Zurich
GSE250616 GEOCannabinoid Receptor 2 Agonists Attenuate HIV Replication and Inflammatory Activation in HIV-infected Myeloid Cells2025Microglia no exact timepointNot statedbulkbulk RNA-seqUniversity of Pennsylvania, School of Dental Medicine
GSE253508 GEOBMP, MEK and WNT modulation with NGN2 expression for rapid neuron differentiation from hiPSC amenable to regional patterning [BMWi]2025NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqAbbVie Deutschland GmbH & Co. KG
GSE253509 GEOBMP, MEK and WNT modulation with NGN2 expression for rapid neuron differentiation from hiPSC amenable to regional patterning [BMWi_freeze]2025NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqAbbVie Deutschland GmbH & Co. KG
GSE253647 GEOBone morphogenetic protein increases tau phosphorylation and secretion in tauopathies in an APOE dependent manner2025NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqNorthwestern University
GSE253820 GEOAAV vectors trigger neurotoxic DNA damage responses and STING-dependent inflammation in human CNS cells [RNA-seq]2025Other neuronsAstrocytes no exact timepointNot statedbulkbulk RNA-seqSR-TIGET
GSE253821 GEOAAV vectors trigger neurotoxic DNA damage responses and STING-dependent inflammation in human CNS cells [scRNAseq_dataset1]2025Other neuronsAstrocytesOPC / oligodendrocytes no exact timepointMixedsingle-cell/nucleusscRNA-seqSR-TIGET
GSE253822 GEOAAV vectors trigger neurotoxic DNA damage responses and STING-dependent inflammation in human CNS cells [scRNAseq_dataset2]2025Other neuronsAstrocytesOPC / oligodendrocytesOrganoids no exact timepointOrganoidsingle-cell/nucleusscRNA-seqSR-TIGET
GSE253823 GEOAAV vectors trigger neurotoxic DNA damage responses and STING-dependent inflammation in human CNS cells [scRNAseq_dataset3]2025Other neuronsAstrocytesOrganoids no exact timepointOrganoidbulkbulk RNA-seqSR-TIGET
GSE253940 GEOGene expression profile of control and NGB knockdown human cerebral organoids at day 24 and 352025OrganoidsOrganoidbulkbulk RNA-seqAcademia Sinica
GSE255033 GEOADCY1-mediated cAMP signaling pathway mediates the neuropsychiatric effects of montelukast2025OrganoidsOrganoidbulkbulk RNA-seqThe First Affiliated Hospital of University of South China
GSE255538 GEOPILRA regulates microglial neuroinflammation and lipid metabolism as a candidate therapeutic target for Alzheimer’s disease2025MicrogliaXenograftbulkbulk RNA-seqDenali Therapeutics
GSE255588 GEOHypoxia dysregulates circadian rhythm and causes synapse elimination defects in astrocytes2025Cortical / excitatoryAstrocytesOrganoidsOrganoidbulkbulk RNA-seqEmory University
GSE255602 GEOStem cell derived spinal cord chips reproduce disease biomarkers in sporadic ALS patients [bulk RNAseq]2025Motor no exact timepoint2D directed differentiationbulkbulk RNA-seqCedars-Sinai Medical Center
GSE255605 GEOStem cell derived spinal cord chips reproduce disease biomarkers in sporadic ALS patients [snRNAseq]2025Motor no exact timepointMixedbulkbulk RNA-seqCedars-Sinai Medical Center
GSE255658 GEOEffects of lipopolysaccharide (LPS) or interferon gamma (IFNy) treatment on wild type or PILRA knock-out iPSC-derived human microglia after 24 hours2025Microglia2D directed differentiationbulkbulk RNA-seqDenali Therapeutics
GSE256142 GEOVariability vs. phenotype: Multimodal analysis of Dravet syndrome brain organoids powered by deep learning2025OrganoidsOrganoidbulkbulk RNA-seqUniversity of Barcelona
GSE259298 GEOSingle-nucleus multi-omics identifies shared and distinct pathways in Pick’s and Alzheimer’s disease2025Other neuronsNot statedbulk + single-cellbulk RNA-seq+snRNA-seq+snATAC-seqUCI
GSE259430 GEOHuman iPSC-derived cell grafts promote functional recovery by molecular interaction with stroke-injured brain2025Other neuronsAstrocytes no exact timepointXenograftsingle-cell/nucleussnRNA-seqUniversity of Southern California
GSE261878 GEOA systems-biology approach connects aging mechanisms with Alzheimer’s disease pathogenesis2025NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqMassachusetts Institute of Technology
GSE263736 GEODevelopment of an AAV-RNAi strategy to silence the dominant variant GNAO1 c.607G>A linked to encephalopathy2025Inhibitory no exact timepointNot statedbulkbulk RNA-seqInstitute of Gene Biology
GSE263809 GEOChromatin accessibility mapping for functional GWAS risk variants of neuropsychiatric and neurodegenerative disorders in hiPSC-derived neural cells2025Other neuronsMicroglia no exact timepointNot statedbulkbulk RNA-seqNorthShore University HealthSystem
GSE263847 GEOTranscriptomic and epigenomic consequences of heterozygous loss-of-function mutations in AKAP11, a shared risk gene for bipolar disorder and schizophrenia [RNA-seq]2025Other neurons no exact timepointNot statedbulkbulk RNA-seqCanadian Centre for Computational Genomics (C3G)
GSE264097 GEOSingle cell RNA sequencing profile of 60 day old human iPSC-derived midbrain organoids from healthy individual, Parkinson’s disease patient (Miro1 p.R272Q mutation) and its isogenic control2025DopaminergicAstrocytesOrganoidsOrganoidsingle-cell/nucleusscRNA-seqUniversity of Luxembourg
GSE266031 GEOThe chromatin remodeler CHD1L controls human cortical neurogenesis and contributes to distal 1q21.1 deletion/duplication syndrome [scMultiome]2025OrganoidsOrganoidsingle-cell/nucleussnRNA-seq+multiomeIGBMC (CNRS/INSERM/UDS)
GSE266155 GEODeciphering the Neurological Puzzle in ALG13-CDG Through Cutting-Edge Brain Organoid Modeling.2025Cortical / excitatoryOrganoids no exact timepointOrganoidsingle-cell/nucleusscRNA-seqMount Sinai
GSE266459 GEORewired m6A methylation of promoter antisense RNAs in Alzheimer’s disease regulates neuronal gene expression in the 3D nucleome 2025NGN2 / TF-programmedCortical / excitatory no exact timepointTF programming (NGN2)bulkbulk RNA-seqUniversity of Texas Health Science Center at Houston
GSE266943 GEOA humanized neuronal model system reveals key roles for the trace element manganese in neuronal endocytosis, calcium flux and mitochondrial bioenergetics2025Dopaminergic2D directed differentiationbulkbulk RNA-sequniversity college london
GSE266958 GEOPathogenic PPP2R5D variants alters the transcriptome of patient iPSC-derived glutamatergic neurons2025NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqBoston Children's Hospital
GSE267510 GEOMutant GFAP alters lineage commitment of neural organoids [AxDorganoids_bulk_experiment1]2025OrganoidsOrganoidbulkbulk RNA-seqInstitute of Biotechnology of the Czech Academy of Sciences
GSE267990 GEOMutant GFAP alters lineage commitment of neural organoids [AxDorganoids_bulk_experiment2]2025OrganoidsOrganoidbulkbulk RNA-seqInstitute of Biotechnology of the Czech Academy of Sciences
GSE268090 GEODysregulation of synaptic transcripts underlies network abnormalities in ALS patient-derived motor neurons2025MotorNot statedbulkbulk RNA-seqNTNU
GSE269254 GEOIn vivo intratumoral Heterogeneity in a dish: Scalable Forebrain Organoid Models of Embryonal Brain Tumors for High-Throughput Personalized Drug Discovery (human organoids+cell lines subset 1)2025OrganoidsOrganoidsingle-cell/nucleusscRNA-seqWestfälische Wilhelms-Universität Münster
GSE270436 GEOTranscriptional and epigenetic targets of MEF2C in human microglia contribute to cellular functions related to autism risk and age-related disease2025Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity of Texas at Austin
GSE271767 GEOInactivation of DET1 causes neurological defects and lethality in mice and humans II2025Other neurons2D directed differentiationbulkbulk RNA-seqRoche
GSE271853 GEODevelopmental convergence and divergence in human stem cell models of autism spectrum disorder2025OrganoidsOrganoidbulkbulk RNA-seqUCLA School of Medicine
GSE271965 GEOEarly Developmental Origins of Cortical Disorders Modeled in Human Neural Stem Cells [bulk RNA-seq]2025Cortical / excitatory2D directed differentiationbulkbulk RNA-seqInstitut Hospital del Mar d'Investigacions Mèdiques
GSE271968 GEOEarly Developmental Origins of Cortical Disorders Modeled in Human Neural Stem Cells [scRNA-seq]2025Cortical / excitatory2D directed differentiationsingle-cell/nucleusscRNA-seqInstitut Hospital del Mar d'Investigacions Mèdiques
GSE272186 GEOMicroglia-astrocyte interplay mitigates Aβ toxicity in a novel human 3D neurosphere model of Alzheimer’s Disease2025Other neuronsMicrogliaAstrocytesOrganoids no exact timepointOrganoidsingle-cell/nucleussnRNA-seqUniversity of British Columbia
GSE272994 GEOUBQLN2 Links Proteotoxicity with Lipid Metabolism in Neurodegeneration2025Motor no exact timepoint2D directed differentiationbulkbulk RNA-seqJohns Hopkins
GSE273180 GEOscRNA-seq of human cerebral organoids derived from healthy and FOXG1 syndrome patients iPSCs at d1052025OrganoidsOrganoidsingle-cell/nucleusscRNA-seqUniversity of Freiburg
GSE273575 GEOInhaled Xenon modulates microglia and ameliorates disease in mouse models of amyloidosis and tauopathy [Xenon-iMGL in vitro]2025Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqBrigham and Women's Hospital
GSE274038 GEOSubnuclear genome compartmentalization controls bivalent chromatin activity2025Other neurons no exact timepointNot statedbulkbulk RNA-seqUCSF
GSE274039 GEOSubnuclear genome compartmentalization controls bivalent chromatin activity [RNA-seq]2025NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqUCSF
GSE274722 GEODefective DcpS Decapping Manifests in Creatine Deficiency Syndrome and Neurological impairment2025NGN2 / TF-programmedCortical / excitatory no exact timepointTF programmingbulkbulk RNA-seqRutgers University
GSE274912 GEOEnhanced differentiation of Alzheimer's disease neural progenitor cells into vulnerable immature neurons2025Other neurons no exact timepoint2D directed differentiationbulkbulk RNA-seqYonsei University
GSE275473 GEOModeling extrahepatic hepatitis E virus infection in induced human primary neurons2025Other neurons2D directed differentiationbulkbulk RNA-seqRuhr University Bochum
GSE276494 GEOCACNA1A loss-of-function mutations affect neurogenesis in different ways in human iPSC-derived neural models2025Other neurons no exact timepointNot statedsingle-cell/nucleusscRNA-seqIRCCS Istituto Giannina Gaslini
GSE276684 GEODeciphering shared molecular dysregulation across Parkinson's Disease variants using a multi-modal network-based data integration and analysis2025Other neuronsOrganoidsOrganoidsingle-cell/nucleusscRNA-seqUniversity of Luxembourg
GSE276947 GEOMassively parallel reporter assay investigates shared genetic variants of eight psychiatric disorders2025NGN2 / TF-programmed no exact timepointTF programming (NGN2)single-cell/nucleusscRNA-seqUNC Chapel Hill
GSE276986 GEOAging-linked deterioration of RNA metabolism destabilizes the stress response of neurons [RNA-seq]2025Cortical / excitatory no exact timepointNot statedbulkbulk RNA-seqUniversity of Arizona
GSE277032 GEOAn in vivo and in vitro spatiotemporal atlas of human fetal midbrain development2025DopaminergicOrganoidsOrganoidbulkbulk RNA-seqUniversity College London
GSE277082 GEOAging-linked deterioration of RNA metabolism destabilizes the stress response of neurons [RNASeq, RiboSeq]2025Cortical / excitatory no exact timepointNot statedbulkbulk RNA-seq+Ribo-seqUniversity of Arizona
GSE277084 GEOTranscriptome-based screening in TARDBP/TDP-43 knock-in motor neurons identifies the NEDD8-activating enzyme inhibitor MLN4924 [RNA-Seq]2025Motor no exact timepoint2D directed differentiationbulkbulk RNA-seqMcGill University
GSE277259 GEOUnique N-glycosylation signatures in human iPSC derived microglia activated by Aβ oligomer and lipopolysaccharide 2025Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqUC Davis Medical Center
GSE277599 GEOMislocalization of mitochondrial DNA and subcellular RNA is a convergent mechanism in neurodegenerative dementias and is rescued by VCP ATPase inhibition2025Cortical / excitatoryMotor no exact timepoint2D directed differentiationbulkbulk RNA-seqUCL
GSE277602 GEOElucidating ADNP Syndrome Gene Dysregulation through a Novel Approach in iPSC-Derived GABAergic Neuron Development [scRNA-seq]2025NGN2 / TF-programmedInhibitory no exact timepointTF programmingsingle-cell/nucleusscRNA-seqMount Sinai
GSE277604 GEOElucidating ADNP Syndrome Gene Dysregulation through a Novel Approach in iPSC-Derived GABAergic Neuron Development [ADNP_scRNA-seq]2025NGN2 / TF-programmedInhibitory no exact timepointTF programmingbulkbulk RNA-seqMount Sinai
GSE278354 GEOAberrant splicing in Huntington’s disease accompanies disrupted TDP-43 activity and altered m6A RNA modifications2025Inhibitory no exact timepoint2D directed differentiationbulkbulk RNA-seqUC Irvine
GSE278619 GEOGRAMD1B is a novel regulator of lipid homeostasis, autophagic flux, and phosphorylated tau.2025Other neuronsOrganoidsOrganoidbulkbulk RNA-seqUniversity College London
GSE278697 GEOm6A-mediated epi-transcriptomic dysregulation underlies synaptic dysfunction in fragile X syndrome [RNA-seq]2025Cortical / excitatory no exact timepointNot statedbulkbulk RNA-seqCCHMC
GSE278698 GEOm6A-mediated epi-transcriptomic dysregulation underlies synaptic dysfunction in fragile X syndrome [MeRIP-seq]2025Cortical / excitatory no exact timepointNot statedbulkbulk RNA-seqCCHMC
GSE278808 GEOMutations of schizophrenia risk gene SETD1A dysregulate synaptic function in human neurons2025NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqRutgers University
GSE279308 GEODirect effects of prolonged TNF-α and IL-6 exposure on neural activity in human iPSC-derived neuron-astrocyte co-cultures2025Cortical / excitatoryInhibitoryAstrocytesMixedbulkbulk RNA-seqLLNL
GSE279590 GEOBMP, MEK and WNT modulation with NGN2 expression for rapid generation of hiPSC-derived neurons amenable to regional patterning [bulk RNA-seq]2025NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqAbbVie Deutschland GmbH & Co. KG
GSE279591 GEOBMP, MEK and WNT modulation with NGN2 expression for rapid generation of hiPSC-derived neurons amenable to regional patterning [snRNA-seq]2025NGN2 / TF-programmedTF programming (NGN2)single-cell/nucleussnRNA-seqAbbVie Deutschland GmbH & Co. KG
GSE280341 GEOINFLAMMATION-INDUCED SENESCENT-LIKE GLIA REWIRE CELLULAR NETWORKS IN MULTIPLE SCLEROSIS [scRNAseq_organoids]2025Other neuronsMicrogliaOPC / oligodendrocytesOrganoidsMixedsingle-cell/nucleusscRNA-seqHospital San Raffaele
GSE280716 GEOTranscriptomic disruption and functional hypoactivity in DYT-SGCE MGE-patterned inhibitory neurons2025Inhibitory2D directed differentiationsingle-cell/nucleusscRNA-seqN/A
GSE280890 GEOGene expression profile at single cell level of human cortical brain organoids at day 20.2025OrganoidsOrganoidbulkbulk RNA-seqTokai University
GSE280910 GEOChimeric brain models to study human glial-neuronal and macroglial-microglial interactions [scRNA-seq]2025Other neuronsMicrogliaAstrocytesOPC / oligodendrocytes no exact timepointXenograftsingle-cell/nucleusscRNA-seqRutgers University
GSE281327 GEODe novo structural variants in autism spectrum disorder disrupt distal regulatory interactions of neuronal genes [RNA-Seq]2025NGN2 / TF-programmedCortical / excitatory no exact timepointTF programming (NGN2)bulkbulk RNA-seqGladstone Institutes
GSE281451 GEOA microglia-containing cerebral organoid model to study early life immune challenges [Bulk RNA-seq]2025MicrogliaOrganoids no exact timepointOrganoidbulkbulk RNA-seqIcahn School of Medicine at Mount Sinai
GSE281452 GEOA microglia-containing cerebral organoid model to study early life immune challenges [scRNA-seq]2025MicrogliaOrganoidsOrganoidsingle-cell/nucleusscRNA-seqIcahn School of Medicine at Mount Sinai
GSE281622 GEOCortical versus hippocampal network dysfunction in a human brain assembloid model of epilepsy and intellectual disability2025OrganoidsOrganoidbulkbulk RNA-seqUniversity of California, Los Angeles
GSE282494 GEOThe Parkinson’s disease associated LRRK2-G2019S variant restricts serine metabolism leading to microglia inflammation and dopaminergic neuron degeneration2025Other neuronsMicrogliaOrganoids no exact timepoint2D directed differentiationbulkbulk RNA-seqLCSB
GSE282644 GEOInflammatory responses revealed through HIV infection of microglia-containing cerebral organoids2025Other neuronsMicrogliaOrganoids no exact timepointOrganoidbulkbulk RNA-seqNorthwestern University
GSE282917 GEOHarnessing human iPSC-microglia for CNS-wide delivery of disease-modifying proteins in Alzheimer’s disease mice2025Microglia no exact timepointXenograftsingle-cell/nucleusscRNA-seqUniversity of California, Irvine
GSE283507 GEORopinirole improves the amyotrophic lateral sclerosis phenotype of TDP43-mutant iPSC-derived motor neurons via a D2R-independent mechanism2025Motor no exact timepointNot statedbulkbulk RNA-seqK Pharma
GSE283597 GEOLINE-1 transposable elements regulate the exit of human pluripotency and early brain development [bulkRNA-seq]2025OrganoidsOrganoidbulkbulk RNA-seqLund University
GSE284086 GEOLINE-1 transposable elements regulate the exit of human pluripotency and early brain development [snRNA-seq]2025OrganoidsOrganoidsingle-cell/nucleussnRNA-seqLund University
GSE284292 GEOGene expression of iPSC-derived neurons from patient with Mohr-Tranebjaerg syndrome and healthy control2025Other neurons no exact timepointNot statedbulkbulk RNA-seqNanfang Hospital, Southern Medical University, Guangzhou, China.
GSE284339 GEOAnalysis of organoid-derived microglia implicates microglial dysfunction in C9ORF72 ALS/FTD2025MicrogliaOrganoidsOrganoidbulkbulk RNA-seqUMC Utrecht
GSE285126 GEOSingle-nuclei RNA-seq of neural organoids generated from wildtype and FNDC4 KO iPSCs2025Cortical / excitatoryOrganoidsOrganoidsingle-cell/nucleussnRNA-seqMayo Clinic
GSE285209 GEOiPSC data for the paper "Correction of dysregulated lipid metabolism normalizes gene expression in oligodendrocytes and prolongs lifespan in female poly-GA C9orf72 mouse model"2025NGN2 / TF-programmedOPC / oligodendrocytesTF programming (NGN2)bulkbulk RNA-seqLMU
GSE285561 GEOPhospho-seq: Integrated, multi-modal profiling of intracellular protein dynamics in single cells2025OrganoidsOrganoidsingle-cell/nucleusscRNA-seq+multiomeNew York Genome center
GSE285923 GEOLycium barbarum polysaccharide-glycoprotein ameliorates abnormal neural activity in depressive patient-derived ventral forebrain organoids2025OrganoidsOrganoidbulkbulk RNA-seqNanjing Medical University
GSE286235 GEOConstruction of Human nucleus basalis Organoids and Cholinergic Projections in nbM-cortical Assembloids2025OrganoidsOrganoidsingle-cell/nucleusscRNA-seqNanjing Medical University
GSE286488 GEOSingle-cell multiomics study of cell-type-specific neuron activation unravels context-dependent gene regulation of brain disorders2025Cortical / excitatoryInhibitoryMixedsingle-cell/nucleussnRNA-seq+scRNA-seq+scATAC-seq (multiome)NorthShore University HealthSystem
GSE286874 GEOTriglyceride metabolism controls inflammation and microglial phenotypes associated with APOE4 [RNA-seq]2025Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqNINDS/NIH
GSE286949 GEONeuronal hyperactivity becomes mTORC1 independent due to epigenetic changes in Tuberous Sclerosis Complex [RNA-seq]2025NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqBoston Children's Hospital
GSE287216 GEOTargeting AASS improves neurotoxicity and mitochondrial function in astrocyte models for pyridoxine dependent epilepsy2025Astrocytes2D directed differentiationbulkbulk RNA-seqRadboudUMC
GSE287439 GEOSingle cell RNAseq of iPSC tri-cultures treated with necroptosis inducer2025MotorMicrogliaAstrocytes no exact timepointMixedsingle-cell/nucleusscRNA-seqSanofi
GSE287558 GEOJAX Study 3- RNA-seq of male KOLF2.2J hiPSC-derived cortical brain organoids homozygous null for six different transcription factors2025OrganoidsOrganoidbulkbulk RNA-seqEMBL-EBI
GSE287566 GEOReproducibility of PD patient-specific midbrain organoid data for in vitro disease modelling (passages)2025DopaminergicOrganoids no exact timepointOrganoidbulkbulk RNA-seqLCSB
GSE287638 GEOProteasomal activation ameliorates neuronal phenotypes linked to FBXO11-deficiency [human]2025Other neurons no exact timepointNot statedbulkbulk RNA-seqUniklinikum Erlangen
GSE287664 GEOKCTD20 suppression mitigates excitotoxicity in tauopathy patient organoids2025Other neuronsOrganoids no exact timepointOrganoidsingle-cell/nucleusscRNA-seqUniversity of Southern California
GSE287843 GEOJAX Study 4- RNA-seq of male KOLF2.2J hiPSC-derived cortical brain organoids and extra-embryonic lineages homozygous null for six different transcription factors2025OrganoidsOrganoidbulkbulk RNA-seqEMBL-EBI
GSE287844 GEOJAX Study 5- RNA-seq of male KOLF2.2J hiPSC-derived cortical brain organoids and extra-embryonic lineages homozygous null for nine different transcription factors and one RNA splicing factor2025Organoids2D directed differentiationbulkbulk RNA-seqEMBL-EBI
GSE287847 GEOIterative transcription factor screening enables rapid generation of microglia-like cells from human iPSC - First round of pooled screening identified an initial set of TFs for inducing microglia gene expression.2025MicrogliaTF programmingsingle-cell/nucleusscRNA-seqHarvard University
GSE287850 GEOIterative transcription factor screening enables rapid generation of microglia-like cells from human iPSC - Second round of pooled screening identified an initial set of TFs for inducing microglia gene expression.2025MicrogliaTF programmingsingle-cell/nucleusscRNA-seqHarvard University
GSE287852 GEOIterative transcription factor screening enables rapid generation of microglia-like cells from human iPSC -Single cell transcriptome timecourse analysis of TFiMGLs after SCF-MCI (SPI1, FLI1, CEBPA, CEBPB, IRF8, and Mef2C) induction.2025Microglia no exact timepointTF programmingsingle-cell/nucleusscRNA-seqHarvard University
GSE287853 GEOIterative transcription factor screening enables rapid generation of microglia-like cells from human iPSC - TFiMGLs are responsive to disease-relevant stimuli2025MicrogliaTF programmingbulkbulk RNA-seqHarvard University
GSE288286 GEOJAX Study 6- RNA-seq of female WIBJ2 hiPSC-derived cortical brain organoids and extra-embryonic lineages homozygous null for five different transcription factors2025OrganoidsOrganoidbulkbulk RNA-seqEMBL-EBI
GSE288287 GEOJAX Study 7- RNA-seq of male KOLF2.2J hiPSC-derived differentiated cells for lines in which the original mutation to create null alleles was reverted back to wildtype2025OrganoidsOrganoidbulkbulk RNA-seqEMBL-EBI
GSE288880 GEOPhenotypic complexities of rare heterozygous neurexin-1 deletions [nrxn1_bulk_rnaseq]2025NGN2 / TF-programmedCortical / excitatoryInhibitoryTF programming (NGN2)bulkbulk RNA-seqIcahn School of Medicine at Mount Sinai
GSE288881 GEOPhenotypic complexities of rare heterozygous neurexin-1 deletions [shNEG_ASO_rnaseq]2025NGN2 / TF-programmedCortical / excitatoryInhibitoryTF programming (NGN2)bulkbulk RNA-seqIcahn School of Medicine at Mount Sinai
GSE288964 GEOPhenotypic complexities of rare heterozygous neurexin-1 deletions2025OrganoidsOrganoidsingle-cell/nucleusscRNA-seqIcahn school of medicine at mount sinai
GSE289053 GEOThe ALS-associated co-chaperone DNAJC7 mediates neuroprotection against proteotoxic stress by modulating HSF1 activity2025Motor no exact timepointNot statedbulkbulk RNA-seqNorthwestern University Feinberg School of Medicine
GSE289159 GEOTranscriptomic and epigenomic analysis of neuronal differentiation models of Kabuki Syndrome Type 1 [RNA-Seq]2025Cortical / excitatory2D directed differentiationbulkbulk RNA-seqUniversity of Manchester
GSE289235 GEOA Massively Parallel CRISPR-Based Screening Platform for Modifiers of Neuronal Activity2025NGN2 / TF-programmedTF programming (NGN2)single-cell/nucleusscRNA-seqArc Institute
GSE289294 GEOMitochondrial dysfunction drives a neuronal exhaustion phenotype in methylmalonic aciduria2025Cortical / excitatory no exact timepoint2D directed differentiationbulkbulk RNA-seqNIH
GSE289515 GEOSingle-cell multiomics of neuron activation reveals context-specific genetics of brain disorders [024]2025Other neurons no exact timepointNot statedsingle-cell/nucleussnRNA-seq+scATAC-seqNorthShore University HealthSystem
GSE289518 GEOSingle-cell multiomics of neuron activation reveals context-specific genetics of brain disorders [029]2025Cortical / excitatoryInhibitory no exact timepointMixedsingle-cell/nucleusscRNA-seq+multiomeNorthShore University HealthSystem
GSE289522 GEOSingle-cell multiomics of neuron activation reveals context-specific genetics of brain disorders [022] [030]2025NGN2 / TF-programmedCortical / excitatoryInhibitoryTF programming (NGN2)single-cell/nucleusscRNA-seq+snRNA-seq+multiomeNorthShore University HealthSystem
GSE289689 GEOPhenotypic variability in SCN1A-associated febrile seizures: transcriptomic and electrophysiological insights from iPSC-derived neurons2025Other neuronsNot statedbulkbulk RNA-seqMagna Graecia University of Catanzaro
GSE289721 GEOHigh throughput identification of genetic regulators of microglial inflammatory processes in Alzheimer's disease.2025Microglia2D directed differentiationsingle-cell/nucleusscRNA-seqColumbia University
GSE289912 GEOAPOE4 impacts cortical neurodevelopment and alters network formation in human brain organoids2025OrganoidsOrganoidbulkbulk RNA-seqUniversity of Texas at San Antonio
GSE289956 GEOSingle-cell multiomics of neuron activation reveals context-specific genetics of brain disorders [022]2025NGN2 / TF-programmed no exact timepointTF programming (NGN2)single-cell/nucleussnRNA-seq+scATAC-seqNorthShore University HealthSystem
GSE290244 GEOTranscriptomic Validation of ALS-Derived Motor Neurons Following m6A Hypomethylation Restoration2025Motor no exact timepoint2D directed differentiationbulkbulk RNA-seqAcademia Sinica
GSE290436 GEORapid and Inducible Mislocalization of Endogenous TDP43 in a Novel Human Model of Amyotrophic Lateral Sclerosis [RNA-seq]2025NGN2 / TF-programmedMotorTF programmingbulkbulk RNA-seqLiving Systems Institute, University of Exeter
GSE290441 GEORapid and Inducible Mislocalization of Endogenous TDP43 in a Novel Human Model of Amyotrophic Lateral Sclerosis [Nanopore]2025Motor2D directed differentiationbulkbulk RNA-seqLiving Systems Institute, University of Exeter
GSE290452 GEOLithium partially rescues gene expression and enhancer activity from heterozygous knockout of AKAP11 while inducing novel differential changes [RNA-Seq]2025Other neurons no exact timepointNot statedbulkbulk RNA-seqCanadian Centre for Computational Genomics (C3G)
GSE291052 GEOCharacterization of human healthy i3 lower motor neurons exposed to CSF from ALS patients stratified by UNC13A and C9ORF72 genotype2025NGN2 / TF-programmedMotor no exact timepointTF programmingbulkbulk RNA-seqUMass Chan Medical School
GSE291195 GEOTracking tau and cellular responses in human iPSC-microglia from uptake to seedable secretion in extracellular vesicles2025Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity of Oxford
GSE292051 GEOSingle-cell characterization of enterovirus infection of spinal cord organoids2025Other neuronsAstrocytesOPC / oligodendrocytesOrganoidsOrganoidsingle-cell/nucleusscRNA-seqNational Institutes of Health
GSE292758 GEOHigh-Throughput Drug Discovery for a Rare Neurological Disorder: Uncovering a Novel Therapeutic Opportunity for the 19q12 Autism Spectrum Disorder [19q12 neurons baseline data]2025Other neuronsNot statedbulkbulk RNA-seqTranscripta Bio
GSE292759 GEOHigh-Throughput Drug Discovery for a Rare Neurological Disorder: Uncovering a Novel Therapeutic Opportunity for the 19q12 Autism Spectrum Disorder [DRUGseq]2025NGN2 / TF-programmedCortical / excitatory no exact timepointTF programming (NGN2)bulkbulk RNA-seqTranscripta Bio
GSE292774 GEOComparing the Effects of Taurine and 3-Sulfopropanoic Acid, a Metabolite of Tramiprosate, on ApoE4 Pathological Aggregation: Implications for Alzheimer's Disease2025OrganoidsOrganoidbulkbulk RNA-seqFaculty of Medicine, Masaryk University
GSE292889 GEOBiallelic variants in SREK1 downregulating SNORD115/116 cause a novel Prader-Willi-like syndrome2025Other neurons no exact timepointNot statedbulkbulk RNA-seqUniversity of Cambridge
GSE293155 GEOSETD1A Regulates Psychiatric Gene Networks Involved in Genomic Stability and Synaptic Function in Rare and Sporadic Schizophrenia [bulk RNA-seq]2025Other neurons2D directed differentiationbulkbulk RNA-seqLieber Institute for Brain Development
GSE293252 GEOMechanism of cytarabine-induced neurotoxicity [RNA-Seq]2025NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqNational Institutes of Health
GSE293717 GEOCEP290-deficiency disrupts ciliary axonemal architecture in human iPSC-derived cerebral organoids2025OrganoidsOrganoidbulkbulk RNA-seqUniversity of Zurich
GSE294747 GEOCholinergic neuron-to-glioblastoma synapses in a human iPSC-derived co-culture model2025Other neurons no exact timepoint2D directed differentiationsingle-cell/nucleusscRNA-seqUniversity of Pennsylvania Perelman School of Medicine
GSE295010 GEOTranscriptomic profiling of L2HGDH-deficient and corrected human neural progenitor cells and neurons2025Cortical / excitatory no exact timepoint2D directed differentiationbulkbulk RNA-seqUT Southwestern Medical Center
GSE295166 GEOMolecular and developmental deficits in Smith-Magenis syndrome human stem cell-derived cortical neural models2025Cortical / excitatoryOrganoidsOrganoidsingle-cell/nucleussnRNA-seq+multiomeCanadian Centre for Computational Genomics (C3G)
GSE295330 GEOAstrocyte induction of disease-associated microglia is suppressed by acute exposure to fAD neurons in human iPSC triple cultures2025Other neuronsMicrogliaAstrocytesMixedsingle-cell/nucleusscRNA-seqBrigham and Women's Hospital
GSE295444 GEOOn target: Transcriptomic analysis of 12 human iPSC-derived cell phenotypes shows precision in an extensive pharmacological investigation [set 1]2025DopaminergicAstrocytes no exact timepointNot statedbulkbulk RNA-seqCardiff University
GSE295447 GEOOn target: Transcriptomic analysis of 12 human iPSC-derived cell phenotypes shows precision in an extensive pharmacological investigation [set 2]2025Other neuronsAstrocytes no exact timepointNot statedbulkbulk RNA-seqCardiff University
GSE295831 GEOVimentin network dysregulation mediates neurite deficits in SNCA duplication 2 Parkinson’s patient-derived midbrain neurons [RNA-seq]2025Dopaminergic no exact timepoint2D directed differentiationbulkbulk RNA-seqUCSD
GSE295890 GEOViral Infection Induces Alzheimer’s Disease-Related Pathways and Senescence in iPSC-Derived Neuronal Models2025Other neuronsOrganoids no exact timepointOrganoidbulkbulk RNA-seqFaculty of Medicine, Masaryk University
GSE295935 GEOCNS infiltration by Tet2-mutant peripheral myeloid cells protects from Alzheimer’s Disease2025Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqIcahn School of Medicine at Mount Sinai
GSE296063 GEOUPF1 knockdown in IPSC-derived cortical neurons2025NGN2 / TF-programmedCortical / excitatory no exact timepointTF programming (NGN2)bulkbulk RNA-seqKU Leuven
GSE296512 GEOEffect of DRP1 mutations on synaptic development during iPSC-derived cortical neuron maturation2025Cortical / excitatory2D directed differentiationbulkbulk RNA-seqVanderbilt University
GSE296710 GEOTDP-43 loss induces cryptic polyadenylation in ALS/FTD [zanovello-i3-cortical-tdpkd-vs-tdpctl]2025NGN2 / TF-programmedCortical / excitatory no exact timepointTF programming (NGN2)bulkbulk RNA-seqKU Leuven
GSE296714 GEOTDP-43 loss induces cryptic polyadenylation in ALS/FTD [humphrey-i3-cortical]2025NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqKU Leuven
GSE296716 GEOTDP-43 loss induces cryptic polyadenylation in ALS/FTD [slamseq-i3-cortical]2025NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqKU Leuven
GSE296775 GEODelayed forebrain excitatory and inhibitory neurogenesis in STRADA-related megalencephaly via mTOR hyperactivity2025Cortical / excitatoryInhibitoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqNational Institutes of Health
GSE296979 GEODeletion of CNTNAP2 Gene Leads to Dendritic Spine Abnormalities in Familial Schizophrenia: Insights from induced Pluripotent Stem Cells-Derived Patients’ Neurons2025Cortical / excitatoryNot statedbulkbulk RNA-seqICMR-NIRRCH
GSE297594 GEOMeCP2 regulates telencephalic development in human cerebral organoids2025Cortical / excitatoryOrganoidsOrganoidbulkbulk RNA-seqUCSD
GSE297672 GEOHuman Myelinated Brain Assembloids: A Novel Platform for Investigating Mechanisms and Enhancement of Remyelination2025Other neuronsMicrogliaOPC / oligodendrocytesOrganoids no exact timepointOrganoidbulkbulk RNA-seqF. Hoffmann - La Roche AG
GSE298157 GEOHuman Myelin Spheres for In Vitro Oligodendrocyte Maturation, Myelination and Neurological Disease Modeling2025OPC / oligodendrocytesMixedsingle-cell/nucleussnRNA-seqKU Leuven
GSE298491 GEOMutations in PSEN1 predispose inflammation in an astrocyte model of familial Alzheimer’s disease through disrupted regulated intramembrane proteolysis2025Other neuronsAstrocytes no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity College London
GSE298706 GEOHuman microglia reduce alpha-synuclein aggregation and are neuroprotective in adult mouse brain2025Microglia no exact timepointXenograftbulkbulk RNA-seqUniversity of Eastern Finland
GSE299277 GEOABCA7 variants impact phosphatidylcholine and mitochondria in neurons2025NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqMIT
GSE299341 GEOAltered mRNA transport and local translation in i3Neurons with RNA binding protein knockdown2025NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqNational Institute on Aging
GSE299831 GEOKOLF2.1J iTF-Microglia: A standardized platform to study microglial transcriptional regulatory networks in CNS disease [RNA-seq]2025MicrogliaTF programmingbulkbulk RNA-seqHudsonAlpha Institute for Biotechnology
GSE299976 GEOMaintenance of neuronal TDP-43 expression requires axonal lysosome transport2025NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqNational Institute on Aging
GSE299997 GEOIntegrated profiling of iPSC-derived motor neurons carrying C9orf72, FUS, TARDBP, or SOD1 mutations2025Motor2D directed differentiationbulkbulk RNA-seqChinese Academy of Science
GSE300841 GEODeciphering the functional impact of Alzheimer’s Disease-associated variants in resting and proinflammatory immune cells [crispr]2025Microglia no exact timepointTF programmingbulkbulk RNA-seqUNC Chapel Hill
GSE301434 GEOSingle-cell RNA-sequencing data of human medial ganglionic eminence organoids2025Other neuronsOrganoidsOrganoidsingle-cell/nucleusscRNA-seqUniversity of Michigan
GSE301532 GEOSingle-cell RNA sequencing of microglia derived from C9orf72 mutant and isogenic control human iPSCs2025Microglia2D directed differentiationsingle-cell/nucleusscRNA-seqInstitut Imagine, INSERM UMR1163
GSE301685 GEOGraphene Optoelectronics for Non-Genetic Neuromodulation in Disease Modeling, Stem Cell Maturation, and Biohybrid Robotics2025Other neuronsOrganoidsOrganoidbulkbulk RNA-seqNeurANO Bioscience
GSE301692 GEOGlobal transcriptional profiles of hiPSC-derived hypothalamus-pituitary organoids predicted to fail or succeed by machine learning model2025OrganoidsOrganoidbulkbulk RNA-seqKyoto University
GSE301702 GEOBulk RNAseq of in vitro human Rett syndrome neurons with addition of NAD supplementation2025Other neurons no exact timepointNot statedbulkbulk RNA-seqUniversity of California, Los Angeles
GSE301725 GEOHuman Neural Organoid Microphysiological Systems Show the Building Blocks Necessary for Basic Learning and Memory2025OrganoidsOrganoidbulkbulk RNA-seqJohns Hopkins University
GSE301787 GEODefined human tri-lineage brain microtissues2025Other neuronsMicrogliaAstrocytesMixedsingle-cell/nucleusscRNA-seq+snRNA-seqKorea University
GSE302029 GEOPharmacological Manipulation of Nested Oscillations in Human iPSC-Derived 2D Neuronal Networks2025NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqSanford Burnham Prebys Medical Discovery Insititute
GSE302295 GEOC9orf72 hexanucleotide repeat expansions impair microglial response in models of ALS [RNA]2025MicrogliaNot statedbulkbulk RNA-seqVlaams Instituut voor Biotechnologie
GSE302319 GEOC9orf72 hexanucleotide repeat expansions impair microglial response in models of ALS [scRNA]2025MicrogliaXenograftsingle-cell/nucleusscRNA-seqVlaams Instituut voor Biotechnologie
GSE302545 GEOTranscriptomic Analysis of iPSC-derived Cortical Neurons Under TSA and Aβ Treatment2025Cortical / excitatoryNot statedbulkbulk RNA-seqIndiana University
GSE302806 GEOHuman induced pluripotent stem cell-derived microglia with a CX3CR1-V249I genetic variant exhibit dysfunctional phenotypes and modulate neuronal growth and function2025Microglia2D directed differentiationbulkbulk RNA-seqOregon Health & Science University
GSE303406 GEOA Human iPSC-derived Organoid System to Model Myelin Destruction and Repair2025MicrogliaOPC / oligodendrocytesOrganoids no exact timepointOrganoidsingle-cell/nucleusscRNA-seqThe Florey
GSE303551 GEOEthanol induces neuroimmune dysregulation and soluble TREM2 generation in a human iPSC neuron, astrocyte, microglia triculture model2025Other neuronsMicrogliaAstrocytes no exact timepointMixedbulkbulk RNA-seqRutgers University
GSE303787 GEOHuman iPSC-Derived Spinal Neural Progenitors Enhance Sensorimotor Recovery in Spinal Cord-Injured NOD-SCID Mice via Differentiation and Microenvironment Regulation2025Other neurons2D directed differentiationsingle-cell/nucleusscRNA-seq+snRNA-seqNational Institutes for Food and Drug Control
GSE303918 GEOJAX Study 9- RNA-seq of male KOLF2.2J hiPSC-derived cortical brain organoids homozygous null for eight different transcription factors.2025OrganoidsOrganoidbulkbulk RNA-seqEMBL-EBI
GSE303979 GEOJAX Study 11- RNA-seq of male KOLF2.2J hiPSC-derived cortical brain organoids during different time points.2025OrganoidsOrganoidbulkbulk RNA-seqEMBL-EBI
GSE304173 GEOSingle-cell glycome and transcriptome profiling uncovers the glycan signature of each cell subpopulation of human iPSC-derived neurons2025Other neurons no exact timepoint2D directed differentiationsingle-cell/nucleusscRNA-seqNational Institute of Advanced Industrial Science and Technology
GSE304183 GEOCharacterizing and controlling CRISPR repair outcomes in nondividing human cells2025NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqUCSF
GSE304547 GEOALS-Associated TDP-43 Dysfunction Compromises UPF1-Dependent mRNA Metabolism Pathways Including Alternative Polyadenylation and 3’UTR Length [RIP-Seq]2025Motor no exact timepointNot statedbulkbulk RNA-seqNorthwestern University Feinberg School of Medicine
GSE304550 GEOALS-Associated TDP-43 Dysfunction Compromises UPF1-Dependent mRNA Metabolism Pathways Including Alternative Polyadenylation and 3’UTR Length2025Motor no exact timepoint2D directed differentiationbulkbulk RNA-seqNorthwestern University Feinberg School of Medicine
GSE305135 GEOSingle-Cell Multiomic Atlas of Human Cortical Development in Down Syndrome - Neural Cells in vitro Basic Characterisation Bulk RNA-seq Dataset2025Cortical / excitatory2D directed differentiationbulkbulk RNA-seqImperial College London
GSE305140 GEOSingle-Cell Multiomic Atlas of Human Cortical Development in Down Syndrome - iPSC-derived Neural Xenografts snRNA-seq Dataset2025Cortical / excitatoryXenograftsingle-cell/nucleussnRNA-seq+multiomeImperial College London
GSE305145 GEOSingle-Cell Multiomic Atlas of Human Cortical Development in Down Syndrome - iPSC-derived Neural Xenografts Multiome Dataset2025Cortical / excitatoryXenograftsingle-cell/nucleussnRNA-seq+scATAC-seqImperial College London
GSE305911 GEOEngineered thoracic spinal cord organoids for transplantation after spinal cord injury2025Other neuronsOrganoidsOrganoidbulk + single-cellbulk RNA-seq+spatial transcriptomicsTongji University
GSE306010 GEOIncreased Reproducibility of Brain Organoids through Controlled Fluid Dynamics2025OrganoidsOrganoidsingle-cell/nucleusscRNA-seqUniversity of Lausanne
GSE306820 GEOGeneration and characterization of iPSC derived microglia from blood derived PBMCs for in vitro modeling of stimuli-specific neuroimmune responses2025Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqIBRI
GSE307054 GEOInhibition of nonsense-mediated decay in TDP-43 deficient neurons reveals novel cryptic exons2025NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqJohns Hopkins University
GSE307124 GEOMicroglia-containing neural organoids as brain microphysiological systems for long-term culture2025MicrogliaOrganoidsOrganoidbulkbulk RNA-seqJohns Hopkins University
GSE308008 GEOPhospho-proteome profiling in human neurons reveals targets of TBK1 in ALS/FTD-Phospho-proteome profiling in human neurons reveals targets of TBK1 in ALS/FTD-associated autophagy networks [iNeurons]2025NGN2 / TF-programmedCortical / excitatory no exact timepointTF programming (NGN2)bulkbulk RNA-seqUCSF
GSE308054 GEOA human pluripotent stem cell tri-culture platform to elucidate microglial regulation of retinal ganglion cells in neuroinflammation2025MicrogliaAstrocytes no exact timepointMixedsingle-cell/nucleusscRNA-seqIndiana University School of Medicine
GSE308143 GEOLRRK2-mediated neuroinflammation induced neuronal dysfunctions in a Parkinson’s and Alzheimer’s disease cellular model2025Dopaminergic no exact timepointNot statedbulkbulk RNA-seqUniversity of Brescia
GSE308670 GEOEngineered 3D Immuno-Glial-Neurovascular Human miBrain Model2025Other neuronsMicrogliaAstrocytesOPC / oligodendrocytesNot statedbulkbulk RNA-seqMassachusetts Institute of Technology
GSE308813 GEOAlzheimer's disease-associated PLCG2 variants alter microglial state and function in human iPSC-derived microglia-like cells2025Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqIndiana University School of Medicine
GSE309248 GEOGeneration of spinal cord organoids from human induced pluripotent stem cells caudalised to a lumbar fate2025Other neuronsOrganoidsOrganoidsingle-cell/nucleusscRNA-seqThe Florey Institute of Mental Health and Neuroscience
GSE309506 GEOPharmacological rescue of motor neuron health by riluzole in patient-derived motor neurons2025Motor2D directed differentiationbulkbulk RNA-seqThe Florey Institute of Neuroscience and Mental Health
GSE309707 GEOCompromised lipid metabolism, mitochondria respiration and neuroprotective effects in iPSC-derived astrocytes from a Smith-Lemli-Opitz syndrome patient2025Other neuronsAstrocytes no exact timepointNot statedbulkbulk RNA-seqMayo Clinic
GSE309755 GEORNA sequencing of human brain organoids to evaluate sex-specific and opto-FGFR-mediated responses to Simplified 5 Ion GCR Simulation2025OrganoidsOrganoidbulkbulk RNA-seqJohns Hopkins School of Medicine
GSE310834 GEOTFG p.G269V mutation disrupts motor neuron function in iPSC-derived models via Wnt signaling dysregulation2025Motor no exact timepoint2D directed differentiationbulkbulk RNA-seqFourth Military Medical University
GSE311359 GEOFunctional genomic dissection of MS risk loci reveals convergence of cis and trans gene regulatory mechanisms in microglia2025MicrogliaNot statedsingle-cell/nucleusscRNA-seqWhitehead Institute /MIT
GSE311382 GEOHuman microglia differentially respond to ß-amyloid, tau, and combined Alzheimer's disease pathologies in vivo2025Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity of California, Irvine
GSE311807 GEOHuman microglia differentially respond to ß-amyloid, tau, and combined Alzheimer's disease pathologies in vivo [scRNA-Seq]2025Microglia no exact timepointXenograftsingle-cell/nucleusscRNA-seqUniversity of California, Irvine
GSE314054 GEONon-hematopoietic erythropoietin splice variants are produced in the diseased human brain and confer neuroprotection2025Other neurons2D directed differentiationbulkbulk RNA-seqBerlin Institute of Health, Charité Medical University of Berlin
GSE86426 GEOA germline mutation in human Oxidation Resistance 1 gene causes developmental delay, epilepsy and cerebellar atrophy2025Other neuronsNot statedbulkbulk RNA-seqOslo University Hospital
E-MTAB-10561 ArrayExpressKMT2D haploinsufficiency in Kabuki Syndrome disrupts neuronal function through transcriptional and chromatin rewiring independent of H3K4-monomethylation2024Other neurons no exact timepointNot statedbulkIstituto Europeo di Oncologia IEO IRCSS S.r.l.
E-MTAB-14203 ArrayExpressSingle cell analysis of iPSC-derived cortical organoids in biofunctionalized gelatin hydrogels2024OrganoidsOrganoidsingle-cell/nucleusscRNA-seqVanderbilt University
E-MTAB-14500 ArrayExpresslong-read CAGE for 10 specific loci in cortical neurons2024Cortical / excitatory no exact timepointNot statedbulkbulk RNA-seqImperial College Research Fellow Department of Brain Sciences - Faculty of …
GSE171700 GEOAPOE-Ɛ4 astrocytes exhibit deficits in endocytic uptake that contribute to the delayed maturation of neuronal network activity and alter neuronal tau uptake in co-cultures of human iPSC-derived brain cells2024Other neuronsAstrocytes no exact timepointNot statedbulkbulk RNA-seqBiogen
GSE185472 GEOMorphological diversification and functional maturation of human astrocytes in glia-enriched cortical organoids transplanted in the mouse brain2024Cortical / excitatoryAstrocytesOrganoidsMixedsingle-cell/nucleussnRNA-seqSalk Institute for Biological Studies
GSE195638 GEOMicroglial APOE3 Christchurch protects neurons from Tau pathology in a human iPSC-based model of Alzheimer's disease2024Other neuronsMicroglia no exact timepointMixedbulkbulk RNA-seqCity of Hope
GSE200474 GEONeurofilament accumulations in Amyotrophic Lateral Sclerosis patients’ motor neurons impair structural axonal initial segment integrity2024Motor2D directed differentiationbulkbulk RNA-seqGenoSplice technology
GSE202344 GEOGene expression in 15 weeks of neurons differentiated from MPS II-induced pluripotent stem cells2024Cortical / excitatory2D directed differentiationbulkbulk RNA-seqNational Taiwan University College of Medicine
GSE203568 GEOm6a methylation drives IMP1 regulation during human neuronal differentiation [RNA-seq]2024Other neurons no exact timepointNot statedbulkbulk RNA-seqUniversity College London
GSE208574 GEOModeling 16p13.11 deletions in patient stem cell derived neurons2024Other neurons no exact timepointNot statedbulkbulk RNA-seqBoston Children's Hospital
GSE210206 GEOSingle cell transcriptomics reveals distinct transcriptional responses to oxycodone and buprenorphine by iPSC-derived brain organoids from patients with opioid use disorder2024OrganoidsOrganoidsingle-cell/nucleussnRNA-seqMayo Clinic
GSE211696 GEODifferential microRNA editing may drive target pathway switching in human temporal lobe epilepsy2024Other neuronsNot statedbulkbulk RNA-seqRoyal College of Surgeons in Ireland (RCSI)
GSE217832 GEOHuman cytomegalovirus dysregulates neurodevelopmental pathways in cerebral organoids2024OrganoidsOrganoidbulkbulk RNA-seqUNSW
GSE218824 GEOmRNAseq in control and siQKI in human iPSC-derived motor neurons(hiPSC-MNs).2024Motor no exact timepointNot statedbulkbulk RNA-seqNiigata University
GSE220103 GEOCell type-specific loops linked to RNA polymerase II elongation in human neural differentiation2024Cortical / excitatory no exact timepointNot statedbulkbulk RNA-seqWashington University in St. Louis
GSE221354 GEOGeneration of brain organoids for functional analysis2024OrganoidsOrganoidbulkbulk RNA-seqCyberomiX Inc
GSE221828 GEOComparative characterization of human accelerated regions in neurons [RNA-seq]2024NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqUCSF
GSE222112 GEOComparative characterization of human accelerated regions in neurons [HyPR-seq]2024NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)single-cell/nucleusscRNA-seqUCSF
GSE222969 GEOSingle, off-the-shelf treatment of Neuropathic Mucopolysaccharidoses with iPSC-derived microglia [bulk RNA-seq]2024Microglia no exact timepointXenograftbulkbulk RNA-seqBlueRock Therapeutics
GSE224136 GEOSingle, off-the-shelf treatment of Neuropathic Mucopolysaccharidoses with iPSC-derived microglia [scRNA-seq]2024Microglia no exact timepoint2D directed differentiationsingle-cell/nucleusscRNA-seqBlueRock Therapeutics
GSE224578 GEOTranscriptomic analysis of iPSC-derived motor neurons from ALS patients carrying ATXN2 intermediate repeat expansions and healthy controls2024Motor2D directed differentiationbulkbulk RNA-seqUniversity Medical Center Utrecht
GSE224582 GEOSingle-cell RNA sequencing analysis of iPSC-derived motor neurons from an ALS patient carrying ATXN2 intermediate repeat expansions and a healthy control2024Motor2D directed differentiationsingle-cell/nucleusscRNA-seqUniversity Medical Center Utrecht
GSE225479 GEOLysosome-coupled mRNA transport maintains mitochondrial and ribosomal homeostasis in the axon2024NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqNIH/NICHD
GSE225864 GEOTau-A152T linked to AD induces neuronal hyperexcitation through FYN-NMDAR in human iPSC-neurons2024NGN2 / TF-programmedCortical / excitatoryInhibitory no exact timepointTF programmingbulkbulk RNA-seqKeio University School of Medicine
GSE228254 GEOMono and biallelic inactivation of Huntingtin gene in patient-specific iPS cells reveal HTT roles in striatal development and in neuronal functions impaired in Huntington’s disease2024Cortical / excitatory2D directed differentiationbulkbulk RNA-seqI-Stem/INSERM U861
GSE230127 GEOPoly-GR impairs translation elongation and increases ribotoxic stress response in C9ORF72-ALS/FTD2024NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqJohns Hopkins University School of Medicine
GSE230450 GEOOsteopontin drives neuroinflammation and cell loss in MAPT-N279K frontotemporal dementia patient neurons2024Other neurons no exact timepointNot statedbulkbulk RNA-seqColumbia University Irving Medical Center
GSE230519 GEOOsteopontin drives neuroinflammation and cell loss in MAPT-N279K frontotemporal dementia patient neurons2024Cortical / excitatory no exact timepointXenograftbulk + single-cellbulk RNA-seq+snRNA-seqColumbia University Irving Medical Center
GSE231318 GEOSpecification of a rostro-caudal axis in cortical assembloids through a polarized source of FGF8 (bulk RNA-Seq)2024OrganoidsOrganoidbulkbulk RNA-seqIMBA
GSE231454 GEOEffect of TAC on human and mouse cells [RNA-seq]2024Other neurons no exact timepointNot statedbulkbulk RNA-seqMD Anderson Cancer Center
GSE231638 GEOXenografted human iPSC-derived neurons with the familial Alzheimer’s disease APPV717I mutation reveal dysregulated transcriptome signatures linked to synaptic function and implicate LINGO2 as a disease signaling mediator2024Cortical / excitatoryXenograftsingle-cell/nucleussnRNA-seqColumbia University
GSE231639 GEOXenografted human iPSC-derived neurons with the familial Alzheimer’s disease APPV717I mutation reveal dysregulated transcriptome signatures linked to synaptic function and implicate LINGO2 as a disease signaling mediator2024Other neurons no exact timepoint2D directed differentiationbulkbulk RNA-seqColumbia University
GSE233295 GEOGlial-enriched stem-cell 3D model resembling the cellular landscape of the human brain mimics the glial-immune neurodegenerative phenotypes of multiple sclerosis.2024Cortical / excitatoryMicrogliaAstrocytesOPC / oligodendrocytesOrganoidsMixedsingle-cell/nucleusscRNA-seqHospital San Raffaele
GSE233895 GEOMutant Huntingtin impairs neurodevelopment in human brain organoids through CHCHD2-mediated neurometabolic failure [organoids]2024OrganoidsOrganoidbulkbulk RNA-seqMax Delbrück Center for Molecular Medicine
GSE233914 GEOMutant Huntingtin impairs neurodevelopment in human brain organoids through CHCHD2-mediated neurometabolic failure [NGN2]2024NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqMax Delbrück Center for Molecular Medicine
GSE235862 GEORescue of Impaired Blood-Brain Barrier in a Tuberous Sclerosis Complex Patient Derived Neurovascular Unit2024Other neuronsAstrocytes no exact timepointMixedbulkbulk RNA-seqVanderbilt University
GSE236002 GEOSingle cell RNA sequencing data of SNCA triplication cortical organoids2024Cortical / excitatoryOrganoids no exact timepointOrganoidsingle-cell/nucleusscRNA-seqMayo Clinic
GSE237114 GEOInsulin resistance disrupts midbrain metabolic and functional homeostasis and aggravates dopaminergic neuron loss in GBA-PD via FOXO1 overexpression [WTs]2024DopaminergicOrganoids no exact timepointOrganoidbulkbulk RNA-seqUniversity of Luxembourg
GSE237115 GEOInsulin resistance disrupts midbrain metabolic and functional homeostasis and aggravates dopaminergic neuron loss in GBA-PD via FOXO1 overexpression [WTvsGBA]2024DopaminergicOrganoids no exact timepointOrganoidbulkbulk RNA-seqUniversity of Luxembourg
GSE238221 GEOPatient iPSC models reveal glia-intrinsic phenotypes in multiple sclerosis2024Other neuronsAstrocytesOPC / oligodendrocytes no exact timepoint2D directed differentiationsingle-cell/nucleusscRNA-seqCase Western Reserve University
GSE239417 GEOTranscriptome and acetylome profiling identify crucial steps of neuronal differentiation in Rubinstein-Taybi syndrome2024Other neuronsNot statedbulkbulk RNA-seqU. Bordeaux
GSE239951 GEOOrgan-Chips Enhance the Maturation of Human iPSC-Derived Dopamine Neurons2024Dopaminergic no exact timepoint2D directed differentiationsingle-cell/nucleussnRNA-seqCedars-Sinai Medical Center
GSE240609 GEOMicroglial APOE3 Christchurch protects neurons through suppression of ferroptosis in a human iPSC-derived Alzheimer’s disease model2024Other neuronsMicrogliaOrganoids no exact timepointNot statedbulkbulk RNA-seqCity of Hope
GSE241437 GEOHuman microglia carrying an early-onset Parkinson’s disease mutation display cell-autonomous disease-relevant phenotypes that may worsen neuronal damage2024Microglia no exact timepointMixedbulkbulk RNA-seqUniversity of Leeds
GSE241858 GEOiPSC-derived microglia carrying the TREM2 R47H/+ mutation are pro-inflammatory and promote synapse loss. 2024Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqMassachusetts Institute of Technology
GSE243112 GEOProtein-truncating variants in BSN are associated with severe adult-onset obesity, type 2 diabetes and fatty liver disease2024Other neurons no exact timepoint2D directed differentiationsingle-cell/nucleusscRNA-seqUniversity of Cambridge
GSE243177 GEOiPSC-Derived PSEN2 (N141I) astrocytes and microglia exhibit a primed inflammatory phenotype2024MicrogliaAstrocytes no exact timepointNot statedbulkbulk RNA-seqUniversity of Sydney
GSE243370 GEOGene expression profiles of human iPSC-derived microglia in monoculture and in co-culture with isogenic iPSC-derived neural cells2024Microglia2D directed differentiationbulkbulk RNA-seqWhitehead Institute for Biomedical Research
GSE244005 GEOAberrant pace of cortical neuron development in brain organoids from patients with 22q11.2 deletion syndrome and schizophrenia. [scRNA-Seq]2024Cortical / excitatoryOrganoidsOrganoidbulkbulk RNA-seqColumbia University
GSE244006 GEOAberrant pace of cortical neuron development in brain organoids from patients with 22q11.2 deletion syndrome and schizophrenia. [bulk RNA-Seq]2024Cortical / excitatoryOrganoids no exact timepointOrganoidbulkbulk RNA-seqColumbia University
GSE244368 GEOAll-defined NGN2 neuron protocol reveals multifaceted signatures of neuronal maturation [bulk_media]2024NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqGenentech
GSE244369 GEOAll-defined NGN2 neuron protocol reveals multifaceted signatures of neuronal maturation [bulk timecourse]2024NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqGenentech
GSE244370 GEOAll-defined NGN2 neuron protocol reveals multifaceted signatures of neuronal maturation [scRNA-seq]2024NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqGenentech
GSE244435 GEOEngrailed 1 deficiency induces changes in ciliogenesis during human neuronal differentiation2024Other neurons no exact timepoint2D directed differentiationbulkbulk RNA-seqHelmholtz Zentrum München
GSE244653 GEOAn integrated toolkit for human microglia functional genomics2024Microglia2D directed differentiationsingle-cell/nucleusscRNA-seqColumbia University
GSE244886 GEORNA-seq data for edited and unedited GAA repeats in FRDA patient iPSC-derived neurons2024Other neuronsNot statedbulkbulk RNA-seqUniversity of Texas at Austin
GSE245169 GEOA single-cell transcriptomic dataset of pluripotent stem cell-derived astrocytes via NFIB/SOX9 overexpression2024AstrocytesTF programmingsingle-cell/nucleusscRNA-seqShenzhen Institute of Advanced Technology，Chinese Academy of Sciences
GSE245323 GEODynamics and consequences of widespread transcript isoform changes during neuronal differentiation [RNA-Seq]2024NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqMax-Plack-Institute for Molecular Genetics
GSE245324 GEODynamics and consequences of widespread transcript isoform changes during neuronal differentiation [ONT-Seq]2024NGN2 / TF-programmedTF programming (NGN2)not statedother (ONT long-read seq)Max-Plack-Institute for Molecular Genetics
GSE245523 GEOParkinson's Disease Risk Enhancers in Microglia [RNA-seq]2024Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqVan Andel Institute
GSE245719 GEOThalamocortical organoids reveal axonogenesis phenotypes of 22q11.2 microdeletion [scRNA-seq]2024Cortical / excitatoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqUniversity of California, San Francisco
GSE246052 GEOCRISPRi-targeted raw RNA-seq data in iPSC-derived neurons. In this study, we performed RNA-sequencing to test transcriptomic changes of CRISPRi-targetd MIR family TE (chr11: 47608036-47608220) in iPSC-derived neurons.2024NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqCleveland Clinic
GSE247360 GEOABCA7 deficiency causes neuronal dysregulation by altering mitochondrial lipid metabolism2024OrganoidsOrganoidbulkbulk RNA-seqMayo Clinic
GSE247368 GEOPathogenic TSC2 variants alter developmental trajectories of human cortical organoids and perturb cell-cell communication networks [scRNA-seq]2024Cortical / excitatoryOrganoids no exact timepointOrganoidsingle-cell/nucleusscRNA-seqEmory University
GSE247890 GEOA multidimensional atlas of human glioblastoma-like organoids reveals highly coordinated molecular networks and effective drugs [RNA-seq]2024OrganoidsOrganoidbulkbulk RNA-seqDKFZ
GSE248085 GEOPrecise editing of pathogenic nucleotide repeat expansion in iPSCs without inducing DNA double-strand breaks using a prime editor [RNA-Seq]2024Motor no exact timepoint2D directed differentiationbulkbulk RNA-seqSungkyunkwan University
GSE248170 GEOMitochondrial complex I activity in microglia sustains neuroinflammation [bulk]2024Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity of Cambridge
GSE248342 GEOAAGGG repeat expansions trigger repeat-dependent synaptic dysregulation in human CANVAS Neurons [CANVAS_Control_Isogenic]2024NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqUniversity of Michigan
GSE248343 GEOAAGGG repeat expansions trigger repeat-dependent synaptic dysregulation in human CANVAS Neurons [RFC1_Knockdown]2024NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqUniversity of Michigan
GSE248344 GEOAAGGG repeat expansions trigger repeat-dependent synaptic dysregulation in human CANVAS Neurons [RFC1_Addition]2024NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqUniversity of Michigan
GSE248404 GEODisruption of nuclear speckle integrity dysregulates RNA splicing in C9ORF72-FTD/ALS2024NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqJohns Hopkins University School of Medicine
GSE248997 GEOStem Cell-derived Microglia Exhibit HAND Gene Expression Signature Early Upon Infection with HIV-1 [iPSCMG]2024Microglia no exact timepointNot statedbulkbulk RNA-seqCincinnati Children's Hospital Medical Center
GSE248998 GEOStem Cell-derived Microglia Exhibit HAND Gene Expression Signature Early Upon Infection with HIV-1 [iPSCMG_TFS]2024Microglia no exact timepointNot statedbulkbulk RNA-seqCincinnati Children's Hospital Medical Center
GSE249891 GEORNA seq in IPSCs derived dopaminergic neurons comparison of SNORD116MD versus control2024Dopaminergic no exact timepoint2D directed differentiationbulkbulk RNA-seqINSERM
GSE250142 GEORNA-sequencing reveals predominance of THRA splicing isoform 2 in developing human brain [untreated]2024OrganoidsOrganoidbulkbulk RNA-seqCharite
GSE250249 GEOLPS stimulation of APOE knock-out iPSC-derived microglia with different ApoE isoforms2024Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqDenali Therapeutics
GSE250609 GEOHuman iPSC-derived neurons reveal NMDAR-independent dysfunction following HIV-associated insults2024NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqUniversity of Pennsylvania, School of Dental Medicine
GSE251844 GEOBiphasic response of human iPSC-derived neural network activity following exposure to a sarin-surrogate nerve agent2024Cortical / excitatoryInhibitoryNot statedbulkbulk RNA-seqLLNL
GSE251886 GEONeural and Metabolic Dysregulation in PMM2 deficient human in vitro neural models2024OrganoidsOrganoidbulkbulk RNA-seqEmory University
GSE252522 GEOChronic exposure to glucocorticoids amplifies inhibitory neuron cell fate during human neurodevelopment in organoids [scRNA-seq]2024Cortical / excitatoryInhibitoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqMax Planck Institute of Psychiatry
GSE252624 GEOSingle-cell sequencing of human induced pluripotent stem cell-derived ventral midbrain astrocytes2024Other neuronsAstrocytes no exact timepoint2D directed differentiationbulkbulk RNA-seqN/A
GSE252761 GEOLoss of GTF2I promotes neuronal apoptosis and synaptic reduction in human cellular models of neurodevelopment2024Cortical / excitatoryOrganoidsOrganoidbulkbulk RNA-seqUNIVERSITY OF CALIFORNIA, SAN DIEGO
GSE253230 GEOLoss of UBE3A impacts both neuronal and non-neuronal cells in human cerebral organoids.2024Other neuronsOrganoidsOrganoidsingle-cell/nucleusscRNA-seqNorth Carolina State University
GSE253337 GEOMitochondrial anomalies in induced pluripotent stem cells from Alzheimer’s disease cases with Presenilin 1 mutation2024Other neuronsNot statedbulkbulk RNA-seqHMR
GSE253412 GEOImpaired T3 transport and action underlies the pathophisiology of the Allan-Herdon-Dudley syndrome2024OrganoidsOrganoidbulkbulk RNA-seqThe University of Chicago
GSE253569 GEOMolecular Insights into PCB Neurotoxicity: Comparing Transcriptomic Responses across Dopaminergic Neurons, Population Blood Cells, and Parkinson's Disease Pathology2024Dopaminergic no exact timepoint2D directed differentiationbulkbulk RNA-seqMaastricht University
GSE253623 GEOTherapeutic potential of human microglial transplantation in a chimeric model of CSF1R-related leukoencephalopathy2024Microglia no exact timepointXenograftbulkbulk RNA-seqUniversity of California, Irvine
GSE253788 GEOSupramolecular Mimic of Glial Cell Line-Derived Neurotrophic Factor and its Bioactivity on Human Dopaminergic Neurons2024Dopaminergic no exact timepointNot statedbulkbulk RNA-seqNorthwestern University
GSE253943 GEOBHLHE40/41 regulate microglia and peripheral macrophage responses associated with Alzheimer’s disease and other disorders of lipid-rich tissues.2024Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqIcahn School of Medicine at Mount Sinai
GSE254069 GEOExpression of ALS-PFN1 impairs vesicular degradation in iPSC-derived microglia.2024Microglia no exact timepointNot statedbulkbulk RNA-seqUMass Chan Medical School
GSE254205 GEOAPOE4/4 is linked to damaging lipid droplets in Alzheimer's microglia2024Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seq+ATAC-seqStanford University
GSE254389 GEONEUROD1 efficiently converts peripheral blood cells into neurons with partial reprogramming by pluripotency factors2024NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqKeio University School of Medicine
GSE254523 GEOSchizophrenia risk gene ZNF804A controls ribosome localization and synaptogenesis in developing human neurons2024NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqKing's College London
GSE254556 GEOJoubert Syndrome-derived induced pluripotent stem cells show altered neuronal differentiation in vitro2024Other neurons2D directed differentiationbulkbulk RNA-seqSan Raffaele Hospital
GSE254742 GEOSildenafil as a candidate drug for Alzheimer’s disease: Real-world patient data observation and mechanistic observations from patient-induced pluripotent stem cell-derived neurons.2024Other neuronsNot statedbulkbulk RNA-seqThe Cleveland Clinic Research
GSE255022 GEODual-targeting CRISPR-CasRx reduces C9orf72 ALS/FTD sense and antisense repeat RNAs in vitro and in vivo2024NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqUniversity College London
GSE255902 GEOHuman iPSC 4R tauopathy model uncovers modifiers of tau propagation [bulk RNA-seq]2024NGN2 / TF-programmedOther neuronsTF programmingbulkbulk RNA-seqWeill Cornell Medicine
GSE255904 GEOHuman iPSC 4R tauopathy model uncovers modifiers of tau propagation [scRNA-seq]2024NGN2 / TF-programmedOther neuronsTF programmingsingle-cell/nucleusscRNA-seqWeill Cornell Medicine
GSE255981 GEOPersistent epigenome anomalies in induced pluripotent stem cells from late-onset sporadic Alzheimer’s disease cases [scRNA-seq]2024Cortical / excitatory no exact timepointNot statedbulkbulk RNA-seqHMR
GSE255982 GEOPersistent epigenome anomalies in induced pluripotent stem cells from late-onset sporadic Alzheimer’s disease cases [RNA-seq]2024Cortical / excitatory2D directed differentiationbulkbulk RNA-seqHMR
GSE255988 GEOPolygenic Risk for Alcohol Use Disorder Affects Cellular Responses to Ethanol Exposure in a Human Microglial Cell Model I2024Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqRutgers University
GSE256210 GEOAutism patient derived SHANK2BY29X mutation affects ALDH1A1 negative dopamine neuron development2024Other neuronsNot statedbulkbulk RNA-seqGuangzhou Institutes of Biomedicine and Health
GSE259421 GEOStudies on the International Space Station to assess the effects of microgravity on iPSC-derived neural organoids2024Cortical / excitatoryDopaminergicMicrogliaOrganoids no exact timepointOrganoidbulkbulk RNA-seqNYSCF
GSE259432 GEOKCNJ2 inhibition mitigates mechanical injury in human brain organoids2024Cortical / excitatoryOrganoids no exact timepointOrganoidbulkbulk RNA-seqUniversity of Southern California
GSE260498 GEOInsights for disease modeling from single cell transcriptomics of iPSC-derived neurons and astrocytes across differentiation time and co-culture2024NGN2 / TF-programmedAstrocytes no exact timepointTF programming (NGN2)bulkbulk RNA-seqJohns Hopkins University
GSE260517 GEODevelopment of MAPT S305 mutation models exhibiting elevated 4R tau expression, resulting in altered neuronal and astrocytic function [bulkRNA-seq]2024Other neuronsAstrocytes no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity of Edinburgh
GSE260532 GEOKCNJ2 inhibition mitigates mechanical injury in human brain organoids [scRNA-seq]2024Other neuronsOrganoids no exact timepointOrganoidsingle-cell/nucleusscRNA-seqUniversity of Southern California
GSE260711 GEOChronic opioid treatment arrests neurodevelopment and alters synaptic activity in human midbrain organoids2024DopaminergicOrganoidsOrganoidbulk + single-cellbulk RNA-seq+scRNA-seqColumbia University
GSE260873 GEOExcitatory Neurons Derived from Human-Induced Pluripotent Stem Cells Show Transcriptomic Differences in Alzheimer’s Patients from Controls2024NGN2 / TF-programmedCortical / excitatory no exact timepointTF programming (NGN2)bulkbulk RNA-seqJohns Hopkins University
GSE260913 GEOTargeting EGLN2/PHD1 protects motor neurons and normalizes the astrocytic interferon response.2024MotorAstrocytes no exact timepoint2D directed differentiationbulkbulk RNA-seqVIB
GSE261110 GEOAberrant neurodevelopment in human iPS cell-derived astrocyte-neuron co-culture model of Alexander disease2024Other neuronsAstrocytes no exact timepointMixedbulkbulk RNA-seqInstitute of Biotechnology of the Czech Academy of Sciences
GSE261157 GEOAberrant neurodevelopment in human iPS cell-derived neural organoid model of Alexander disease2024OrganoidsOrganoidbulkbulk RNA-seqInstitute of Biotechnology of the Czech Academy of Sciences
GSE261691 GEO7q11.23 CNV alters ribosomal biogenesis, mTOR and neuronal intrinsic excitability [RNA-seq]2024NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqFondazione Human Technopole
GSE261848 GEOHeterozygous knockout of Synaptotagmin13 phenocopies ALS features and TP53 activation in human motor neurons2024Motor2D directed differentiationbulkbulk RNA-seqUlm University, Anatomy and Cell Biology
GSE261875 GEOTranscriptomic characterization of in vitro human iPSC-derived motor neuron systems for the exploration of cell autonomous mechanisms and modifiers of TDP-43 perturbation associated neurotoxicity2024Motor2D directed differentiationbulkbulk RNA-seqHarvard University
GSE262349 GEOTranscriptional changes following HIV infection of choroid plexus brain organoids2024MicrogliaOrganoids no exact timepointOrganoidsingle-cell/nucleusscRNA-seqGladstone institutes
GSE262929 GEOCellular and axonal transport phenotypes due to the C9ORF72 HRE in iPSC motor and sensory neurons2024MotorSensory2D directed differentiationbulkbulk RNA-seqUniversity of Oxford
GSE264012 GEOCharacterising day 90 human C9ORF72-ALS/FTD cerebral organoids at single cell level2024Other neuronsOrganoidsOrganoidsingle-cell/nucleusscRNA-seqUMC Utrecht
GSE264363 GEOGene expression profile at single cell level of hippocampal organoids2024Other neuronsOrganoidsOrganoidsingle-cell/nucleusscRNA-seqSouthern University of Science and Technology
GSE266358 GEOTranscriptomic study of human brain organoids in Alzheimer's Disease2024MicrogliaOrganoidsOrganoidbulkbulk RNA-seqUniversity of Groningen
GSE266359 GEOFully defined NGN2 neuron protocol reveals diverse signatures of neuronal maturation2024NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqGenentech
GSE267449 GEOExpanded ATXN1 alters transcription and calcium signaling in SCA1 human motor neurons derived from induced pluripotent stem cells2024Motor no exact timepointNot statedbulkbulk RNA-seqUniversity of Minnesota
GSE267791 GEOscRNAseq in human iPSC-derived motor neurons(hiPSC-MNs).2024Motor no exact timepointNot statedbulkbulk RNA-seqNiigata University
GSE268103 GEODPYSL2/CRMP2 isoform B knockout in human iPSC-derived glutamatergic neurons confirms its role in mTOR signaling and neurodevelopmental disorders2024NGN2 / TF-programmedCortical / excitatory no exact timepointTF programming (NGN2)bulkbulk RNA-seqJohns Hopkins University
GSE268384 GEOA Missense Variant in CASKIN1's Proline-Rich Region Segregates with Psychosis in a Three-Generation Family2024Cortical / excitatory no exact timepointNot statedbulkbulk RNA-seqJohns Hopkins University
GSE269153 GEOAlzheimer’s Disease Protective Allele of CLU Promotes Neuron Excitability, Neuron-glia Lipid Transfer and Astrocytic Lipid Droplets via neuronal CLU2024NGN2 / TF-programmedCortical / excitatory no exact timepointTF programming (NGN2)bulkbulk RNA-seqNorthShore University HealthSystem
GSE269798 GEOComparative characterization of human accelerated regions in neurons [PIPseq]2024NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)single-cell/nucleusscRNA-seqUCSF
GSE270472 GEOHuntingtin loss-of-function contributes to transcriptional deregulation in Huntington’s disease (RNA-Seq)2024Other neurons no exact timepoint2D directed differentiationbulkbulk RNA-seqIBCH PAS
GSE271810 GEOModeling Hereditary Diffuse Leukoencephalopathy with Axonal Spheroids using microglia-sufficient brain organoids2024Cortical / excitatoryMicrogliaOrganoids no exact timepointMixedbulkbulk RNA-seqshanghai jiaotong univeristy
GSE271852 GEOMutant Huntingtin impairs neurodevelopment in human brain organoids through CHCHD2-mediated neurometabolic failure2024OrganoidsOrganoidsingle-cell/nucleusscRNA-seqMax-Delbrück-Center for Molecular Medicine (MDC) in the Helmholtz Association
GSE272060 GEOHuman-Induced Pluripotent Stem Cell (iPSC)-Derived GABAergic Neuron Differentiation in Bipolar Disorder2024Inhibitory2D directed differentiationbulkbulk RNA-seqUniversity of Michigan
GSE272093 GEOCRISPRi-based screens in iAssembloids to elucidate neuron-glia interactions2024Other neuronsOrganoidsNot statedsingle-cell/nucleusscRNA-seqUCSF
GSE272394 GEOInflammatory intracellular signaling in neurons is influenced by glial soluble factors in iPSC-based cell model of PARK2-associated Parkinson’s disease2024Other neurons no exact timepointNot statedbulkbulk RNA-seqNational Research Centre "Kurchatov Institute"
GSE272812 GEONeuronal DNA repair reveals strategies to influence CRISPR editing outcomes2024NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqUCSF
GSE272827 GEOActivation of polo-like kinase 1 correlates with selective motor neuron vulnerability in familial ALS2024Cortical / excitatoryMotor2D directed differentiationbulkbulk RNA-seqUniversity Medical Center Rostock
GSE273553 GEOTesting effects of cell density on NGN2 iN transcriptom2024NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqGenentech
GSE273907 GEOGene expression responses to oxygen challenge in a panel of human brain organoids2024OrganoidsOrganoidsingle-cell/nucleusscRNA-seqUniversity of Chicago
GSE274249 GEOIntegrative analysis of long isoform sequencing and functional data identifies distinct cortical layer neuronal subtypes derived from human iPSC2024Cortical / excitatory no exact timepoint2D directed differentiationbulkbulk RNA-seqMohammad Bin Rashid University
GSE275064 GEOA Co-Culture Model of Dopaminergic and Glutamatergic Neurons Derived from Patients with Idiopathic Schizophrenia reveals a Hypodopaminergic Phenotype2024Cortical / excitatoryDopaminergic2D directed differentiationbulkbulk RNA-seqNMI at the University of Tuebingen
GSE275765 GEONeuronal Activity-Dependent Gene Dysregulation inC9orf72i3Neuronal Models of ALS/FTD Pathogenesis2024NGN2 / TF-programmedCortical / excitatory no exact timepointTF programming (NGN2)bulkbulk RNA-seqThomas Jefferson University
GSE275931 GEOExposure to the antiretroviral drug dolutegravir impairs structure and neurogenesis in a forebrain organoid model of human embryonic cortical development2024OrganoidsOrganoidbulkbulk RNA-seqUniversity of Pennsylvania
GSE276214 GEOCompartment-specific transcriptome of motor neurons reveals impaired extracellular matrix signaling and activated cell cycle kinases in FUS-ALS2024Motor2D directed differentiationbulkbulk RNA-seqUniversity Medical Center Rostock
GSE276803 GEOFenebrutinib, a Bruton’s tyrosine kinase inhibitor, blocks distinct human microglial signaling pathways2024NGN2 / TF-programmedMicrogliaAstrocytesOrganoids no exact timepointTF programming (NGN2)bulkbulk RNA-seqF. Hoffmann - La Roche AG
GSE276905 GEOImpact of LINE-1 overexpression on gene expression in human induced pluripotent stem cell-derived microglia2024Microglia no exact timepointTF programmingbulkbulk RNA-seqColumbia University
GSE277159 GEONeuronal lineage tracing from progenitors in human cortical organoids reveals mechanisms of neuronal production, diversity, and disease2024Cortical / excitatoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqCase Western Reserve University
GSE277636 GEOUptake of alpha-synuclein preformed fibrils is suppressed by inflammation and induces an aberrant phenotype in human microglia2024Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity of Eastern Finland
GSE277985 GEOComprehensive gene expression analysis using iPS cells derived from patients with sleep bruxism2024Other neuronsNot statedbulkbulk RNA-seqShowa University School of Dentistry
GSE278224 GEOAcute IL-6 exposure triggers canonical IL6Ra signaling in hiPSC microglia, but not neural progenitor cells2024Microglia2D directed differentiationbulkbulk RNA-seqKing's College London
GSE278265 GEOSynaptic decline precedes dopaminergic neuronal loss in human midbrain organoids harboring a triplication of the SNCA gene2024DopaminergicAstrocytesOrganoids no exact timepointOrganoidbulkbulk RNA-seqUniversity of Luxembourg
GSE278284 GEOComprehensive gene expression analysis using iPS cells derived from patients with sleep bruxism [snRNA-seq]2024Other neuronsNot statedsingle-cell/nucleussnRNA-seqShowa University School of Dentistry
GSE279125 GEOTranscriptional and Cellular Response of hiPSC-derived Microglia-Neural Progenitor Co-Cultures Exposed to IL-62024Microglia2D directed differentiationbulkbulk RNA-seqKing's College London
GSE279176 GEOMicroglial SHIP1 controls synaptic pruning in the developing hippocampus via the complement system2024Microglia no exact timepointNot statedbulkbulk RNA-seqIRCCS Azienda Ospedaliera Metropolitana Policlinico San Martino
GSE279321 GEODevelopment of MAPT S305 mutation models exhibiting elevated 4R tau expression, resulting in altered neuronal and astrocytic function [Targeted MAPT ISO-seq]2024Other neuronsAstrocytes no exact timepointNot statedbulkbulk RNA-seqUniversity of Edinburgh
GSE281177 GEOBulk RNA sequencing of human iPSC-derived microglia2024Microglia no exact timepointNot statedbulkbulk RNA-seqSanofi
GSE281178 GEOBulk RNA sequencing of a human iPSC-derived tri-culture2024Other neuronsMicrogliaAstrocytes no exact timepointMixedbulkbulk RNA-seqSanofi
GSE282112 GEOSingle-nucleus RNA sequencing of human periventricular white matter in vascular dementia [scRNA-Seq]2024Microglia no exact timepoint2D directed differentiationsingle-cell/nucleusscRNA-seqYale University
GSE282524 GEOAberrant Neuronal Connectivity and Network Activity of Neurons Derived from Patients with Idiopathic Schizophrenia2024NGN2 / TF-programmedCortical / excitatoryInhibitory no exact timepointTF programming (NGN2)bulkbulk RNA-seqLud.-Max.-University
GSE282665 GEOHuman VCP mutant ALS/FTD microglia display immune and lysosomal phenotypes independently of GPNMB2024MotorMicrogliaAstrocytes no exact timepointNot statedbulkbulk RNA-seqUniversity College London
GSE283118 GEOA pancreas–hippocampus feedback mechanism regulates circadian changes in depression-related behaviors2024Other neurons no exact timepointNot statedbulkbulk RNA-seqTsinghua university
GSE283473 GEOGene expression profile at single cell level of brain organoid at day56 of ctrl and WS2024OrganoidsOrganoidsingle-cell/nucleusscRNA-seqzhejiang university
GSE283629 GEOLong-Read Single-Cell Sequencing Confirms the Synaptic Disruptions and Developmental Delays in Neurabin I+/- iNeurons: Molecular Rescue via Gene-based Approaches2024NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqMohammad Bin Rashid University
GSE285270 GEOAutism mutations rewire protein interaction networks to drive neurodevelopmental pathology2024Cortical / excitatoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqUCSF
E-MTAB-11522 ArrayExpressAn in vivo neuroimmune organoid model to study human brain environment-dependent microglia phenotypes2023MicrogliaXenograftsingle-cell/nucleusscRNA-seqCenter for Organoid Systems Department of Psychiatry Technical University of …
E-MTAB-12339 ArrayExpressscRNA-seq of Human midbrain organoids differentiated from WTSIi018-B-1 (healthy) and EDi001-B (Parkinson's Disease) iPSCs2023DopaminergicOrganoidsOrganoidsingle-cell/nucleusscRNA-seqUniversity of Cambridge
E-MTAB-12402 ArrayExpresspolyA selected RNA-seq of wild-type human iPSC-derived cortical neurons upon cooling and rewarming2023NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqThe Francis Crick Institute UK Dementia Research Institute at King's College …
E-MTAB-12702 ArrayExpressTranscription profiling of human dorsal forebrain organoids treated with Hyper-IL-62023OrganoidsOrganoidbulkbulk RNA-seqHertie Institute for Clinical Brain Research Hertie Institute for Clinical …
E-MTAB-12743 ArrayExpressSingle-cell transcription profiling human dorsal forebrain organoids treated with Hyper-IL-62023Cortical / excitatoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqHertie Institute for Clinical Brain Research Hertie Institute for Clinical …
E-MTAB-7551 ArrayExpressKDM5C safeguards the appropriate timing of early neurodevelopment2023Cortical / excitatory2D directed differentiationbulkbulk RNA-seqDivision of Newborn Medicine and Epigenetics Program, Boston Children's …
GSE138120 GEOTranscriptomic profiling of electrophysiologically characterized human iPSC-derived motor neurons having SOD1 A4V mutation2023Motor2D directed differentiationsingle-cell/nucleusscRNA-seqBoston Children's Hospital
GSE147948 GEOMicroglia coordinate the anti-tumor immune response to breast cancer brain metastasis [MITRG 10X data]2023Microglia no exact timepointXenograftsingle-cell/nucleusscRNA-seqUniversity of California, Irvine
GSE165587 GEOSingle cell transcriptomic profiling of tau pathophysiology in a novel 3D neural-glial coculture model2023Other neuronsAstrocytes no exact timepointNot statedsingle-cell/nucleusscRNA-seqBoston University
GSE173180 GEOEnhancing human iPSC-derived retinal organoids by incorporating microglia-like cells2023Microglia no exact timepointMixedbulkbulk RNA-seqNewcastle University
GSE174379 GEOCellMap: Characterizing the types and composition of iPSC-derived cells from RNA-seq data2023Other neuronsMicrogliaAstrocytesOPC / oligodendrocytes2D directed differentiationbulkbulk RNA-seqBiogen Inc.
GSE178896 GEOProtein interaction studies in human induced neurons indicate convergent biology underlying autism spectrum disorders2023NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqBroad Institute
GSE181518 GEOSelf-organizing Single-Rosette Brain Organoids (SOSRS) from Human Pluripotent Stem Cells2023OrganoidsOrganoidsingle-cell/nucleusscRNA-seqUniversity of Michigan
GSE183201 GEOAdrenomedullin promotes the migration of interneurons in a human forebrain assembloid model for hypoxic interneuronopathy of prematurity.2023Cortical / excitatoryInhibitoryOrganoidsOrganoidbulkbulk RNA-seqUCSF
GSE191168 GEOBuffering of transcription rate by mRNA half-life is a conserved feature of Rett syndrome models2023Cortical / excitatory no exact timepointNot statedbulkbulk RNA-seqUniversity of Toronto
GSE195510 GEOFOXP1 Orchestrates Neurogenesis in Human Cortical Basal Progenitors2023Cortical / excitatoryOrganoids no exact timepointOrganoidbulkbulk RNA-seqUT Southwestern Medical Center
GSE196109 GEOAn epigenetic barrier sets the timing of human neuronal maturation2023Cortical / excitatory2D directed differentiationbulkbulk RNA-seqMemorial Sloan Kettering Cancer Center
GSE196219 GEOFUS-ALS hiPSC-derived astrocytes impair human motor units through both gain-of-toxicity and loss-of-support mechanisms2023Astrocytes2D directed differentiationbulkbulk RNA-seqVIB
GSE198033 GEOSingle cell analysis of iPSC-derived midbrain organoids (GBA1 mutant and controls)2023OrganoidsOrganoidbulkbulk RNA-seqInstitut Imagine, INSERM UMR1163
GSE200774 GEOFunctional implications of polygenic risk for schizophrenia in human neurons2023NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)single-cell/nucleusscRNA-seqIcahn School of Medicine at Mount Sinai
GSE203082 GEOActivity-Dependent Transcriptional Program in NGN2+ Neurons Enriched for Genetic Risk for Brain-Related Disorders2023NGN2 / TF-programmedCortical / excitatory no exact timepointTF programming (NGN2)bulkbulk RNA-seqIcahn School of Medicine at Mount Sinai
GSE203578 GEON6-methyladenosine regulates RNA metabolism and neurodegeneration in C9ORF72-ALS/FTD [seq_polyA_RNA-RIP]2023Other neuronsNot statedbulkbulk RNA-seqCAS Center for Excellence in Molecular Cell Science, CAS
GSE203579 GEON6-methyladenosine regulates RNA metabolism and neurodegeneration in C9ORF72-ALS/FTD [seq_polyA_RNA-decay]2023Other neuronsNot statedbulkbulk RNA-seqCAS Center for Excellence in Molecular Cell Science, CAS
GSE203580 GEON6-methyladenosine regulates RNA metabolism and neurodegeneration in C9ORF72-ALS/FTD [seq_total_RNA-MeRIP]2023Other neuronsNot statedbulkbulk RNA-seqCAS Center for Excellence in Molecular Cell Science, CAS
GSE203647 GEONeurofibromatosis 1 mutation impairs human induced pluripotent stem cell-derived microglia function2023Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqWashington University in St Louis
GSE206478 GEOFunctional characterization of Alzheimer´s disease genetic variants in microglia2023Microglia no exact timepointNot statedbulkbulk RNA-seqUCSF
GSE206614 GEOA loss-of-function mutation in human Oxidation Resistance 1 disrupts the spatial-temporal regulation of histone arginine methylation in neurodevelopment 2023Other neurons2D directed differentiationbulkbulk RNA-seqFaculty of Medicine and Health Sciences,NTNU
GSE206660 GEOPTBP2 knock-down RNA-seq from human iPSC-neurons2023Other neurons no exact timepointNot statedbulkbulk RNA-seqUniversity of Pennsylvania
GSE207533 GEOReduced synaptic activity and dysregulated extracellular matrix pathways in midbrain neurons from Parkinson’s disease patient2023Dopaminergic2D directed differentiationbulkbulk RNA-seqSalk Institute for Biological Studies
GSE207628 GEOFunctional characterization of Alzheimer´s disease genetic variants in microglia2023Microglia no exact timepointNot statedsingle-cell/nucleusscRNA-seqUCSF
GSE207629 GEOFunctional characterization of Alzheimer´s disease genetic variants in microglia2023Microglia no exact timepointNot statedsingle-cell/nucleusscRNA-seqUCSF
GSE208197 GEOpre-mRNA splicing order is defined and maintains splicing fidelity across multi-intronic transcripts [I]2023Motor2D directed differentiationbulkbulk RNA-seqUniversité de Sherbrooke
GSE208259 GEOpre-mRNA splicing order is defined and maintains splicing fidelity across multi-intronic transcripts [II]2023Motor no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversité de Sherbrooke
GSE208353 GEOAn iPSC-derived neuronal model of DNAJC6 parkinsonism reveals neurodevelopmental and synaptic vesicle recycling defects2023Dopaminergic no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity College of London
GSE208440 GEOChoroid plexus defects in Down syndrome brain organoids enhance neurotropism of SARS-CoV-22023Cortical / excitatoryOrganoids no exact timepointOrganoidbulkbulk RNA-seqQIMR Berghofer
GSE208722 GEOEffect of MKRN3 deletion on gene expression in hypothalamic neurons derived from human induced pluripotent stem cells (hiPSCs)2023Other neurons no exact timepoint2D directed differentiationbulkbulk RNA-seqBrigham and Women's Hospital/Harvard Medical School
GSE209696 GEORopinirole hydrochloride identified by iPSC drug discovery for amyotrophic lateral sclerosis: a single-centered, randomized, double-blind, placebo-controlled phase 1/2a trial2023Motor2D directed differentiationbulkbulk RNA-seqKeio University
GSE210682 GEOMethadone alters transcriptional programs associated with synapse formation in human cortical organoids2023OrganoidsOrganoidbulkbulk RNA-seqUniversity of California, San Diego
GSE211063 GEOKDM5C safeguards the appropriate timing of early neurodevelopment [RNA-seq]2023Cortical / excitatory2D directed differentiationbulkbulk RNA-seqBoston Children's Hospital
GSE211140 GEOTime series scRNAseq analysis in mouse and human informs optimization of rapid astrocyte differentiation protocols2023AstrocytesMixedbulk + single-cellbulk RNA-seq+multiomeNYU Langone Medical Center
GSE211993 GEOThe transcriptomic landscape of glutamatergic cortical neurons carrying Alzheimer’s disease PSEN1 mutations reveals alterations in structural components, signalling, and ncRNA regulation2023Cortical / excitatory2D directed differentiationbulkbulk RNA-seqUniversity of Copenhagen
GSE212990 GEOTranscript buffering and 3ʹUTR lengthening are shaped during human neurodevelopment by shifts in mRNA stability and microRNA load2023Other neurons no exact timepointNot statedbulkbulk RNA-seq+miRNA-seqUniversity of Toronto
GSE213798 GEOAberrant cortical layer development of brain organoids developed from Noonan syndrome-iPSCs2023Cortical / excitatoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqKorea Advanced Institute of Science and Technology
GSE214017 GEONucleocytoplasmic mRNA redistribution in ALS motor neurons and is reversed by VCP ATPase inhibition2023Motor no exact timepoint2D directed differentiationbulkbulk RNA-seqFrancis Crick Institute
GSE214382 GEOIdentifying the transcriptional output associated with distal regulatory elements where ASCL1 interacts with mSWI/SNF remodelers to regulate neural differentiation [RNA-seq]2023Other neurons2D directed differentiationbulkbulk RNA-seqThe Francis Crick Institute
GSE214422 GEOSingle cell gene expression profiles for isogenic PTEN panel iPSC-derived cortical organoids2023OrganoidsOrganoidsingle-cell/nucleusscRNA-seqCase Western Reserve University
GSE214700 GEOSingle cell transcriptomes of neurally differentiated wildtype and ASCL1-KO human iPSCs, in the presence of NOTCH inhibitor DAPT [scRNA-seq]2023Other neurons2D directed differentiationsingle-cell/nucleusscRNA-seqThe Francis Crick Institute
GSE215241 GEOAlteration of Microglial Metabolism and Inflammatory Profile Contributes to Neurotoxicity in Frontotemporal Dementia 32023Other neuronsMicroglia no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity of Copenhagen
GSE217625 GEOC9orf72-ALS human iPSC microglia are pro-inflammatory and toxic to co-cultured motor neurons via MMP92023MotorMicroglia2D directed differentiationbulkbulk RNA-seqUniversity of Oxford
GSE218635 GEOModulation of Notch signaling at early stages of differentiation of human induced pluripotent stem cells to dopaminergic neurons.2023Dopaminergic2D directed differentiationbulkbulk RNA-seqSaint-Petersburg State University
GSE219195 GEOThe psychosis risk gene RBM12 encodes a novel repressor of GPCR/cAMP signal transduction2023NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqDuke University
GSE220690 GEOMicroglia gravitate toward amyloid plaques surrounded by externalized phosphatidylserine via TREM22023MicrogliaOrganoids no exact timepointMixedsingle-cell/nucleusscRNA-seqSeoul National University
GSE220847 GEOCortical organoids in Huntington’s disease reveal a chaotic premature corticogenesis cascade and precede HD subcortical projections2023OrganoidsOrganoidbulkbulk RNA-seqFudan University
GSE221013 GEOSpecies-specific metabolic reprogramming in human and mouse microglia during inflammatory pathway induction2023Microglia no exact timepointNot statedbulkbulk RNA-seqUniversity of Groningen
GSE221032 GEOSingle cell RNA sequencing of human cortical organoids integrated with kirigami electronics.2023OrganoidsOrganoidsingle-cell/nucleusscRNA-seqStanford University
GSE221323 GEOSites of transcription initiation drive mRNA isoform selection [Human_3seq]2023OrganoidsOrganoidbulkbulk RNA-seqUniversity Basel
GSE221882 GEOSingle cell gene expression profiles for iPSC-derived cortical organoids2023OrganoidsOrganoidsingle-cell/nucleusscRNA-seqCase Western Reserve University
GSE222509 GEODysregulation of the chromatin environment leads to differential alternative splicing as a mechanism of disease in a human model of autism spectrum disorder2023Cortical / excitatory no exact timepointNot statedbulkbulk RNA-seqBrown University
GSE223020 GEOThree-dimensional molecular cartography of human cerebral organoids revealed by double-barcoded spatial transcriptomics2023OrganoidsOrganoidbulkbulk RNA-seqCNRS UMR8030
GSE223173 GEOFGF21 treatment and iPSC-derived neurons2023Cortical / excitatoryNot statedbulkbulk RNA-seqMayo Clinic
GSE223339 GEOSingle cell RNA-sequencing (scRNA-seq) of ISL1 knockout (KO) or knockdown and NKX2.5 KO compared to WT in cardiac progenitors (CPs); scRNA-seq of ISL1 KO compared to WT in motor neuron progenitors (MNPs)2023MotorNot statedsingle-cell/nucleusscRNA-seqJ David Gladstone Institutes
GSE223507 GEOThe regulative role of DAXX in the gene expression in C9HRE ALS/FTD patient motor neurons2023Motor no exact timepointNot statedbulkbulk RNA-seqJohns Hopkins University
GSE223638 GEOGenomic profiling of HIV-1 integration in microglia cells links viral integration to the topologically associated domains2023Microglia no exact timepoint2D directed differentiationsingle-cell/nucleusscRNA-seqCase Western Reserve University School of Medicine
GSE224096 GEORNA sequencing of postmortem-fibroblast derived cell lines and postmortem human Brodmann Area 9 from Cocaine Use Disorder Subjects in the University of Texas Health Science Center at Houston Brain Collection2023Other neurons2D directed differentiationbulkbulk RNA-seqUniversity of Texas Health Science Center at Houston
GSE224294 GEOGeneration and characterization of NGLY1 patient-derived midbrain organoids2023DopaminergicOrganoidsOrganoidbulkbulk RNA-seqNational Institutes of Health
GSE224751 GEOTime-course transcriptome analysis of TF-induced iPSC neurons2023NGN2 / TF-programmedCortical / excitatoryOrganoidsTF programmingbulkbulk RNA-seqRicoh Company, Ltd.
GSE225517 GEOSARS-CoV-2 induces dopaminergic neuronal loss in midbrain organoids during short and prolonged cultures2023DopaminergicOrganoidsOrganoidbulkbulk RNA-seqOrganoTherapeutics
GSE225761 GEOA model for studying homeostatic plasticity in human stem cell derived neuronal networks2023Cortical / excitatoryNot statedbulkbulk RNA-seqRadboudUMC
GSE226076 GEOTranscriptional characterization of iPSC-derived microglia as a model for therapeutic development in neurodegeneration [Bulk RNA-seq]2023Microglia no exact timepointNot statedbulkbulk RNA-seqCAMP4 Therapeutics
GSE226077 GEOTranscriptional characterization of iPSC-derived microglia as a model for therapeutic development in neurodegeneration [scRNA-seq]2023Microglia no exact timepointNot statedsingle-cell/nucleusscRNA-seqCAMP4 Therapeutics
GSE226233 GEOGenome-wide gene expression profiling post PCCB knockdown in human forebrain organoids2023OrganoidsOrganoidbulkbulk RNA-seqSchool of Life Sciences, Central South University
GSE226525 GEOEffect of knockout of and pathogenic mutations in HNRNPH2 on gene expression in human iPSC-derived neurons2023Other neuronsNot statedbulkbulk RNA-seqSt. Jude Children's Research Hospital
GSE226624 GEOIncreased G3BP2-Tau interaction in Tauopathies is a natural defense against Tau aggregation2023Other neurons no exact timepointNot statedbulkbulk RNA-seqF. Hoffmann-La Roche AG
GSE226705 GEOGene regulatory networks underlying human microglia maturation [RNA-seq]2023Microglia no exact timepointMixedbulkbulk RNA-seqUniversity of California, San Diego
GSE226890 GEOscRNAseq analysis of four populations sorted from midbrain organoids using Flow cytometry2023DopaminergicAstrocytesOrganoidsOrganoidsingle-cell/nucleusscRNA-seqMcGill University
GSE227221 GEOHuman Microglial State Dynamics in Alzheimer's Disease Progression [RNA-seq]2023Microglia no exact timepointNot statedbulkbulk RNA-seqWhitehead Institute
GSE227222 GEOHuman Microglial State Dynamics in Alzheimer's Disease Progression [scRNA-seq]2023Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqWhitehead Institute
GSE227513 GEOThe hypermorphic PLCγ2 S707Y variant dysregulates microglial cell function – Insight into PLCγ2 activation in brain health and disease, and opportunities for therapeutic modulation2023Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqARUK UCL Drug Discovery Institute
GSE227640 GEOGene expression profile at single cell level of human cerebral cortical organoids with and without LIF treatment2023Cortical / excitatoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqUniversity of California - San Francisco
GSE227925 GEOTransfer RNA pools in human cells are controlled by selective gene expression [RNA-seq]2023Other neurons no exact timepointNot statedbulkbulk RNA-seqMax Planck Institute for Biochemistry
GSE228115 GEOMAPT expression is mediated by long-range interactions with cis-regulatory elements [RNA-seq]2023NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulk + single-cellbulk RNA-seq+snRNA-seqHudsonAlpha Institute for Biotechnology
GSE228119 GEOMAPT expression is mediated by long-range interactions with cis-regulatory elements [RNA_timecourse]2023Other neurons2D directed differentiationbulkbulk RNA-seqHudsonAlpha Institute for Biotechnology
GSE228120 GEOMAPT expression is mediated by long-range interactions with cis-regulatory elements [scMultiomics]2023Other neurons2D directed differentiationsingle-cell/nucleusscRNA-seq+scATAC-seqHudsonAlpha Institute for Biotechnology
GSE228156 GEOKnockdown Gene Expression Profile of potential key drivers for Alzheimer’s Disease in human iPSC-derived neurons.2023Other neurons no exact timepointNot statedbulkbulk RNA-seqUniversity of Arizona
GSE228315 GEOSingle cell transcriptomic profiling of human brain organoids reveals developmental timing- and cell-type-specific vulnerabilities induced by NRXN1 CNVs in schizophrenia2023Cortical / excitatoryAstrocytesOrganoidsOrganoidsingle-cell/nucleusscRNA-seqCincinnati Children's Hospital Medical Center
GSE228348 GEOTranscriptome analysis of human iPSC-neurons treated with cardiac glycosides2023Other neurons2D directed differentiationbulkbulk RNA-seqBrigham and Women's Hospital
GSE228390 GEOLack of strong innate immune reactivity renders macrophages alone unable to control productive Varicella-Zoster Virus infection in an isogenic human iPSC-derived neuronal co-culture model.2023Other neurons no exact timepointMixedbulkbulk RNA-seqUniversity of Antwerp
GSE228681 GEOTranscriptome analysis from wild type and nHOTAIRM1 knock-out iPSC-derived spinal motor neurons2023Motor2D directed differentiationbulkbulk RNA-seqFederico II / IAC
GSE228755 GEOSystematic comparison of culture media uncovers phenotypic shift of primary human microglia defined by reduced reliance to CSF1R signaling2023Microglia no exact timepointNot statedbulkbulk RNA-seqMcGill University
GSE228997 GEOA high ratio of linoleic acid (n-6 PUFA) to alpha-linolenic acid (n-3 PUFA) adversely affects early stage of human neuronal differentiation and electrophysiological activity of glutamatergic neurons in vitro2023Cortical / excitatory2D directed differentiationbulkbulk RNA-seqCardiff University
GSE229254 GEOThe psychosis risk gene RBM12 encodes a novel repressor of GPCR/cAMP signal transduction II2023NGN2 / TF-programmedCortical / excitatory no exact timepointTF programming (NGN2)bulkbulk RNA-seqDuke University
GSE230647 GEOHuman neural networks with sparse TDP-43 pathology reveal NPTX2 misregulation in ALS/FTLD2023Other neurons2D directed differentiationbulk + single-cellbulk RNA-seq+scRNA-seqETH Zurich
GSE230917 GEOControl of cell identity and early neuronal fate commitment by the enhancer module of Integrator [RNA-Seq]2023Cortical / excitatory no exact timepoint2D directed differentiationbulkbulk RNA-seqThe Wistar Institute
GSE231341 GEOModeling early-onset sporadic Alzheimer’s disease using iPSC-derived neurons2023Other neurons no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity of California, San Diego
GSE232948 GEOCell type-specific cis-regulatory divergence in gene expression and chromatin accessibility revealed by human-chimpanzee hybrid cells [RNA-seq]2023Motor no exact timepointNot statedbulkbulk RNA-seqStanford University
GSE233258 GEOSynapse related gene expression is downregulated in SPG7 patient induced pluripotent stem cell derived cortical neurons2023Cortical / excitatory no exact timepoint2D directed differentiationbulkbulk RNA-seqNeuroscience Research Australia
GSE233262 GEOModerate intrinsic phenotypic alterations in C9orf72 ALS/FTD iPSC-microglia despite the presence of C9orf72 pathological features2023Other neuronsMicroglia no exact timepointNot statedbulkbulk RNA-seqTGen
GSE233460 GEONeurodevelopmental Defects in Human Cortical Organoids with N-acetylneuraminic Acid Synthase Mutation2023OrganoidsOrganoidbulkbulk RNA-seqChengdu West China-Frontier PharmaTech Co.,Ltd
GSE233567 GEOSpatially and temporally distinct patterns of expression for VPS10P domain receptors in human cerebral organoids.2023Other neuronsOrganoidsOrganoidsingle-cell/nucleusscRNA-seqOmiics ApS
GSE236398 GEOActivity-dependent cholesterol biosynthesis in human-derived astrocytes regulates the functional maturation of human-derived cortical neurons2023Cortical / excitatoryAstrocytes no exact timepointMixedbulkbulk RNA-seqUK Dementia Research Institute at Cardiff University
GSE237013 GEOMitochondria dysregulation contributes to secondary neurodegeneration progression post-contusion injury in human 3D in vitro triculture brain tissue model.2023Cortical / excitatoryMicrogliaMixedbulkbulk RNA-seqTufts University
GSE237104 GEOTMEM106B reduction or partial depletion does not rescue GRN haploinsufficiency in mouse and iPSC-derived human microglia cell models [Human iMG]2023Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqGenentech
GSE237133 GEOSingle cell profile of human iPSC-derived midbrain organoids from healthy individual, Parkinson disease patient harboring a Miro1R272Q mutation and its respective isogenic control2023DopaminergicAstrocytesOrganoidsOrganoidsingle-cell/nucleusscRNA-seqUniversity of Luxembourg
GSE237855 GEOGeneration of advanced cerebellar organoids for neurogenesis and neuronal network development2023Other neuronsOrganoidsOrganoidbulkbulk RNA-seqCase Western Reserve University
GSE238013 GEOCell-type-specific regulation of APOE and CLU levels in human neurons by the Alzheimer’s disease risk gene SORL12023NGN2 / TF-programmedMicrogliaAstrocytes no exact timepointTF programming (NGN2)bulkbulk RNA-seqBrigham and Womens Hospital
GSE238129 GEOUnveiling the effect of the Parkinson's disease related Miro1R272Q mutation in the transcriptome of human iPSC-derived dopaminergic neurons2023Dopaminergic2D directed differentiationbulkbulk RNA-seqUniversity of Luxembourg
GSE238213 GEOA de novo Missense Mutation in PPP2R5D Alters Dopamine Pathways and Morphology of iPSC-derived Midbrain Neurons2023Dopaminergic no exact timepoint2D directed differentiationbulkbulk RNA-seqUC Davis
GSE239367 GEOFunctional characterization of a single nucleotide polymorphism associated with Alzheimer’s Disease in a hiPSC-based neuron model.2023NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqAbbVie
GSE239509 GEOInfiltrating CD8+ T cells exacerbate Alzheimer’s disease pathology in a novel 3D human neuroimmune axis model2023Other neuronsMicroglia no exact timepointMixedsingle-cell/nucleusscRNA-seqMassachusetts General Hospital/Harvard Medical School
GSE240153 GEOSpatially and temporally distinct patterns of expression for VPS10P domain receptors in human cerebral organoids2023Other neuronsOrganoidsOrganoidsingle-cell/nucleusscRNA-seqOmiics ApS
GSE240447 GEOTelomere shortening in hiPSCs results in neuronal and astrocyte aging2023Other neuronsAstrocytes no exact timepointNot statedbulkbulk RNA-seqIMCB
GSE241127 GEOiPSC-derived microglia export cholesterol to neuronal cells in human brain organoids and promote their maturation2023Cortical / excitatoryMicrogliaOrganoids2D directed differentiationbulkbulk RNA-seqSIgN
GSE241631 GEOModeling early phenotypes of Parkinson’s disease by age-induced midbrain-striatum assembloids [scRNA-Seq]2023DopaminergicOrganoidsOrganoidsingle-cell/nucleussnRNA-seqUniveristy of Luxembourg
GSE242894 GEOiPSC-derived microglia export cholesterol to neuronal cells in human brain organoids and promote their maturation2023MicrogliaOrganoidsMixedbulkbulk RNA-seqA*STAR
GSE244091 GEOIntegrated multi-omics reveals mTOR-LPL-driven dysregulated lipid metabolism induces neuronal hyperexcitability in human microglia of tuberous sclerosis complex2023Other neuronsMicroglia no exact timepointNot statedbulkbulk RNA-seqEmory University
GSE244209 GEOINPP5D/SHIP1 regulates inflammasome activation in human microglia2023Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqBrigham and Womens Hospital
GSE244778 GEOTranscriptomic and morphological maturation of human astrocytes in cerebral organoids2023AstrocytesOrganoidsOrganoidbulkbulk RNA-seqAmsterdam UMC
GSE245113 GEOPotentiating NaV1.1 in Dravet Syndrome patient iPSC-derived GABAergic neurons increases neuronal firing frequency and decreases network synchrony2023Cortical / excitatoryInhibitory2D directed differentiationsingle-cell/nucleusscRNA-seqPfizer
GSE245513 GEO(CA)n oligonucleotides correct RNA mis-splicing in TDP-43 pathology (I)2023Cortical / excitatory no exact timepoint2D directed differentiationbulkbulk RNA-seqF. Hoffmann-La Roche AG
GSE245515 GEOKDM5-mediated transcriptional activation of ribosomal protein genes alters translation efficiency to regulate mitochondrial metabolism II.2023Cortical / excitatory no exact timepointNot statedbulkbulk RNA-seqAlbert Einstein College of Medicine
GSE246082 GEODysregulated neuroimmune interactions and sustained type I interferon signaling after human immunodeficiency virus type 1 infection of human iPSC derived microglia and cerebral organoids2023Microglia no exact timepointNot statedbulkbulk RNA-seqRutgers University
GSE246427 GEOFunctional maturation of human iPSC-derived pyramidal neurons in vivo is dependent on proximity with the host tissue2023Other neurons no exact timepoint2D directed differentiationbulkbulk RNA-seqInstitut Pasteur
GSE247600 GEOSingle-cell transcriptomics and in vitro lineage tracing reveals differential susceptibility of human iPSC-derived midbrain dopaminergic neurons in a cellular model of Parkinson’s disease2023DopaminergicNot statedsingle-cell/nucleusscRNA-seq+snRNA-seqUK Dementia Research Institute at Cardiff University
GSE247974 GEOHuman Cerebellar Organoids with functional Purkinje Cells2023OrganoidsOrganoidsingle-cell/nucleusscRNA-seqBroad Institute, USC Stem Cell & Regenerative Medicine
GSE249360 GEOSingle-cell transcriptomics and in vitro lineage tracing reveals differential susceptibility of human iPSC-derived midbrain dopaminergic neurons in a cellular model of Parkinson’s disease.2023Dopaminergic2D directed differentiationbulkbulk RNA-seqUK Dementia Research Institute at Cardiff University
GSE249624 GEOApically localized PANX1 impacts neuroepithelial expansion in human cerebral organoids2023OrganoidsOrganoidbulkbulk RNA-seqMemorial University of Newfoundland
GSE250255 GEO(CA)n oligonucleotides correct RNA mis-splicing in TDP-43 pathology (II)2023Other neurons no exact timepointNot statedbulkbulk RNA-seqF. Hoffmann-La Roche AG
GSE250378 GEOAutism genes converge on microtubule biology and RNA-binding proteins during excitatory neurogenesis2023NGN2 / TF-programmedCortical / excitatoryTF programmingsingle-cell/nucleusscRNA-seqUniversity of California, San Francisco
GSE250567 GEOHistone acetylation in an Alzheimer’s disease cell model promotes homeostatic amyloid-reducing pathways2023NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqUniversity of Pennsylvania
E-MTAB-12002 ArrayExpressMultiome experiment from GLI3 KO brain organoids2022OrganoidsOrganoidsingle-cell/nucleusmultiomeETH Zürich, DBSSE ETH Zürich, DBSSE
E-MTAB-12004 ArrayExpressMultiome experiment of the neuroepithelial stage of brain organoid developement2022OrganoidsOrganoidsingle-cell/nucleusmultiomeETH Zürich, DBSSE ETH Zürich, DBSSE
GSE118697 GEOModeling human telencephalic development and autism-associated SHANK3 deficiency using organoids generated from single neural rosettes [scRNA-seq]2022Other neuronsOrganoidsOrganoidsingle-cell/nucleusscRNA-seqUniversity of Utah
GSE126512 GEOAltered serotonergic circuitry in SSRI-resistant major depressive disorder patient-derived neurons2022Other neurons no exact timepointNot statedbulkbulk RNA-seqMax Planck Institute of Immunobiology and Epigenetics
GSE133615 GEOGenome-wide molecular effects of the neuropsychiatric 16p11 CNVs in an iPSC-iN neuronal model2022NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqAmgen Inc.
GSE144639 GEOChromatin profiling in human neurons reveals aberrant roles for histone acetylation and BRD4 in schizophrenia2022Cortical / excitatory no exact timepoint2D directed differentiationbulkbulk RNA-seqIcahn School of Medicine at Mount Sinai
GSE144857 GEOMolecular convergence between Down syndrome and Fragile X syndrome identified using human pluripotent stem cell models2022NGN2 / TF-programmedCortical / excitatory no exact timepointTF programming (NGN2)bulkbulk RNA-seqHarvard School of Public Health
GSE147633 GEOTranscription regulation of SNCA by dystonia type 6 gene product THAP1 [RNA-Seq]2022Dopaminergic no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity of Tuebingen
GSE155067 GEOGenome-wide transcriptome analysis of human iPSC-derived migratory cortical interneurons.2022Cortical / excitatoryInhibitory no exact timepoint2D directed differentiationbulkbulk RNA-seqEast Carolina University
GSE159392 GEOPatient-derived brain organoids uncover reversible cellular abnormalities in Pitt-Hopkins Syndrome2022Other neurons no exact timepointNot statedbulkbulk RNA-seqUniversity of Campinas
GSE159487 GEODeficient LEF1 expression is associated with lithium resistance and hyperexcitability in neurons derived from bipolar disorder patients2022Other neurons2D directed differentiationbulkbulk RNA-seqSalk Institute for Biological Studies
GSE159860 GEOPatient-derived brain organoids uncover reversible cellular abnormalities in Pitt-Hopkins Syndrome III2022Cortical / excitatoryInhibitoryOrganoids no exact timepointOrganoidbulkbulk RNA-seqUniversity of Campinas
GSE172409 GEOBioengineered models of Parkinson’s Disease using Patient-derived Dopaminergic Neurons exhibit distinct Biological Profiles in a 3D Microenvironment2022Dopaminergic no exact timepoint2D directed differentiationbulkbulk RNA-seqTufts University
GSE172459 GEOA study of how homozygous ALS-linked FUS P525L mutations perturb transcriptome profile in human iPSC-derived microglia2022Microglia2D directed differentiationbulkbulk RNA-seqRegeneron Pharmaceuticals
GSE172544 GEOTranscript analysis of hESC-derived neurons treated with maturation promoting compounds2022Cortical / excitatory2D directed differentiationbulkbulk RNA-seqMemorial Sloan Kettering Cancer Center
GSE176160 GEOPrimary cilia and SHH signaling impairments in human and mouse models of Parkinson’s disease2022Other neurons no exact timepoint2D directed differentiationsingle-cell/nucleusscRNA-seqHelmholtz Zentrum München
GSE178284 GEOSingle Transcriptional Factor (PU.1) Efficiently Leads Human iPS Cells to Functional Microglia2022MicrogliaMixedbulkbulk RNA-seqKeio University
GSE178601 GEOMature human iPS- and NMP-derived motor neurons in alginate neural ribbons [Alg60]2022Motor2D directed differentiationbulkbulk RNA-seqSUNY Polytechnic Institute
GSE178846 GEODevelopmentally informed large-scale production and cryopreservation of human induced pluripotent stem cell-derived microglia2022Microglia no exact timepointNot statedbulkbulk RNA-seqUniversity Hospital of Bonn
GSE179516 GEOTranscription factor-dependent differences in cluster composition and transition states of oligodendrocyte differentiation from human stem cells2022OPC / oligodendrocytesTF programmingsingle-cell/nucleusscRNA-seqLud.-Max.-University
GSE180793 GEOThe Alzheimer’s gene SORL1 is a key regulator of endosomal recycling in human neurons2022Other neurons no exact timepointNot statedbulkbulk RNA-seqUniversity of Washington
GSE181290 GEOEngineering large-scale perfused tissues via synthetic 3D soft microfluidics2022OrganoidsOrganoidbulkbulk RNA-seqKU Leuven
GSE181422 GEOSARS-CoV-2 Neurotropism and Single Cell Responses in Brain Organoids Containing Innately Developing Microglia2022Other neuronsMicrogliaOrganoidsOrganoidsingle-cell/nucleusscRNA-seqKarolinska Institute
GSE183903 GEOHuman striatal organoids derived from pluripotent stem cells recapitulate striatal development and compartments2022OrganoidsOrganoidbulk + single-cellbulk RNA-seq+scRNA-seqFudan University
GSE184102 GEOGenome-wide transcriptome analysis of human iPSC-derived healthy control vs schizophrenia developmental glutamatergic neurons.2022Cortical / excitatory no exact timepointNot statedbulkbulk RNA-seqEast Carolina University
GSE186121 GEOGrouping of UVCB Substances with Dose-Response Transcriptomics Data from Human Cell-Based Assays2022Other neurons no exact timepoint2D directed differentiationbulkbulk RNA-seqNational Instititute of Environmental Health Sciences
GSE186356 GEOSingle cell transcriptomic profiling of tau pathophysiology in a novel 3D neural-glial coculture model II2022Other neuronsAstrocytes no exact timepointNot statedsingle-cell/nucleusscRNA-seqBoston University
GSE186757 GEOWhole genome sequencing reveals that variants in the Interleukin 18 Receptor Accessory Protein 3′UTR protect against ALS2022Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqWeizmann Institute of Science
GSE188491 GEOChromatin accessibility mapping for GWAS risk loci reveals compound genetic effects of neurodevelopment and neurodegenerative disorders in human neurons2022NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seq+ATAC-seqNorthShore University HealthSystem
GSE189121 GEOPatient-derived brain organoids uncover reversible cellular abnormalities in Pitt-Hopkins Syndrome IV2022Other neurons no exact timepointNot statedbulkbulk RNA-seqUniversity of Campinas
GSE189226 GEOType I Interferon Signaling Mediates Microglial Dysfunction and Senescence in Human-Mouse Chimeric Brain Models of Down Syndrome and Alzheimer’s Disease [single-cell RNA-seq]2022MicrogliaOrganoids no exact timepointXenograftsingle-cell/nucleusscRNA-seqRutgers University
GSE189981 GEOEnhanced cortical neural stem cell identity through short SMAD/WNT inhibition in human cerebral organoids facilitates emergence of outer radial glial cells.2022Cortical / excitatoryOrganoidsOrganoidbulk + single-cellbulk RNA-seq+scRNA-seqMax Planck Institute for Molecular Genetics
GSE190185 GEOCholesterol and matrisome pathways dysregulated in APOE ε4 human microglia and astrocytes [isogenicAPOE]2022MicrogliaAstrocytes no exact timepointNot statedbulkbulk RNA-seqBoston University
GSE190187 GEOCholesterol and matrisome pathways dysregulated in APOE ε4 human microglia and astrocytes [populationAPOE]2022Other neuronsMicrogliaAstrocytes no exact timepointNot statedbulkbulk RNA-seqBoston University
GSE192566 GEOGlobal analyses of mRNA expression in human sensory neurons reveals eIF5A as a conserved target for inflammatory pain2022SensoryAstrocytes no exact timepointMixedbulkbulk RNA-seqUniversity of Wisconsin - Madison
GSE192755 GEOMicroglia influence neurofilament deposition in ALS iPSC-derived motor neurons2022Motor2D directed differentiationbulkbulk RNA-seqMedical College of Wisconsin
GSE193102 GEOOrthogonally induced differentiation of stem cells for the pattering of vascularized organoids and bioprinted tissues [scRNA-seq]2022Cortical / excitatoryOrganoidsMixedbulkbulk RNA-seqHarvard University
GSE193148 GEOOrthogonally induced differentiation of stem cells for the pattering of vascularized organoids and bioprinted tissues [bulkRNA-seq]2022NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqHarvard University
GSE193191 GEODevelopment of a platform to investigate long term potentiation in human iPSC-derived neuronal networks2022DopaminergicAstrocytes no exact timepoint2D directed differentiationbulkbulk RNA-seqSanford Burnham Prebys Medical Discovery Insititute
GSE193710 GEODNA damage contributes to neurotoxic inflammation in Aicardi-Goutières Syndrome astrocytes [scRNA-Seq]2022Other neuronsAstrocytesOPC / oligodendrocytes no exact timepointNot statedsingle-cell/nucleusscRNA-seqSR-TIGET
GSE193711 GEODNA damage contributes to neurotoxic inflammation in Aicardi-Goutières Syndrome astrocytes [RNA-Seq]2022Other neuronsAstrocytes no exact timepoint2D directed differentiationbulkbulk RNA-seqSR-TIGET
GSE195505 GEOQuantitative Analysis of transcriptome in organoids derived from TP190 wildtype(WT) and Williams Syndrome(NSUN-GTF2ird2+/-) human induced Pluripotent Stem Cell2022OrganoidsOrganoidbulkbulk RNA-seqSt. Jude Children's Research Hospital
GSE195666 GEOHuman iPSC-derived cerebral organoids reveal progenitor pathology in EML1-linked cortical malformation2022Cortical / excitatoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqHector Institute for Translational Brain Research
GSE196144 GEOPathogenic mutation of TDP-43 impairs RNA processing in a cell type-specific manner2022Cortical / excitatory2D directed differentiationbulkbulk RNA-seqStanford University
GSE196190 GEOTranscriptomics analysis of human iPSC-derived dopaminergic neurons reveals a novel model for sporadic Parkinson’s disease2022Dopaminergic no exact timepoint2D directed differentiationbulkbulk RNA-seqMaastricht University
GSE196491 GEOKCNJ6 variants associated with alcohol use disorder (AUD) in human induced neurons2022NGN2 / TF-programmedCortical / excitatory no exact timepointTF programming (NGN2)bulkbulk RNA-seqRutgers University
GSE196855 GEOMapping cis-regulatory elements in human excitatory and inhibitory neurons links psychiatric disease heritability and activity-regulated transcriptional programs [RNA-seq]2022NGN2 / TF-programmedCortical / excitatoryInhibitoryTF programming (NGN2)bulkbulk RNA-seqMount Sinai
GSE197725 GEOsAPPa, a neuroprotective protein in the brain has widespread effects on the transcriptome and proteome of human iPSC-derived glutamatergic neurons related to memory mechanisms.2022NGN2 / TF-programmedCortical / excitatory no exact timepointTF programming (NGN2)bulkbulk RNA-seqUniversity of Otago
GSE199154 GEOEffects of ATV:TREM2 and pro-inflammatory stimuli on transcriptome of WT iPSC-derived microglia2022Microglia2D directed differentiationbulkbulk RNA-seqDenali Therapeutics
GSE199349 GEOTime series mRNA abundance measurement triggered by ActinomycinD treatment in patient iPSC derived neurons2022NGN2 / TF-programmedCortical / excitatory no exact timepointTF programming (NGN2)bulkbulk RNA-seqBrigham and Women's Hospital
GSE199355 GEOExtrinsic factors facilitate neurogenesis in a human induced pluripotent stem cell-derived model of the dentate gyrus2022Other neurons2D directed differentiationbulkbulk RNA-seqIstituto Italiano di Tecnologia - I
GSE199787 GEOGenome-wide transcriptome profiling Brain-Chip and Conventional Cell Culture System Using RNA-seq2022Other neuronsMixedbulkbulk RNA-seqEmulate Inc.
GSE200037 GEOCo-culture of iPSC-derived microglia and spinal motor neurons as a novel model for amyotrophic lateral sclerosis2022MotorMicroglia2D directed differentiationbulkbulk RNA-seqUniversity of Oxford
GSE200225 GEOA CRISPR-engineered Isogenic Model Reveals Altered Neuronal Phenotypes of the 22q11.2 A-B Syndromic Deletion2022Cortical / excitatory2D directed differentiationbulkbulk RNA-seqUniversity of California San Francisco
GSE200530 GEOTargeting RTN4/NoGo-Receptor reduces levels of ALS protein ataxin-22022NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqStanford University
GSE200555 GEOInterleukin-4 receptor signaling modulates neuronal network activity2022Other neurons no exact timepointNot statedbulkbulk RNA-seqUniversity Medical Centre Mainz
GSE200907 GEOA non-synonymous SNP in SIRT6 predicts neurological severity in Friedreich ataxia2022Other neurons no exact timepointNot statedbulkbulk RNA-seq+ChIP-seqThe Scripps Research Institute
GSE201084 GEORecapitulation of endogenous 4R tau expression and formation of insoluble tau in directly reprogrammed human neurons2022Other neurons no exact timepointMixedbulk + single-cellbulk RNA-seq+scRNA-seqWashington University in Saint Louis
GSE201407 GEOLongitudinal and transversal comparison of iPSC-derived ALS_C9orf72 and healthy motor neurons at DIV21 and DIV422022MotorNot statedbulkbulk RNA-seqUlm University
GSE201523 GEOTrisomy 21 human iPSC derived interneuron progenitors2022Inhibitory2D directed differentiationsingle-cell/nucleusscRNA-seqUniversity of Wisconsin - Madison
GSE201897 GEOMECP2-related pathways are dysregulated in a cortical organoid model of Myotonic dystrophy [bulk RNA-Seq]2022OrganoidsOrganoidbulkbulk RNA-seqUCSD
GSE202985 GEORNA-binding protein ELAVL4/HuD ameliorates Alzheimer's disease-related molecular changes in human iPSC-derived neurons2022NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqRadboud UMC
GSE203019 GEOLipid Accumulation Induced by APOE4 Impairs Microglial Surveillance of Neuronal-Network Activity2022Microglia2D directed differentiationbulkbulk RNA-seqMassachusetts Institute of Technology
GSE203168 GEOBulk RNA-sequencing of FUS H517Q and healthy iPSC-derived motor neurons2022Motor2D directed differentiationbulkbulk RNA-seqLiving Systems Institute, University of Exeter
GSE203172 GEOIdentifying miR-139 targets in motor neurons2022Motor2D directed differentiationbulkbulk RNA-seqLiving Systems Institute, University of Exeter
GSE203530 GEOAlcohol reverses the effects of KCNJ6 (GIRK2) noncoding variants on excitability of human glutamatergic neurons2022NGN2 / TF-programmedCortical / excitatory no exact timepointTF programmingsingle-cell/nucleusscRNA-seqRutgers University
GSE204778 GEOCRISPR modeling reveals transcriptional and functional changes associated with structural variant disruption to MEF2C and 5q14.3 topological organization in neuronal lineages2022NGN2 / TF-programmedCortical / excitatory no exact timepointTF programming (NGN2)bulkbulk RNA-seqMGH
GSE204930 GEOIdentification and Characterization of a MAPT-targeting Locked Nucleic Acid Antisense Oligonucleotide Therapeutic for Tauopathies I2022Cortical / excitatory no exact timepoint2D directed differentiationbulkbulk RNA-seqGenentech, Inc
GSE205422 GEONetwork-based integrative analysis of lithium response in bipolar disorder using transcriptomic and GWAS data2022Other neurons no exact timepointNot statedbulkbulk RNA-seqUniversity of California, San Diego
GSE206327 GEOGPNMB confers risk for Parkinson’s disease through interaction with alpha-synuclein2022NGN2 / TF-programmedOther neuronsTF programmingbulkbulk RNA-seqUniversity of Pennsylvania
GSE207099 GEOCROPSeq of Putative AD- and PSP-associated cis-Regulatory Regions in iPSC-derived Neurons and Microglia2022NGN2 / TF-programmedMicroglia no exact timepointTF programming (NGN2)single-cell/nucleusscRNA-seqUniversity of California San Francisco
GSE207466 GEOGlycosylated clusterin species facilitate amyloid beta toxicity in human neurons.2022Other neurons no exact timepointNot statedbulkbulk RNA-seqUniversity of Oxford
GSE207749 GEOFunctional neuronal circuitry and oscillatory dynamics in human brain organoids2022OrganoidsOrganoidsingle-cell/nucleusscRNA-seqUniversity of California Santa Barbara
GSE207984 GEODiverse maturity-dependent and complementary anti-apoptotic brakes safeguard human iPSC-derived neurons from cell death [RNA-seq]2022Cortical / excitatory2D directed differentiationbulkbulk RNA-seqHector Institute for Translational Brain Research
GSE207985 GEODiverse maturity-dependent and complementary anti-apoptotic brakes safeguard human iPSC-derived neurons from cell death [scRNA-seq]2022Cortical / excitatory2D directed differentiationbulkbulk RNA-seqHector Institute for Translational Brain Research
GSE208418 GEOHuman Tau Mutations in Cerebral Organoids Induce a Progressive Dyshomeostasis of Cholesterol2022AstrocytesOrganoidsOrganoidbulkbulk RNA-seqUniversity of California Santa Barbara
GSE208438 GEODepressive patient-derived GABA interneurons reveal abnormal neural activity associated with HTR2C2022InhibitoryOrganoids2D directed differentiationbulk + single-cellbulk RNA-seq+scRNA-seqNanjing Medical University
GSE208575 GEOChoroid plexus defects in Down syndrome brain organoids enhance neurotropism of SARS-CoV-22022OrganoidsOrganoidbulkbulk RNA-seqThe University of Queensland
GSE208781 GEOCell cycle arrest of neural progenitors causes impaired dopaminergic neuronal differentiation in GBA associated Parkinson’s disease midbrain organoids [1]2022DopaminergicOrganoids no exact timepointOrganoidbulkbulk RNA-seqUniversity of Luxembourg
GSE208783 GEOCell cycle arrest of neural progenitors causes impaired dopaminergic neuronal differentiation in GBA associated Parkinson’s disease midbrain organoids [2]2022DopaminergicOrganoids no exact timepointOrganoidbulkbulk RNA-seqUniversity of Luxembourg
GSE210316 GEOActive DNA demethylation promotes cell fate specification and the DNA damage response [RNA-Seq]2022NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqCenter for Excellence in Molecular Cell Science
GSE210959 GEOModeling human telencephalic development and autism-associated SHANK3 deficiency using organoids generated from single neural rosettes [bulk RNA-seq1]2022Other neuronsOrganoidsOrganoidbulkbulk RNA-seqUniversity of Utah
GSE210969 GEODownstream Effects of Mutations in SOD1 and TARDBP Converge on Gene Expression Impairment in Patient-Derived Motor Neurons2022Motor2D directed differentiationbulkbulk RNA-seq+small RNA-seqUniversity Medical Center Rostock
GSE211103 GEOTissue and cell-type specific molecular and functional signatures of 16p11.2 reciprocal genomic disorder across mouse brain and human neuronal models.2022NGN2 / TF-programmedOrganoids no exact timepointTF programming (NGN2)bulk + single-cellbulk RNA-seq+scRNA-seqMassachusetts General Hospital
GSE212248 GEOEnhanced Innate Response In RB1 deficient Microglia Derived From Retinoblastoma Patient2022Microglia no exact timepointNot statedbulkbulk RNA-seqBeijing Institute of Ophthalmology (BIO)
GSE212252 GEOBalanced SET levels favor the correct enhancer repertoire during cell fate acquisition2022Other neurons no exact timepointNot statedbulkbulk RNA-seqOspedale San Raffaele
GSE213232 GEORegulation of synaptic connectivity in schizophrenia by mutual neuron-microglia interaction2022Other neuronsMicrogliaNot statedbulkbulk RNA-seqNMI at the University of Tuebingen
GSE213288 GEOsnRNA-Seq data of human iPSC-midbrain organoids without and with microglia2022DopaminergicMicrogliaOrganoidsOrganoidsingle-cell/nucleussnRNA-seqLCSB
GSE213330 GEOImpact of KIF26A loss in human forebrain organoids2022Cortical / excitatoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqBoston Children's Hospital
GSE213569 GEOGene expression profile at the singe-cell level on human induced pluripotent stem cell (hiPSC) derived midbrain dopaminergic neurons2022Dopaminergic2D directed differentiationsingle-cell/nucleusscRNA-seqThe Francis Crick Institute
GSE214108 GEORNA-Targeting CRISPR/Cas13d System Alleviates Disease-Related Phenotypes in Pre-clinical Models of Huntington’s Disease (Human).2022Other neuronsNot statedbulkbulk RNA-seqUCSD
GSE215183 GEOExcitatory dysfunction drives network and calcium handling deficits in 16p11.2 duplication schizophrenia iPSC-derived neurons2022NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqNorthwestern University
GSE217320 GEOModeling gene × environment interactions in PTSD using human neurons reveals diagnosis-specific glucocorticoid-induced gene expression2022NGN2 / TF-programmedCortical / excitatory no exact timepointTF programming (NGN2)bulkbulk RNA-seqIcahn School of Medicine at Mount Sinai
GSE218079 GEOSYF2 Suppression Mitigates Neurodegeneration in Models of Diverse Forms of ALS2022NGN2 / TF-programmedMotor no exact timepointTF programmingbulkbulk RNA-seqUniversity of Southern California
GSE218513 GEOEffect of treatment with A11 (20 M) on human iPS derived microglia under inflammatory conditions2022Microglia no exact timepointNot statedbulkbulk RNA-seqMIT
GSE219317 GEOEvidence of shared transcriptomic dysregulation of HNRNPU-related disorder between human organoids and embryonic mice2022OrganoidsOrganoidsingle-cell/nucleusscRNA-seqColumbia University
GSE220213 GEOEngineering an inhibitor resistant human CSF1R variant for microglia replacement [InVitro_RNA]2022Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity of California, Irvine
GSE220214 GEOEngineering an inhibitor resistant human CSF1R variant for microglia replacement [InVivo_RNA]2022MicrogliaXenograftbulkbulk RNA-seqUniversity of California, Irvine
GSE221015 GEOPIKFYVE Inhibition Mitigates Disease in Models of Diverse Forms of ALS [1]2022Motor no exact timepointNot statedbulkbulk RNA-seqUniversity of Southern California
GSE221016 GEOPIKFYVE Inhibition Mitigates Disease in Models of Diverse Forms of ALS [2]2022NGN2 / TF-programmedMotor no exact timepointTF programmingbulkbulk RNA-seqUniversity of Southern California
GSE221027 GEOHuman PSEN1 Mutant Glia Improve Spatial Learning and Memory in Aged Mice2022AstrocytesXenograftbulkbulk RNA-seqUniversity of Helsinki
GSE79965 GEORegulatory genomic profiling in pure iPSC-derived human cortical neurons2022Cortical / excitatory no exact timepointNot statedbulkbulk RNA-seqStanford University
GSE95673 GEOEndotype reversal as a novel strategy for screening drugs targeting familial Alzheimer's disease2022Other neurons no exact timepointNot statedbulkbulk RNA-seqUniversity of California, San Diego
E-MTAB-10201 ArrayExpressSingle cell sequencing of wild-type and mutant iPSC-derived hypothalamic arcuate-like neurons cells (deletion of hg19:chr16:53,796,691-53,832,771 / hsFTOΔ36)2021Other neurons no exact timepoint2D directed differentiationsingle-cell/nucleusscRNA-seqUniversity of Chicago University of Chicago
E-MTAB-10352 ArrayExpressRNA-Seq of human fibroblasts, induced neurons (iNs), iPSCs, and iPSC-derived neurons, and ATAC-Seq of fibroblasts and iNs from a cohort of Alzheimer patients and controls2021NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqUniversity of Innsbruck Salk Institute
E-MTAB-10461 ArrayExpressGene expression profiling (RNA-seq) of SGBS human preadipocytes (days 0, 2, 8 and 16 of differentiation to adipocytes) and iPSC-derived hypothalamic neurons (days 12, 16 and 27 of differentiation)2021Other neurons2D directed differentiationbulkbulk RNA-seqUniversity of Chicago
E-MTAB-10464 ArrayExpressGene expression profiling (RNA-seq) of human iPSCs, iPSC-derived ventralized cells, neurons, and hypothalamic neurons where regions of the genome have been deleted that contain the single nucleotide polymorphisms rs9972768 or rs26504922021Other neurons no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity of Chicago
E-MTAB-10605 ArrayExpressSingle nucleus RNA sequencing of human iPSC-derived forebrain organoids to assay cell type composition2021OrganoidsOrganoidsingle-cell/nucleussnRNA-seqCenter for Molecular Biology of Heidelberg University (ZMBH) Heidelberg …
E-MTAB-10632 ArrayExpressNgn2 induces diverse neuronal lineages from human pluripotency2021NGN2 / TF-programmedTF programming (NGN2)single-cell/nucleusscRNA-seqD-BSSE, ETH Zurich Institute of Molecular and Clinical Ophthalmology Basel …
E-MTAB-10666 ArrayExpressRNA-seq of human iPSC-derived neurons CRISPR-engineered to express a Q331K point mutation in the TARDBP locus and comparison to isogenic controls2021Motor no exact timepointNot statedbulkbulk RNA-seqUniversity of Washington
E-MTAB-10974 ArrayExpressLineage recording in human cerebral organoids (whole organoids)2021OrganoidsOrganoidsingle-cell/nucleusscRNA-seqUniversity of Basel ETH Zurich, D-BSSE ETH Zurich, D-BSSE ETH Zurich, D-BSSE
E-MTAB-9085 ArrayExpressRNA-seq of iPSC-derived NPCs and neurons from CHOPWT10 and CHOPWT14 cell lines2021Other neurons no exact timepointNot statedbulkbulk RNA-seqCenter for Spatial and Functional Genomics, Children’s Hospital of …
E-MTAB-9383 ArrayExpressThe Role of SQSTM1 (P62) in Mitochondrial Function and Clearance in Human Cortical Neurons2021Cortical / excitatory no exact timepointNot statedbulkbulk RNA-seqAstex Pharmaceuticals
GSE126358 GEODefective metabolic programming impairs early neuronal morphogenesis in neural cultures and an organoid model of Leigh syndrome [polyA RNA-seq]2021DopaminergicNot statedbulkbulk RNA-seqMax Delbrück Center for Molecular Medicine
GSE126359 GEODefective metabolic programming impairs early neuronal morphogenesis in neural cultures and an organoid model of Leigh syndrome [rRNA-depleted RNA-seq]2021DopaminergicNot statedbulkbulk RNA-seqMax Delbrück Center for Molecular Medicine
GSE134453 GEODefective metabolic programming impairs early neuronal morphogenesis in neural cultures and an organoid model of Leigh syndrome [rRNA-depleted organoids]2021OrganoidsOrganoidbulkbulk RNA-seqMax Delbrück Center for Molecular Medicine
GSE135131 GEONetwork effects of the 15q13.3 microdeletion on the transcriptome and epigenome in human induced neurons2021NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqStanford University
GSE141388 GEOMutations in CHMP2B Causes Impaired Autophagy and Distorted Energy Metabolism cumulating in Reactive Astrocyte Phenotypes2021Astrocytes2D directed differentiationbulkbulk RNA-seqUniversity Copenhagen
GSE142174 GEOCortical organoids model early brain development disrupted by 16p11.2 CNV in autism2021OrganoidsOrganoidbulkbulk RNA-seqUniversity of California San Diego
GSE143908 GEOAlterations in neuronal physiology, development, and function associated with a common duplication of chromosome 15 involving CHRNA7.2021Cortical / excitatoryOrganoidsOrganoidbulkbulk RNA-seqWashington University School of Medicine
GSE144197 GEOCadherin-13 is a critical regulator of GABAergic modulation in human stem-cell-derived neuronal networks2021Cortical / excitatoryInhibitory2D directed differentiationbulkbulk RNA-seqRadboudumc
GSE146339 GEOCell-type-specific profiling of defects in translation and neurogenesis in a human iPSC model of fragile X syndrome2021OrganoidsOrganoidbulkbulk RNA-seqEmory University
GSE146878 GEOFMRP-Mediated Gene Regulation in Human Brain Development2021OrganoidsOrganoidbulk + single-cellbulk RNA-seq+scRNA-seqMD Anderson Cancer Center
GSE151996 GEOGenome-wide mRNA profiling of styrene oxide effects in human induced pluripotent stem cells-derived neurons2021Cortical / excitatory no exact timepointNot statedbulkbulk RNA-seqJohns Hopkins School of Medicine
GSE151997 GEOGenome-wide mRNA profiling of Edaravone (MCI-186) effects in human induced pluripotent stem cells-derived motor neurons2021Motor no exact timepointNot statedbulkbulk RNA-seqJohns Hopkins School of Medicine
GSE152915 GEOiPSC-derived 2D and 3D models of mitochondrial disease reveal early defects in neuronal morphogenesis and identify intervention strategies2021Other neuronsOrganoidsOrganoidbulkbulk RNA-seqMax Delbrück Center for Molecular Medicine
GSE153110 GEOA microRNA signature for early detection and RNA therapy in Alzheimer´s disease (3-microRNA mimic)2021OrganoidsOrganoidbulkbulk RNA-seqDZNE
GSE153325 GEONext Generation Sequencing of PD-iPSC derived midbrain dopaminergic(mDA) neurons treated with CDC (C021 dihychloride) or BAG (BAG 956)2021Dopaminergic2D directed differentiationbulkbulk RNA-seqJHMI
GSE153990 GEOAn iPSC-derived midbrain dopaminergic neuronal model of aromatic amino acid decarboxylase (AADC) deficiency gives insight into neurodevelopmental disease features2021Dopaminergic no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity College of London
GSE154799 GEOCell type-specific changes in transcriptomic profiles of endothelial cells, iPSC-derived neurons and astrocytes cultured on microfluidic chips2021NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqRadboudumc
GSE154825 GEOSonlicromanol improves neuronal network dysfunction and transcriptome changes linked to m.3243A>G heteroplasmy in iPSC-derived neurons2021NGN2 / TF-programmedCortical / excitatoryAstrocytesTF programmingbulkbulk RNA-seqRadboudumc
GSE155552 GEOParallel in vivo analysis of large-effect autism genes implicates cortical neurogenesis and estrogen in risk and resilience [human]2021NGN2 / TF-programmedCortical / excitatoryTF programmingbulkbulk RNA-seqUCSF
GSE155554 GEOParallel in vivo analysis of large-effect autism genes implicates cortical neurogenesis and estrogen in risk and resilience2021Cortical / excitatoryNot statedbulkbulk RNA-seqUCSF
GSE156723 GEODNA methyation of intragenic CpG islands are required for differentiation from iPSC to NPC2021Other neurons no exact timepointNot statedbulkbulk RNA-seqYonsei university
GSE156911 GEOEarly developmental alteration of neurite outgrowth occurs besides late-appearing neurodegenerative processes in Wolfram syndrome2021Other neurons no exact timepointNot statedbulkbulk RNA-seqI-Stem
GSE157467 GEOPersistent mRNA localization defects and cell death in ALS neurons caused by transient cellular stress2021Motor no exact timepoint2D directed differentiationbulkbulk RNA-seqUCSD
GSE157684 GEORGCC balances self-renewal and neuronal differentiation of neural stem cells in the developing mammalian neocortex [3D cerebral organoid]2021OrganoidsOrganoidbulkbulk RNA-seqBio-X Center
GSE157835 GEOTargeted single-cell RNA sequencing of transcription factors facilitates biological insights from human cell experimental models [iPSC-derived neurons]2021Other neuronsMixedsingle-cell/nucleusscRNA-seqUniversity of Oxford
GSE159108 GEOGeneration and characterization of human iPSC-derived microglia-like cells for the use in drug discovery2021Microglia2D directed differentiationbulkbulk RNA-seqF. Hoffmann - La Roche AG
GSE159333 GEOExpression data of iPS microglia treated with TREM2 agonist antibody2021Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqTakeda Pharmaceutical Company Limited
GSE160747 GEOEstablishing a molecular phenotype for Angelman Syndrome stem cell-derived neurons2021Other neuronsNot statedbulkbulk RNA-seqUniversity of Wisconsin-Madison
GSE161549 GEOTranscriptome profiling of human pluripotent stem cell-derived cerebellar organoids reveals faster commitment under dynamic conditions2021OrganoidsOrganoidbulkbulk RNA-seqInstituto Superior Tecnico
GSE162349 GEOmRNA Sequencing of control and huntington's disease iPSC-derived medium spiny neuron-like cells and Q175 HET or WT mice. Plus and minus knockdown of PIAS1.2021Inhibitory no exact timepoint2D directed differentiationbulkbulk RNA-seqUC Irvine
GSE162892 GEORNA sequencing on iPSC-derived iSOX9-astrocytes2021AstrocytesTF programmingbulkbulk RNA-seqStem Cell Institute Leuven
GSE163161 GEOTranscriptome Analysis of Human Induced Excitatory Neurons Supports a Strong Effect of Clozapine on Cholesterol Biosynthesis2021NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqJohns Hopkins University
GSE163323 GEOAssociation of common genetic variation with Parkinson’s disease is driven by microglial modulation of Leucine-rich repeat kinase 2 expression2021Other neuronsMicroglia no exact timepoint2D directed differentiationsingle-cell/nucleusscRNA-seqNational Institutes of Health
GSE163344 GEOTranscriptome of differentiated AST and NAS iPS cell lines to human-like dopamine neurons2021Dopaminergic no exact timepointNot statedbulkbulk RNA-seqUniversity of Florida
GSE163525 GEOGenome-wide analysis of iPSC-derived neurons with EGFP or TERT transduction2021Other neurons no exact timepointNot statedbulkbulk RNA-seqUniversity of Texas, MD Anderson Cancer Center
GSE163857 GEOA novel microglial transcription profile is driven by sex and APOE4 interactions in both mouse and human models of Alzheimer’s disease2021Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqCedars-Sinai Medical Center
GSE163984 GEOEfficient conversion of human induced pluripotent stem cells into microglia by defined transcription factors2021NGN2 / TF-programmedMicrogliaTF programming (NGN2)bulkbulk RNA-seqNational Yang-Ming University
GSE164089 GEOModeling sporadic Alzheimer’s disease in human brain organoids under serum exposure2021Other neuronsOrganoidsOrganoidsingle-cell/nucleusscRNA-seqCity of Hope National Medical Center
GSE164313 GEOIntegration of Alzheimer's disease genetics and myeloid genomics identifies disease risk regulatory elements and genes [RNA-seq]2021Microglia no exact timepointNot statedbulkbulk RNA-seqIcahn School of Medicine at Mount Sinai
GSE164376 GEOTotal RNA sequencing for human induced pluripotent derived cortical neurons2021Cortical / excitatory2D directed differentiationbulkbulk RNA-seqMass Gen Hospital
GSE164891 GEOSingle cell RNA-sequencing of Bardet Biedl Syndrome iPSC-derived hypothalamic neurons2021Other neurons2D directed differentiationsingle-cell/nucleusscRNA-seqColumbia University Medical Center
GSE165577 GEOIdentification of neural oscillations and epileptiform changes in human brain organoids2021OrganoidsOrganoidbulkbulk RNA-seqUniversity of California, Los Angeles
GSE166603 GEOIntegration of central and peripheral neurons in human elongating multilineage organized (EMLO) gastruloids2021Other neuronsOrganoidsOrganoidsingle-cell/nucleusscRNA-seqSUNY Polytechnic Institute
GSE167051 GEOTranscriptional signatures in iPSC-derived neurons are reproducible across labs when differentiation protocols are closely matched2021NGN2 / TF-programmedDopaminergicAstrocytes no exact timepointTF programming (NGN2)bulkbulk RNA-seqNIH
GSE167256 GEONeuronal Enhancers are Hotspots for DNA Single-Strand Break Repair [RNA-seq]2021NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqCenter for Excellence in Molecular Cell Science
GSE168590 GEOTargeted single cell RNA-sequencing of transcription factors facilitates biological insights from human cell experimental models [iPSC neuron pre-capture]2021Other neuronsNot statedsingle-cell/nucleusscRNA-seqUniversity of Oxford
GSE168831 GEOComparison of the whole transcriptomes between ALS-mutant and Healthy control motor neurons2021Motor2D directed differentiationbulkbulk RNA-seqUlm University
GSE169065 GEOAnalysis of hiPSC-derived microglia compared to other cell types2021Microglia2D directed differentiationbulkbulk RNA-seqThe Scripps Research Institute
GSE169751 GEOSingle cell RNA sequencing detects persistent cell type- and methylmercury exposure paradigm-specific effects in human cortical neurodevelopmental model2021Cortical / excitatory2D directed differentiationbulkbulk RNA-seqPurdue University
GSE171343 GEOGlutamatergic dysfunction precedes neuron loss in cerebral organoids with MAPT mutations [bulk RNA-Seq]2021Cortical / excitatoryOrganoidsOrganoidbulkbulk RNA-seqIcahn School of Medicine at Mount Sinai
GSE171344 GEOGlutamatergic dysfunction precedes neuron loss in cerebral organoids with MAPT mutations [scRNA-Seq]2021Cortical / excitatoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqIcahn School of Medicine at Mount Sinai
GSE171719 GEOKlotho inhibits neuronal senescence in human brain organoids2021Cortical / excitatoryOrganoidsOrganoidbulkbulk RNA-seqThe University of Queensland
GSE171999 GEOPhenotypic manifestation of alpha-synuclein strains derived from Parkinson’s disease and multiple system atrophy in human dopaminergic neurons2021Dopaminergic2D directed differentiationbulkbulk RNA-seqUniversity of Oxford
GSE174232 GEODifferentiation of cortical brain organoids and optic nerve-like structures from retinal confluent cultures of pluripotent stem cells.2021OrganoidsOrganoidsingle-cell/nucleusscRNA-seqChildren’s Medical Research Institute and University of Sydney
GSE174569 GEOCortical Overgrowth in a Preclinical Forebrain Organoid Model of CNTNAP2-Associated Autism Spectrum Disorder2021OrganoidsOrganoidbulkbulk RNA-seqColumbia University
GSE174704 GEOGene expression analysis of neurons differentiated from iPS cells generated from the fibroblasts of monozygotic twins discordant for schizophrenia2021Cortical / excitatory no exact timepointNot statedbulkbulk RNA-seqUniversity of Helsinki
GSE178317 GEOA CRISPRi/a platform in iPSC-derived microglia uncovers regulators of disease states2021MicrogliaTF programmingbulk + single-cellbulk RNA-seq+scRNA-seqUCSF
GSE178583 GEOEarly transcriptional changes in rabies virus-infected neurons and extended effects on neuronal functions2021Other neurons no exact timepointNot statedbulkbulk RNA-seqInstitut Pasteur
GSE178600 GEOFully characterized mature human iPS- and NMP-derived motor neurons thrive without neuroprotection in the spinal contusion cavity [SMN V3]2021MotorNot statedbulkbulk RNA-seqSUNY Polytechnic Institute
GSE178683 GEOAlginate-based 3D culture of human induced pluripotent stem cells and their differentiation to functional dopaminergic neurons2021Dopaminergic2D directed differentiationbulkbulk RNA-seqEURAC Research
GSE180122 GEOSingle cell RNA-sequencing of long-term human control and C9ORF72 ALS/FTD patient-specific iPSC-derived cortical organoid slice cultures2021Cortical / excitatoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqUniversity of Cambridge
GSE180648 GEOMutation of a schizophrenia risk gene SETD1A alters neuronal network activity in human neurons through cAMP/PKA pathway2021Cortical / excitatoryInhibitory no exact timepointNot statedbulkbulk RNA-seqUniversity of Oslo
GSE180945 GEONeuro-immune organoid model reveals a role of microglia in cell stress response and emergence of neural activity2021MicrogliaOrganoidsMixedsingle-cell/nucleusscRNA-seqUCSF
GSE181029 GEOTranscriptome datasets of neural progenitors and neurons differentiated from induced pluripotent stem cells of healthy donors and Parkinson's disease patients with mutations in PARK2 gene2021Dopaminergic no exact timepoint2D directed differentiationbulkbulk RNA-seqBrigham and Women's Hospital
GSE181153 GEOSynthetic amyloid beta does not induce a robust transcriptional response in innate immune cell culture systems2021Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqNational Cancer Institute, NIH
GSE182307 GEOCROP-seq of hiPSC-derived astrocytes (bulk RNA-Seq)2021Other neuronsAstrocytes no exact timepointMixedbulkbulk RNA-seqUniversity of California San Francisco
GSE182761 GEOComputational Repurposing of Bumetanide for Preventing or Treating Alzheimer’s Disease [AT2123B_iPS_Bumex_RNA-seq]2021Other neurons no exact timepointNot statedbulkbulk RNA-seqGladstone Institute of Neurological Disease
GSE182875 GEOConvergent genomic and pharmacological evidence of PI3K/GSK3 signaling alterations in neurons from schizophrenia patients2021Cortical / excitatory no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity of Texas Health Science Center at Houston
GSE182976 GEOTDP-43 represses cryptic exon inclusion in FTD/ALS gene UNC13A2021Motor no exact timepointMixedbulkbulk RNA-seqStanford University
GSE183248 GEOSingle-cell transcriptomics of human iPSC differentiation dynamics reveal a core molecular network of Parkinson’s disease2021Dopaminergic2D directed differentiationbulkbulk RNA-seqUniversity of Luxembourg - LCSB
GSE183869 GEOPathogenic CLP1 p.R140H mutation alters mRNA processing in human motor neurons (PAC-seq)2021Motor no exact timepoint2D directed differentiationbulkbulk RNA-seqCase Western Reserve University
GSE183870 GEOPathogenic CLP1 p.R140H mutation alters mRNA processing in human motor neurons (total RNA-seq)2021Motor no exact timepoint2D directed differentiationbulkbulk RNA-seqCase Western Reserve University
GSE184243 GEORNA-seq of isogenic NPC1 mutant iPSC-derived microglia like cells2021Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqStanford
GSE184409 GEOInduction of inverted morphology in brain organoids by vertical-mixing bioreactors2021Other neuronsOrganoids no exact timepointOrganoidsingle-cell/nucleusscRNA-seqCyberomiX Inc
GSE184878 GEOCell-specific neuropathology and multiple morphogenic mechanisms in 3D human-derived tissue2021Other neuronsOrganoids no exact timepointOrganoidsingle-cell/nucleusscRNA-seqWeill Cornell Medicine
GSE185275 GEOIdentification of ASCL1 as a determinant for human iPSC-derived dopaminergic neurons2021Dopaminergic no exact timepoint2D directed differentiationsingle-cell/nucleusscRNA-seqNorthwestern University
GSE186301 GEOLPS causes a transcriptional shift in iPSC-microglia similar to an activated state from genetic mouse models of AD2021Microglia no exact timepoint2D directed differentiationsingle-cell/nucleusscRNA-seqUK Dementia Research Institute at Cardiff University
GSE186780 GEOSingle cell RNA sequencing analysis of midbrain organoids with SNCA gene triplication modeling key features of synuclienopathy2021DopaminergicAstrocytesOPC / oligodendrocytesOrganoidsOrganoidsingle-cell/nucleusscRNA-seqMcGill University
GSE189533 GEOCell-Type-Specific Impact of Glucocorticoid Receptor Activation on the Developing Brain: A Cerebral Organoid Study [Wafergen iCell8]2021Cortical / excitatoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqMax Planck Institute of Psychiatry
GSE189534 GEOCell-Type-Specific Impact of Glucocorticoid Receptor Activation on the Developing Brain: A Cerebral Organoid Study [10x Genomics]2021Cortical / excitatoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqMax Planck Institute of Psychiatry
GSE189614 GEOModeling OTUD7A loss-of-function mutation in schizophrenia-associated 15q13.3 microdeletion in human neurons2021NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqNorthShore University HealthSystem
GSE190387 GEOPAX6-positive microglia evolve locally in hiPSC-derived ocular organoids [scRNA-Seq]2021Microglia no exact timepointOrganoidsingle-cell/nucleusscRNA-seqOsaka University
GSE190428 GEOPAX6-positive microglia evolve locally in hiPSC-derived ocular organoids [RNA-Seq]2021Microglia no exact timepointOrganoidbulkbulk RNA-seqOsaka University
GSE190686 GEOEffects of magnetite nanoparticles and static magnetic field on neural differentiation of pluripotent stem cells2021Dopaminergic2D directed differentiationbulkbulk RNA-seqUniversidade de São Paulo
E-MTAB-7938 ArrayExpressRNA-Seq of GNRH1 neurons differentiated from human pluripotent stem cells2020Other neurons2D directed differentiationbulkbulk RNA-seqDepartment of Physiology, Faculty of Medicine, University of Helsinki
E-MTAB-7956 ArrayExpressRNA-Seq of GNRH1 neurons differentiated from human pluripotent stem cells (2)2020Other neurons2D directed differentiationbulkbulk RNA-seqDepartment of Physiology, Faculty of Medicine, University of Helsinki
E-MTAB-8254 ArrayExpressExtracellular vesicles isolated from human induced pluripotent stem cell-derived neurons contain a transcriptional network2020Other neurons no exact timepointNot statedbulkbulk RNA-seqUniversity of Manchester
E-MTAB-8325 ArrayExpressHuman cortical organoids. Chronic treatment with GSK3 inhibitor CHIR99021. Bulk RNAseq.2020Cortical / excitatoryOrganoidsOrganoidbulkbulk RNA-seqIstituto Europeo di Oncologia
E-MTAB-8337 ArrayExpressSingle cell RNAseq of human cortical organoids investigating the effect of chronic treatment with GSK3 inhibitor CHIR990212020OrganoidsOrganoidsingle-cell/nucleusscRNA-seqIstituto Europeo di Oncologia
E-MTAB-8519 ArrayExpressRNA-Seq of GNRH1 neurons differentiated from human pluripotent stem cells (1)2020Other neurons2D directed differentiationbulkbulk RNA-seqDepartment of Physiology, Faculty of Medicine, University of Helsinki
GSE101548 GEOMicroRNA-934 is a novel regulator orchestrating neurogenesis during early human neural development2020Other neurons no exact timepoint2D directed differentiationbulkbulk RNA-seqBeth Israel Deaconess Medical Center
GSE110267 GEOHuman Endogenous Retrovirus-K in Stem Cell Function and Neuronal Differentiation [dataset 1]2020Other neuronsNot statedbulkbulk RNA-seqNINDS/NIH
GSE111622 GEOProgerin-induced transcriptional changes in Huntington's disease human pluripotent stem cells-derived neurons2020Inhibitory no exact timepoint2D directed differentiationbulkbulk RNA-seqThe Hebrew University of Jerusalem
GSE115407 GEORobust Hi-C maps of enhancer-promoter interactions reveal the function of non-coding genome in neural development and diseases2020Other neurons no exact timepoint2D directed differentiationbulkbulk RNA-seqCase Western Reserve University
GSE115565 GEOHuman iPSC-derived GABAergic Interneuron Transplants Attenuate Neuropathic Pain2020InhibitorySensory no exact timepoint2D directed differentiationbulkbulk RNA-seqThe University of Sydney
GSE117248 GEOIntegrative Analysis Identifies Key Molecular Signatures Underlying Neurodevelopmental Deficits in Fragile X Syndrome 2020Other neuronsNot statedbulkbulk RNA-seqTranslational Laboratory in Genetic Medicine
GSE119060 GEOA fully automated high throughput-workflow for human neural organoids2020OrganoidsOrganoidbulkbulk RNA-seqDepartment of Chemistry, Biochemistry and Pharmaceutical Sciences
GSE120271 GEORNA-seq and ChIP-seq for human-specific regulation of neural maturation identified by cross-primate transcriptomics2020Other neurons2D directed differentiationbulkbulk RNA-seqThe Salk Institute for Biological Studies
GSE123753 GEOShifts in Ribosome Engagement Impact Key Gene Sets in Neurodevelopment and Rett Syndrome Neurons2020Cortical / excitatory no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity of Toronto
GSE123891 GEOEOFAD-causing mutations in psen1 orchestrate dedifferentiation through remodeling of the chromatin landscape in hiPSC-derived neurons [RNA-Seq]2020Other neurons no exact timepointNot statedbulkbulk RNA-seqUniversity of California, San Diego
GSE125020 GEOMinimum embedding dimension analysis uncovers reduced network complexity during neuronal differentiation in autism spectrum disorder2020Other neurons2D directed differentiationbulkbulk RNA-seqMax Planck Institute of Immunobiology and Epigenetics
GSE125837 GEOSilencing Trisomy 21 with XIST in Neural Stem Cells Promotes Neuronal Differentiation (bulk)2020Other neurons2D directed differentiationbulkbulk RNA-seqUMass Medical School
GSE125838 GEOSilencing Trisomy 21 with XIST in Neural Stem Cells Promotes Neuronal Differentiation (single cells)2020Other neurons2D directed differentiationsingle-cell/nucleusscRNA-seqUMass Medical School
GSE128367 GEOTranscriptomic analysis of ATP6V1A knock-down and amyloid beta-treated neurons2020NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqIcahn School of Medicine at Mount Sinai
GSE129017 GEOAllele-specific open chromatin in human neurons elucidates functional noncoding disease variants2020Dopaminergic2D directed differentiationbulkbulk RNA-seqNorthShore University HealthSystem
GSE129630 GEOHuman iPSC-derived microglia are genetically relevant to Alzheimer’s disease2020Microglia2D directed differentiationbulkbulk RNA-seqStanford University School of Medicine
GSE129806 GEOCellular and molecular characterization of multiplex autism in human induced pluripotent stem cell-derived neurons2020Cortical / excitatoryInhibitory no exact timepoint2D directed differentiationbulkbulk RNA-seqWashington University School of Medicine
GSE131434 GEOVirus-induced apoptosis in human cerebral organoids occurs primarily in committed neurons and is associated with a limited interferon stimulated gene response2020Other neuronsOrganoids no exact timepointOrganoidsingle-cell/nucleusscRNA-seqNIAID
GSE132689 GEOGenome-wide transcriptome analysis of human iPSC-derived healty control and schizophrenia cortical interneurons under inflammation conditions.2020Cortical / excitatoryInhibitory no exact timepoint2D directed differentiationbulkbulk RNA-seqEast Carolina University
GSE133534 GEORNA sequencing for human induced pluripotent derived cerebral organoids2020OrganoidsOrganoidbulkbulk RNA-seqMass Gen Hospital
GSE133894 GEOThe Parkinson's disease associated mutation LRRK2-G2019S affects astrocyte specification2020AstrocytesOrganoidsOrganoidsingle-cell/nucleusscRNA-seqMaastricht University
GSE134216 GEOCell-to-cell adhesion and neurogenesis in human cortical development: a study comparing 2D monolayers with 3D organoid cultures2020Cortical / excitatoryOrganoidsOrganoidbulkbulk RNA-seqYale University
GSE134497 GEOTotal RNA sequecing for human induced pluripotent derived cerebral organoids2020OrganoidsOrganoidbulkbulk RNA-seqMass Gen Hospital
GSE135287 GEOTranscriptome analysis of iPSC-derived neurons from Rubinstein-Taybi patients reveals deficits in neuronal differentiation.2020Cortical / excitatory2D directed differentiationbulkbulk RNA-seqIRCCS Istituto Auxologico Italiano
GSE136656 GEOActivity-dependent regulome and transcriptome of human GABAergic neurons reveal new patterns of gene regulation and neurological disease heritability2020Inhibitory2D directed differentiationbulk + single-cellbulk RNA-seq+scRNA-seqHarvard Medical School
GSE137420 GEOSynapse alterations precede neuronal damage and storage pathology in a human cerebral organoid model of CLN3-Juvenile Neuronal Ceroid Lipofuscinosis2020OrganoidsOrganoidbulkbulk RNA-seqLuxembourg Center for Systems Biomedicine (University of Luxembourg)
GSE137941 GEOSliced Human Cortical Organoids for Modeling Distinct Cortical Neuronal Layer Formation2020Cortical / excitatoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqUniversity of Pennsylvania
GSE138121 GEOscRNAseq of human iPSC-derived motor neurons from control and ALS patients.2020Motor2D directed differentiationsingle-cell/nucleusscRNA-seqCedars-Sinai Medical Center
GSE139101 GEODevelopmental GABA polarity switch and neuronal plasticity in Bioengineered Neuronal Organoids2020Cortical / excitatoryInhibitoryAstrocytesOPC / oligodendrocytesOrganoidsOrganoidbulkbulk RNA-seqLuxembourg Center for Systems Biomedicine
GSE139144 GEOCorrection of ALS-related phenotypes in iPSC-derived motor neurons carrying a hexanucleotide expansion mutation in C9orf72 by CRISPR/Cas9 genome editing and homology-directed repair2020Motor no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity of Oxford
GSE139161 GEOFunctional Mature Human Microglia Developed in Human iPSC Microglial Chimeric Mouse Brain2020Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqRutgers University
GSE140015 GEOMechanism of Mitochondrial Dysfunction in Spinal and Bulbar Muscular Atrophy [RNA-seq]2020Motor no exact timepoint2D directed differentiationbulkbulk RNA-seqNINDS/NIH
GSE141107 GEOGene expression - PRDM8 reveals aberrant DNA methylation in aging syndromes and is relevant for hematopoietic and neuronal differentiation.2020Other neuronsNot statedbulkbulk RNA-seqRWTH Aachen University
GSE142042 GEOTranscriptome analysis of hIPSCs differentiation towards the skeletal muscle and motor neurons lineages2020Motor2D directed differentiationbulkbulk RNA-seqAix-Marseille Université - Marseille Medical Genetics
GSE142612 GEOmRNAseq in SBMA and control iPSC-derived motor neurons2020Motor no exact timepoint2D directed differentiationbulkbulk RNA-seqAichi Medical University
GSE142670 GEOTranscriptome of iPSC-derived neuronal cells reveals a module of co-expressed genes consistently associated with autism spectrum disorder2020Other neurons no exact timepointNot statedbulkbulk RNA-seqHospital Albert Einstein
GSE142730 GEOHuman iPSC-derived astrocytes from ALS patients with mutated C9ORF72 show increased oxidative stress and neurotoxicity2020Astrocytes2D directed differentiationbulkbulk RNA-seqHadassah University Medical Center
GSE143685 GEONeuroinflammation and EIF2 signaling persist despite antiretroviral treatment in an HiPSC tri-culture model of HIV infection [bulk RNA-seq]2020Other neuronsMicrogliaAstrocytes no exact timepointNot statedbulkbulk RNA-seqChildren's Hospital of Philadelphia
GSE143686 GEONeuroinflammation and EIF2 signaling persist despite antiretroviral treatment in an HiPSC tri-culture model of HIV infection [scRNA-seq]2020Other neuronsMicrogliaAstrocytes no exact timepointMixedsingle-cell/nucleusscRNA-seqChildren's Hospital of Philadelphia
GSE143743 GEOKnocking out C9ORF72 exacerbates axonal trafficking defects associated with hexanucleotide repeat expansion and reduces levels of heat shock proteins I2020NGN2 / TF-programmedMotor no exact timepointTF programmingbulkbulk RNA-seqTU Dresden
GSE143744 GEOKnocking out C9ORF72 exacerbates axonal trafficking defects associated with hexanucleotide repeat expansion and reduces levels of heat shock proteins II2020Motor no exact timepoint2D directed differentiationbulkbulk RNA-seqTU Dresden
GSE144120 GEOPLCG2 Regulates Divergent Microglial Functions via TREM2-Dependent and -Independent Signaling2020Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqDenali Therapeutics
GSE144151 GEORNA-seq of HERVK-CRIPRi IPS and iN cells2020NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqEPFL
GSE144152 GEORNAseq of hIPS cells at day 0 and hiPS-differentiated induced neuron at day 4 post neuronal induction2020NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqEPFL
GSE144157 GEOVariation of human neural stem cells generating organizer states in vitro before committing to cortical excitatory or inhibitory neuronal fates [human RNAseq #2]2020Cortical / excitatoryInhibitory2D directed differentiationbulkbulk RNA-seqJohns Hopkins Univ. School of Medicine
GSE144279 GEOFunctional genomic consequences of MBD5 knockdown in mouse brain and CRISPR-derived neurons [cell lines]2020Other neurons no exact timepointNot statedbulkbulk RNA-seqIndependent Data Lab
GSE144477 GEOSingle cell RNA Sequencing of control and huntington's disease iPSC-derived medium spiny neuron-like cells2020Inhibitory no exact timepoint2D directed differentiationsingle-cell/nucleusscRNA-seqUC Irvine
GSE144559 GEOTotal RNA Sequencing of control and huntington's disease iPSC-derived medium spiny neuron-like cells2020Inhibitory no exact timepoint2D directed differentiationbulkbulk RNA-seqUC Irvine
GSE144825 GEOPrimate cell fusion disentangles gene regulatory divergence in neural development2020Cortical / excitatoryOrganoids2D directed differentiationbulkbulk RNA-seqStanford University
GSE145073 GEOTranscriptomic and epigenomic dynamics associated with development of human iPSC-derived GABAergic interneurons2020Inhibitory2D directed differentiationbulkbulk RNA-seqEmory University
GSE145405 GEORNA-seq of untreated- or STING inhibitor treated control and ZNFKD iN.2020NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqEPFL
GSE145415 GEOModeling Human Cytomegalovirus-Induced Microcephaly in Human iPSC-derived Brain Organoids2020OrganoidsOrganoidbulkbulk RNA-seqCity of Hope National Medical Center
GSE145656 GEOInvestigation of de novo mutations in a schizophrenia case-parent trio by induced pluripotent stem cell based in vitro disease-modelling: Convergence of schizophrenia and autism-related cellular phenotypes2020Other neurons no exact timepoint2D directed differentiationbulkbulk RNA-seqSemmelweis University
GSE146373 GEOSingle-Cell Transcriptomic Analysis Reveals Molecular Diversity of Human Oligodendrocyte Progenitor Cells2020OPC / oligodendrocytes2D directed differentiationsingle-cell/nucleusscRNA-seqJohns Hopkins University School of Medicine
GSE146640 GEODifferences in transcription in Angelman syndrome and control person iPSC-derived neurons2020Cortical / excitatory2D directed differentiationbulkbulk RNA-seqUniversity Hospital Essen, University Duisburg-Essen
GSE147047 GEOLoss of function of the mitochondrial peptidase PITRM1 induces Alzheimer’s disease-like pathology and immune perturbations in human cerebral organoids2020Other neuronsAstrocytesOrganoidsOrganoidsingle-cell/nucleusscRNA-seqInstitut Imagine, INSERM UMR1163
GSE147544 GEORNA sequencing of motor neurons derived from induced pluripotent stem cells of ALS patients with the M337V mutation in TARDBP2020Motor2D directed differentiationbulkbulk RNA-seqUniversity of Oxford
GSE148517 GEODevelopment of genetic quality tests for good manufacturing practice-compliant induced pluripotent stem cells and their derivatives2020Other neurons no exact timepoint2D directed differentiationbulkbulk RNA-seqKorea National Institute of Health
GSE149377 GEOLarge-scale production of human iPSC-derived macrophages for drug screening2020Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqRoche Pharma Research and Early Development
GSE149632 GEOPhenotypic manifestation of alpha-synuclein strains from Parkinson’s disease and multiple system atrophy in human dopaminergic neruons2020Dopaminergic no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity of Oxford
GSE149733 GEOStructural interaction between DISC1 and ATF4 underlying transcriptional and synaptic dysregulation in an iPSC model of mental disorders2020NGN2 / TF-programmedCortical / excitatoryTF programmingbulkbulk RNA-seqUniversity of Pennsylvania
GSE150153 GEOHuman iPSC-derived organoids recapitulate development of the cerebellum.2020Other neuronsOrganoidsOrganoidsingle-cell/nucleusscRNA-seqOxford University
GSE150429 GEOTranscriptional signatures of participant-derived neural progenitor cells and neurons implicate altered Wnt signaling in Phelan McDermid syndrome and autism2020Cortical / excitatory2D directed differentiationbulkbulk RNA-seqIchan School of Medicine at Mount Sinai
GSE152438 GEOGenome-wide transcriptome analysis of human iPSC-derived cortical interneurons under inflammation conditions2020Cortical / excitatoryInhibitory no exact timepoint2D directed differentiationbulkbulk RNA-seqEast Carolina University
GSE152867 GEOIn Vivo Chimeric Alzheimer’s Disease Modeling of Apolipoprotein E4 Toxicity in Human Neurons2020Other neuronsXenograftsingle-cell/nucleusscRNA-seqGladstone Institutes
GSE152983 GEOAn aberrant cytoplasmic intron retention programme is a blueprint for ALS-related RBP mislocalization2020Motor2D directed differentiationbulkbulk RNA-seqIdiap Research Institute
GSE152988 GEOGenome-wide CRISPRi/a screens in human neurons link lipid imbalance to ferroptosis2020Other neurons no exact timepointNot statedbulk + single-cellscRNA-seq+bulk RNA-seqUniversity of California, San Francisco
GSE155212 GEOQuantitative mapping of transcriptome dynamics during polarization of human iPSC-derived neurons2020Other neurons2D directed differentiationbulkbulk RNA-seqUtrecht University
GSE156170 GEODefining the Teratoma as a Model for Multi-Lineage Human Development2020Other neurons no exact timepointNot statedsingle-cell/nucleusscRNA-seqUCSD
GSE157012 GEOSMARCB1 loss interacts with neuronal differentiation state to block maturation and impact cell stability2020Other neurons2D directed differentiationbulkbulk RNA-seqUC San Diego
GSE157019 GEOElectrophysiological Maturation of Cerebral Organoids Correlates with Dynamic Morphological and Cellular Development2020OrganoidsOrganoidbulkbulk RNA-seqNationwide Children's Hospital
GSE157185 GEOComparative transcriptional profiling of motor neuron disorder-associated genes in various human cell culture models2020Cortical / excitatoryMotor no exact timepointNot statedbulkbulk RNA-seqUniversity of Tübingen
GSE157525 GEOSMARCB1 loss interacts with neuronal differentiation state to block maturation in an organoid model2020OrganoidsOrganoidsingle-cell/nucleusscRNA-seqUC San Diego
GSE157573 GEOLongitudinal characterization of transcriptomic, functional, and morphological features in human iPSC-derived neurons and their application to investigate translational progranulin disease biology2020Other neurons2D directed differentiationbulkbulk RNA-seqSanford Burnham Prebys Medical Discovery Institute
GSE157635 GEOTREM2 Alzheimer’s variant R47H causes similar transcriptional dysregulation to knockout, yet only subtle functional phenotypes in human iPSC-derived macrophages2020Microglia2D directed differentiationbulkbulk RNA-seqUniversity of Oxford
GSE157652 GEOTranscriptomic and functional deficits in human TREM2-/- microglia impair response to Alzheimer’s pathology in vivo [RNA-seq]2020Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity of California, Irvine
GSE157768 GEONFIB induces functional astrocytes from human pluripotent stem cell-derived neural precursor cells mimicking in vivo astrogliogenesis2020AstrocytesTF programmingbulkbulk RNA-seqKorea University
GSE157852 GEOHuman Pluripotent Stem Cell-Derived Neural Cells and Brain Organoids Reveal SARS-CoV-2 Neurotropism Predominates in Choroid Plexus Epithelium2020Other neuronsAstrocytesOrganoids no exact timepointOrganoidbulkbulk RNA-seqUniversity of Pennsylvania
GSE158234 GEOTranscriptomic and functional deficits in human TREM2-/- microglia impair response to Alzheimer's pathology in vivo [scRNA-seq]2020Microglia no exact timepointXenograftsingle-cell/nucleusscRNA-seqUniversity of California, Irvine
GSE158469 GEOTranscriptomic and functional deficits in human TREM2-/- microglia impair response to Alzheimer's pathology in vivo [bulk RNA-seq]2020Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity of California, Irvine
GSE158754 GEOHuman iPSC-derived neuronal cells from CTBP1-mutated patients reveal altered expression of neurodevelopmental gene networks2020Other neurons no exact timepointNot statedbulkbulk RNA-seqSaint Louis University
GSE159074 GEOPredicting the functional states of human iPSC-derived neurons with single-cell RNA-seq and electrophysiology2020Other neuronsAstrocytes no exact timepointMixedsingle-cell/nucleusscRNA-seqSouth Australian Health and Medical Research Institute (SAHMRI)
GSE159332 GEOMaster regulators and cofactors of human neuronal cell fate specification identified by CRISPR gene activation screens [DualFactor_RNAseq]2020NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqDuke University
GSE159340 GEOMaster regulators and cofactors of human neuronal cell fate specification identified by CRISPR gene activation screens [SingleFactor_RNAseq]2020NGN2 / TF-programmedOther neuronsTF programmingbulkbulk RNA-seqDuke University
GSE159778 GEOA comprehensive library of human transcription factors for cell fate engineering (Bulk RNA-Seq)2020NGN2 / TF-programmedOPC / oligodendrocytesTF programming (NGN2)bulkbulk RNA-seqHarvard Medical School
GSE163018 GEOSingle cell epigenomics reveals mechanisms of human cortical development2020OrganoidsOrganoidsingle-cell/nucleusscRNA-seq+scATAC-seqUCSF
GSE65423 GEOTranscriptomic characterization of a mixed population of pluripotent stem cell derived cerebellar neuron-like progenitors2020Other neurons2D directed differentiationbulkbulk RNA-seqUniversity of Sydney
E-MTAB-6018 ArrayExpressTime line RNAseq of iPSC-derived neurons from ASD and control subjects.2019NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqLaboratory of Genetics - Gage The Salk Institute for Biological Studies …
E-MTAB-7128 ArrayExpressGene expression profiling during human neuronal differentiation2019Other neuronsNot statedbulkbulk RNA-seqDepartment of Biosciences and Nutrition, Karolinska Institutet Department of …
E-MTAB-7353 ArrayExpressSingle cell RNA-sequencing of polyA tailed RNA from mutant SOD1 and isogenic control human motor neurons2019Motor2D directed differentiationsingle-cell/nucleusscRNA-seqUniversity of Exeter
E-MTAB-7552 ArrayExpressSingle cell RNA-seq of great ape cerebral organoids2019Other neuronsOrganoidsOrganoidsingle-cell/nucleusscRNA-seqMax Planck Institute for Evolutionary Anthropology Max Planck Institute for …
E-MTAB-7770 ArrayExpressGene expresssion in human iPSC-derived neurons from normal and SPG3A donors2019Cortical / excitatoryMotor no exact timepoint2D directed differentiationbulkbulk RNA-seqDepartment of Biomedical Sciences, University of Illinois College of Medicine …
GSE106871 GEOAnalysis of the Clustered Protocadherin (cPcdh) Locus in Human Pluripotent Stem and Derived Cells (RNA-seq I out of II)2019Other neurons no exact timepointNot statedbulkbulk RNA-seqUCSD
GSE106872 GEOAnalysis of the Clustered Protocadherin (cPcdh) Locus in Human Pluripotent Stem and Derived Cells2019Cortical / excitatoryOrganoidsOrganoidbulkbulk RNA-seqUCSD
GSE109228 GEONecroptosis inhibition protects from dopaminergic neuronal cell death in OPA1 mutant Parkinson’s disease patient neurons and MPTP treated mice2019Other neurons no exact timepointNot statedbulkbulk RNA-seqOspedale San Raffaele
GSE113482 GEOMapping cis-regulatory chromatin contacts in neural cells links neuropsychiatric disorder risk variants to target genes [RNA-Seq]2019Other neurons no exact timepointNot statedbulkbulk RNA-seqUCSF
GSE117588 GEOREST and Neural Gene Network Dysregulation in iPS Cell Models of Alzheimer’s Disease (RNA-seq data set)2019Other neuronsOrganoids no exact timepointOrganoidbulkbulk RNA-seqHarvard Medical School
GSE117910 GEOExamining serotonergic neuron differentiation from human iPSCs2019Other neurons no exact timepointNot statedbulkbulk RNA-seqMax Planck Institute of Immunobiology and Epigenetics
GSE120081 GEOProfiling of gene expression using RNA-Seq in fibroblasts, iPSCs, iPSC-derived neurons and cells overexpressing Onecut transcription factors2019NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqRadboud University Medical Center
GSE120190 GEOTranscriptome analyses of iPSC-derived neural stem/progenitor cells and cerebral organoids from monozygotic twins discordant for schizoaffective bipolar disorder2019OrganoidsOrganoidsingle-cell/nucleusscRNA-seqRIKEN
GSE120746 GEOa-synuclein accumulation in an iPSC derived model of early onset sporadic Parkinson’s Disease reveals novel drug targets2019Dopaminergic no exact timepointNot statedbulkbulk RNA-seqCedars Sinai
GSE122550 GEOSHANK2 mutations associated with autism spectrum disorder cause hyperconnectivity of human neurons2019Cortical / excitatory2D directed differentiationbulkbulk RNA-seqHospital for Sick Children
GSE124031 GEOAltered migratory trajectories in cerebral organoids derived from individuals with neuronal heterotopia2019Other neuronsOrganoidsOrganoidsingle-cell/nucleusscRNA-seqStanford University
GSE124299 GEOEstablishing Cerebral Organoids as Models of Human-Specific Brain Evolution2019OrganoidsOrganoidsingle-cell/nucleusscRNA-seq444015
GSE124513 GEOReversing Abnormal Neural Development by Inhibiting OLIG2 in Down Syndrome Human iPSC Brain Organoids and Neuronal Mouse Chimeras2019Cortical / excitatoryOrganoidsOrganoidbulkbulk RNA-seqUTHealth
GSE124703 GEOCRISPR-based multimodal genetic screens in human iPSC-derived neurons2019NGN2 / TF-programmedCortical / excitatoryTF programmingbulk + single-cellbulk RNA-seq+scRNA-seqUniversity of California, San Francisco
GSE125664 GEOSerotonin-induced hyperactivity in SSRI-resistant major depressive disorder patient-derived neurons2019Cortical / excitatory no exact timepointNot statedbulkbulk RNA-seqMax Planck Institute of Immunobiology and Epigenetics
GSE125805 GEOPilot transcriptome analysis of human iPSC-derived healthy control vs. schizophrenia cortical interneurons2019Cortical / excitatoryInhibitory no exact timepoint2D directed differentiationbulkbulk RNA-seqEast Carolina University
GSE125872 GEOiPS derived microglia like cells cultured with human neurons and astrocytes2019Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqMonash University
GSE125999 GEOGenome-wide transcriptional analysis of human iPSC-derived healthy control vs. schizophrenia cortical interneurons.2019Cortical / excitatoryInhibitory no exact timepoint2D directed differentiationbulkbulk RNA-seqEast Carolina University
GSE126319 GEOVariant and cell-context specific H3K27M reprogramming results in distinct enhancer architecture and oncogenic states2019OPC / oligodendrocytesNot statedbulkbulk RNA-seqStanford University
GSE128040 GEONeural stem cells of Parkinson’s disease patients exhibit aberrant mitochondrial morphology and functionality2019Dopaminergic2D directed differentiationsingle-cell/nucleusscRNA-seqMaastricht University
GSE128333 GEODeconvolution of Transcriptional Networks Identifies TCF4 as a Master Regulator in Schizophrenia2019Cortical / excitatoryMixedbulkbulk RNA-seqThe Children's Hospital of Philadelphia Research Institute
GSE128343 GEOA large panel of isogenic APP and PSEN1 mutant human iPSC neurons reveals shared endosomal abnormalities mediated by APP b-CTFs, not Ab [RNA-seq]2019Cortical / excitatoryNot statedbulkbulk RNA-seqUniversity Hospital Zurich
GSE129178 GEOXenotransplantation of Human PSC-derived Microglia Creates a Chimeric Mouse Brain Model that Recapitulates Features of Adult Human Microglia2019MicrogliaXenograftsingle-cell/nucleusscRNA-seqRutgers University
GSE130238 GEONested oscillatory dynamics in cortical organoids model early human brain network development2019OrganoidsOrganoidsingle-cell/nucleusscRNA-seqUC San Diego
GSE133432 GEODevelopment of a chimeric model to study and manipulate human microglia in vivo (bulk RNA-seq dataset)2019Microglia no exact timepointXenograftbulkbulk RNA-seqUniversity of California, Irvine
GSE133433 GEODevelopment of a chimeric model to study and manipulate human microglia in vivo (scRNA-seq dataset)2019MicrogliaXenograftsingle-cell/nucleusscRNA-seqUniversity of California, Irvine
GSE133763 GEOCHCHD10 gene KO effect in iPSC drived motor neurons2019Motor no exact timepointNot statedbulkbulk RNA-seqUniversity of Helsinki
GSE133764 GEOCHCHD2 gene KO effect in iPSC drived motor neurons2019Motor no exact timepointNot statedbulkbulk RNA-seqUniversity of Helsinki
GSE135047 GEOQuantitative comparison between cellular mRNAs and exosomal mRNAs in human iPSC-derived motor neurons2019MotorNot statedbulkbulk RNA-seqTakeda Pharmaceutical Company Limited
GSE135633 GEOAnalysis of the Clustered Protocadherin (cPcdh) Locus in Human Pluripotent Stem and Derived Cells [RNA-seq II our of II]2019Cortical / excitatoryOrganoidsOrganoidbulkbulk RNA-seqUCSD
GSE135634 GEOAnalysis of the Clustered Protocadherin (cPcdh) Locus in Human Pluripotent Stem and Derived Cells [scRNA-seq]2019Other neuronsOrganoids no exact timepointNot statedsingle-cell/nucleusscRNA-seqUCSD
GSE135707 GEOPSEN1ΔE9, APPswe and APOE4 confer disparate phenotypes in human iPSC-derived microglia2019Microglia2D directed differentiationbulkbulk RNA-seqUniversity of Eastern Finland
GSE137101 GEONeuronal impact of patient-specific aberrant NRXN1α splicing [whole]2019NGN2 / TF-programmedCortical / excitatoryInhibitoryTF programming (NGN2)bulkbulk RNA-seqUniversity of Minnesota Medical School
GSE137127 GEONeuronal impact of patient-specific aberrant NRXN1α splicing [targeted]2019NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqUniversity of Minnesota Medical School
GSE139192 GEOHuman iPSC-derived microglia assume a primary microglia-like state after transplantation into the neonatal mouse brain [Bulk RNAseq]2019MicrogliaXenograftbulkbulk RNA-seqWhitehead Institute
GSE139193 GEOHuman iPSC-derived microglia assume a primary microglia-like state after transplantation into the neonatal mouse brain [Single Cell RNAseq]2019MicrogliaMixedsingle-cell/nucleusscRNA-seqWhitehead Institute
GSE140442 GEOTargeted RNA sequencing enhances gene expression profiling of ultra-low input samples2019Cortical / excitatory2D directed differentiationbulkbulk RNA-seqUniversity of Oxford
GSE140843 GEOTotal RNA sequencing for human induced pluripotent derived cerebral organoids [controls only]2019Cortical / excitatoryOrganoidsOrganoidbulkbulk RNA-seqMass Gen Hospital
GSE97341 GEOEngineering Patient-Specific Tissue Implants2019Other neurons2D directed differentiationbulkbulk RNA-seqTel-Aviv University
E-MTAB-7303 ArrayExpressSingle cell sequencing of iPSC-dopamine neurons reconstructs disease progression and identifies HDAC4 as a regulator of Parkinson cell phenotypes2018Dopaminergic no exact timepointNot statedsingle-cell/nucleusscRNA-seqUniversity of Oxford
GSE101942 GEOTranscriptome analysis of genetically matched human induced pluripotent stem cells disomic or trisomic for chromosome 212018Cortical / excitatoryNot statedbulkbulk RNA-seqUniversity of Colorado Boulder
GSE102139 GEORecapitulation of Human Neural Microenvironment Signatures in iPSC-Derived NPC 3D Differentiation2018OrganoidsOrganoidbulkbulk RNA-seqiBET, Instituto de Biologia Experimental e Biológica
GSE102335 GEOMicroglia innatly develop within cerebral organoids2018MicrogliaOrganoidsOrganoidbulkbulk RNA-seqUMC Utrecht
GSE102352 GEOSequential expression profile of cortical neuron differentiation from human induced pluripotent stem cells (iPSCs) by RNA-Seq2018Cortical / excitatory2D directed differentiationbulkbulk RNA-seqNorthShore University HealthSystem
GSE102934 GEObigSCale: An Analytical Framework for Big-Scale Single Cell Data2018Other neurons no exact timepointNot statedsingle-cell/nucleusscRNA-seqCNAG,Centro Nacional de Análisis Genómico
GSE102956 GEOAPOE4 Causes Widespread Molecular and Cellular Alterations Associated with Alzheimer's Disease Phenotypes in Human iPSC-Derived Brain Cell Types2018Other neuronsMicrogliaAstrocytes no exact timepointNot statedbulkbulk RNA-seqMIT
GSE106311 GEOHuman Sandhoff Disease Cerebral Organoids Exhibit Enlarged Size, Increased Cellular Proliferation, and Impaired Differentiation2018OrganoidsOrganoidbulkbulk RNA-seqNIH
GSE106589 GEOTranscriptional signatures of schizophrenia in hiPSC-derived NPCs and neurons are concordant with signatures from post mortem adult brains2018Cortical / excitatory2D directed differentiationbulkbulk RNA-seqIcahn School of Medicine at Mount Sinai
GSE107399 GEORett Syndrome in a dish model2018Other neurons no exact timepointNot statedbulkbulk RNA-seqBroad Institute of MIT and Harvard
GSE107771 GEOSingle cell profilng of hCS derived from hiPSC cultured in feeder-free conditions2018OrganoidsOrganoidsingle-cell/nucleusscRNA-seqBD Biosciences
GSE107878 GEODisruption of Autism Spectrum Disorder-Susceptibility Genes Predominantly Reduces Functional Connectivity of Isogenic Human Neurons2018NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqThe Hospital for Sick Children
GSE108094 GEONext Generation Sequencing of human SMA and healthy control Motor Neurons2018Motor no exact timepointNot statedbulkbulk RNA-seqScientific Institute IRCCS E.Medea
GSE108498 GEORescue of Fragile X syndrome neurons by DNA methylation editing of the FMR1 gene [RNA-seq]2018Other neurons no exact timepointNot statedbulkbulk RNA-seqWhitehead Institute for Biomedical Research
GSE109001 GEOHuman iPS-derived astroglia from a stable neural precursor state; improved functionality compared to conventional astrocytic models2018Astrocytes2D directed differentiationbulkbulk RNA-seqKarolinska Institutet
GSE109534 GEOHuman Huntington’s Disease iPSC-derived cortical neurons display altered transcriptomics, morphology and electrophysiological maturation2018Cortical / excitatory2D directed differentiationbulkbulk RNA-seqCedars Sinai Medical Center
GSE110826 GEOHuman iPSC-derived cells and microengineered Organ-Chip enhance neural development.2018MotorNot statedbulkbulk RNA-seqCedars Sinai
GSE110952 GEOFunctional studies of missense TREM2 mutations in human stem cell-derived microglia2018Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqSabine Dietmann
GSE111656 GEOR430: A potent inbibitor of DNA and RNA viruses2018Other neurons no exact timepoint2D directed differentiationbulkbulk RNA-seqUPMC
GSE112732 GEOGenome-wide transcriptional analysis of human patterned induced neurons (hpiNs)2018NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulk + single-cellbulk RNA-seq+scRNA-seqBroad Institute
GSE113089 GEOSpontaneous functional network activity in organoids resembles programmed early human brain development2018OrganoidsOrganoidsingle-cell/nucleusscRNA-seqUCSD
GSE113931 GEOHigh-resolution comparative analysis of great ape genomes2018OrganoidsOrganoidsingle-cell/nucleusscRNA-seqUCSF
GSE114553 GEOInduction of human SST and PV neurons by expressing a single transcription factor LHX62018NGN2 / TF-programmedInhibitoryTF programmingbulkbulk RNA-seqNanjing Medical University
GSE114685 GEODisruption of GRIN2B impairs differentiation in human neurons2018Cortical / excitatory no exact timepoint2D directed differentiationbulkbulk RNA-seqDouglas Mental Health University Institute
GSE115011 GEODifferentiation and maturation of oligodendrocytes in human three-dimensional neural cultures2018Cortical / excitatoryOPC / oligodendrocytesOrganoidsOrganoidsingle-cell/nucleusscRNA-seqEmory University
GSE115205 GEOGenome wide analysis of SAHA (vorinostat) treatment in human iPSC-derived neurons from Tau A152T patients and controls2018Other neurons no exact timepointNot statedbulkbulk RNA-seqUniversity of California Irvine
GSE115867 GEOThe ESCRT-III protein CHMP1A mediates secretion of sonic hedgehog on a novel class of extracellular vesicles2018OrganoidsOrganoidbulkbulk RNA-seqUniversity of California Santa Cruz
GSE117511 GEOInhibition of BET proteins rescues neural defects in Rett syndrome [RNA-seq]2018InhibitoryNot statedbulkbulk RNA-seqCentre de Recherche l'Hôpital Maisonneuve-Rosemont, Université de Montréal
GSE117829 GEODevelopment and Validation of a Simplified Method to Generate Human Microglia from Pluripotent Stem Cells2018Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity of California, Irvine
GSE118307 GEOCombined Experimental and System-Level Analyses Reveal the Complex Regulatory Network of miR-124 during Human Neurogenesis [Timecourse RNA-Seq]2018NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqTechnische Universität Dresden
GSE118310 GEOCombined Experimental and System-Level Analyses Reveal the Complex Regulatory Network of miR-124 during Human Neurogenesis [d7+d14]2018NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqTechnische Universität Dresden
GSE118313 GEOGenome-wide transcriptional analysis of human iPSC-derived healty control vs. schizophrenia cortical interneurons.2018Cortical / excitatoryInhibitory no exact timepoint2D directed differentiationbulkbulk RNA-seqEast Carolina University
GSE118315 GEOCombined Experimental and System-Level Analyses Reveal the Complex Regulatory Network of miR-124 during Human Neurogenesis [ZNF787]2018NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqTechnische Universität Dresden
GSE118733 GEOReproducibility of molecular phenotypes after long-term differentiation to Human iPSC-Derived Neurons: a multi-site omics study [bulk]2018Other neuronsNot statedbulk + single-cellbulk RNA-seq+scRNA-seqCardiff University
GSE118734 GEOReproducibility of molecular phenotypes after long-term differentiation to Human iPSC-Derived Neurons: a multi-site omics study [single-cell]2018Other neurons no exact timepointNot statedsingle-cell/nucleusscRNA-seqCardiff University
GSE121069 GEORNAseq of fluidically isolated human and mouse motor neuron somas and axons in vitro2018Motor2D directed differentiationbulk + single-cellbulk RNA-seq+scRNA-seqStockholm University
GSE121376 GEOGenome-wide transcriptional analysis of human iPSC-derived healthy control vs. schizophrenia cortical interneurons2018Cortical / excitatoryInhibitory no exact timepoint2D directed differentiationbulkbulk RNA-seqEast Carolina University
GSE124308 GEOConvergent Pathways in Idiopathic Autism Revealed by Time Course Transcriptomic Analysis of Patient-Derived Neurons2018Cortical / excitatory2D directed differentiationbulkbulk RNA-seqUniversity of Miami
GSE90469 GEORibosome profiling of G2019S LRRK2 human dopamine neurons2018DopaminergicNot statedbulkbulk RNA-seqUC Berkeley
GSE93935 GEOStudying iPSCs from a hibernating mammal reveals molecular mechanisms of cold resistance in neural tissues2018NGN2 / TF-programmed no exact timepointTF programming (NGN2)bulkbulk RNA-seqSun Yat-sen university
GSE95243 GEOTranscriptomes of iPSC-derived and post-mortum Hypothalamus Neurons from obese and control donors2018Motor no exact timepoint2D directed differentiationbulkbulk RNA-seqCedars-Sinai Medical Center
GSE98289 GEO Post-transcriptional remodelling is temporally deregulated during motor neurogenesis in human ALS models2018Motor2D directed differentiationbulkbulk RNA-seqIdiap Research Institute
E-MTAB-3447 ArrayExpressRNA-seq of NEAT1 knockdown in neuronal excitability2017Other neurons no exact timepointNot statedbulkbulk RNA-seqThe Garvan Institute of Medical Research
GSE102838 GEOPatient-derived hiPSC neurons with heterozygous CNTNAP2 deletions display altered neuronal gene expression and network activity2017NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqIcahn School of Medicine
GSE106984 GEOSOX10 Single Transcription Factor Based Fast and Efficient Generation of Oligodendrocytes from Human Pluripotent Stem Cells2017OPC / oligodendrocytesTF programmingbulkbulk RNA-seqKU Leuven
GSE79442 GEOFibrin Hydrogels Induce Mixed Dorsal/Ventral Spinal Neuron Identities During Differentiation of Human Induced Pluripotent Stem Cells2017Motor2D directed differentiationbulkbulk RNA-seqUniversity of Victoria
GSE84684 GEODysregulated synaptic gene expression and axonal neuropathology in a human iPSC-based model of familial Parkinson's disease2017Other neurons no exact timepointNot statedbulkbulk RNA-seqBeth Israel Deaconess Medical Center
GSE85908 GEOSingle-cell alternative splicing analysis with Expedition reveals splicing dynamics during neuron differentiation2017Motor no exact timepoint2D directed differentiationbulk + single-cellscRNA-seq+bulk RNA-seqUCSD
GSE87281 GEOSMN deficiency in spinal muscular atrophy causes widespread intron retention and DNA damage2017MotorNot statedbulkbulk RNA-seqBiogen
GSE88773 GEONetworks of cultured iPSC-derived neurons reveal the human synaptic activity-regulated adaptive gene program2017Cortical / excitatory no exact timepointNot statedbulkbulk RNA-seqUniversity of Heidelberg
GSE89189 GEOGeneration of human microglia-like cells to study neurological disease2017Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity of California Irvine
GSE92340 GEOPatient iPSC-Derived Neurons for Disease Modeling of Frontotemporal Dementia with Mutation in CHMP2B2017Cortical / excitatory no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity of Copenhagen
GSE93321 GEOSingle cell gene expression in Dlxi1/2b::eGFP+ cells before and after migration, 2 weeks2017Cortical / excitatoryOrganoids no exact timepointOrganoidsingle-cell/nucleusscRNA-seqStanford Genome Technology Center
GSE93811 GEOSingle cell profiling of hCS and hSS derived from human iPSC2017Cortical / excitatoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqBD Biosciences
GSE94888 GEOFUS mutant human motoneurons transcriptome analysis reveals altered pathways and impairment of microRNA function2017Motor2D directed differentiationbulkbulk RNA-seqSapienza University of Rome
GSE95089 GEORNA-seq analysis revealed aberrant gene expression in motor neurons derived from ALS patient iPSCs bearing SOD1+/A272C mutation2017Motor2D directed differentiationbulkbulk RNA-seqUniversity of Chinese Academy of Sciences
GSE95837 GEOSingle cell gene expression in Dlxi1/2b::eGFP+ cells before and after migration, 4 weeks2017Cortical / excitatoryInhibitoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqStanford Genome Technology Center
GSE96045 GEOSingle cell gene expression in Dlxi1/2b::eGFP+ cells before and after migration2017Cortical / excitatoryInhibitoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqStanford Genome Technology Center
GSE97324 GEORNA-seq analysis of MCT8-deficient and healthy control brain microvascular endothelial cells (BMECs) and neural cells2017Other neurons2D directed differentiationbulkbulk RNA-seqCedars-Sinai Medical Center
GSE97744 GEODirected differentiation of human pluripotent stem cells to microglia2017Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqThe New York Stem Cell Foundation
GSE98288 GEOProgressive motor neuron pathology and the role of astrocytes in a human stem cell model of VCP-related ALS2017MotorAstrocytes2D directed differentiationbulkbulk RNA-seqIdiap Research Institute
GSE99843 GEOProgressive motor neuron pathology and the role of astrocytes in a human stem cell model of VCP-related ALS [terminally differentiated iPSC-derived astrocytes]2017Astrocytes2D directed differentiationbulkbulk RNA-seqIdiap Research Institute
GSE99951 GEOMaturation of Human iPSC-derived Astrocytes in 3D Cortical Spheroids2017Cortical / excitatoryAstrocytesOrganoidsOrganoidbulk + single-cellbulk RNA-seq+scRNA-seqEmory University
E-MTAB-4586 ArrayExpressRNA-Seq profiling of dopaminergic neurons from iPSCs of Parkinson's disease patients2016Dopaminergic no exact timepoint2D directed differentiationbulkbulk RNA-seqGenome Institute of Singapore
GSE56398 GEOIncreased response to nicotine in human dopaminergic neurons derived from iPSC carrying the risk-associated SNP rs169699682016Dopaminergic2D directed differentiationbulkbulk RNA-seqRutgers University
GSE63734 GEONext Generation Sequencing Facilitates Comparisons of Control and Schizophrenia-Patient derived hiPSC-derived neurons2016Cortical / excitatory no exact timepointNot statedbulkbulk RNA-seqIcahn School of Medicine at Mount Sinai
GSE67528 GEOEvidence for proliferation and synaptogenesis impairments in neural cells derived from idiopathic autistic patients2016Other neurons no exact timepointNot statedbulkbulk RNA-seqUCLA
GSE69790 GEOSingle cell transcriptomics analysis of induced pluripotent stem cell-derived cortical neurons reveals frequent dual layer identity2016Cortical / excitatory2D directed differentiationsingle-cell/nucleusscRNA-seqUniversity of Oxford
GSE75719 GEOTranscription profiling of neuronal metabolic reprogramming2016Other neuronsNot statedbulkbulk RNA-seqSalk Institute for Biological Studies
GSE76490 GEOTranscriptomic analysis of human iPS cells derived from fragile X syndrome patients during neural differentiation2016Other neurons2D directed differentiationbulkbulk RNA-seqSt Jude Children's Research Hospital
GSE77564 GEOCoupled electrophysiological recording and single-cell transcriptome analyses revealed molecular mechanisms underlying neuronal maturation2016Other neurons no exact timepointNot statedsingle-cell/nucleusscRNA-seqTongji Hospital, Tongji University
GSE77702 GEODistinct and shared functions of ALS-associated TDP-43, FUS, and TAF15 revealed by comprehensive multi-system integrative analyses [RNA-Seq_human]2016Other neurons no exact timepointNot statedbulkbulk RNA-seqUCSD
GSE78347 GEOsingle cell RNA-seq from bipolar spindle neuron (ENCSR225BBK)2016Other neurons no exact timepointNot statedsingle-cell/nucleusscRNA-seqENCODE DCC
GSE78683 GEOtotal RNA-seq from bipolar spindle neuron (ENCSR968WKR)2016Other neurons no exact timepointNot statedbulkbulk RNA-seqENCODE DCC
GSE78711 GEOZika Virus Targets Human Cortical Neural Precursors and Attenuates Their Growth2016Cortical / excitatory no exact timepoint2D directed differentiationbulkbulk RNA-seqEmory University
GSE80073 GEOGeneration of Brain Region-specific Organoids using a Miniaturized Spinning Bioreactor and Modelling ZIKV Exposure2016OrganoidsOrganoidbulkbulk RNA-seqEmory University
GSE83256 GEOAberrant transcriptional networks in neurogenesis of Paroxysmal Kinesigenic Dyskinesia-induced pluripotent stem cell lines though neural induction method of dual inhibition of SMAD signaling2016Other neurons2D directed differentiationbulkbulk RNA-seqTongji Hospital, Tongji University
GSE83638 GEOModeling human brain evolution using induced pluripotent stem cells: comparative analysis of neuronal development in humans and chimpanzees2016Other neurons2D directed differentiationbulkbulk RNA-seqSalk Institute
GSE85839 GEOEfficient derivation of microglia-like cells from human pluripotent stem cells2016Microglia no exact timepoint2D directed differentiationbulkbulk RNA-seqWhitehead Institute
GSE86153 GEOIdentification of extensive cellular diversity and maturation of active neuronal networks in long-term cultures of human brain organoids2016Other neuronsOrganoidsOrganoidsingle-cell/nucleusscRNA-seqHarvard University
GSE86207 GEODifferences and similarities between human and chimpanzee neural progenitors during cerebral cortex development2016OrganoidsOrganoidsingle-cell/nucleusscRNA-seqMax Planck Institute for Evolutionary Anthropology
GSE87963 GEOtotal RNA-seq from bipolar spindle neuron (ENCSR023VVO) [superseded by GSE332573]2016Other neurons no exact timepointNot statedbulkbulk RNA-seqENCODE DCC
GSE89991 GEORNA-Seq in PWS iPSC-derived neurons2016Other neuronsNot statedbulkbulk RNA-seqColumbia University
GSE58933 GEOHyper-excitability of Neurons generated from Patients with Bipolar Disorder2015Other neurons no exact timepoint2D directed differentiationbulkbulk RNA-seqSalk Institute
GSE61476 GEOFOXG1-dependent dysregulation of GABA/glutamate neuron differentiation in autism spectrum disorders2015Cortical / excitatoryInhibitoryOrganoidsOrganoidbulkbulk RNA-seqYale University
GSE65508 GEOModeling the early phenotype at the neuromuscular junction of spinal muscular atrophy using patient-derived iPSCs (RNA-Seq)2015Motor no exact timepoint2D directed differentiationbulkbulk RNA-seqKyoto University
GSE69175 GEOSelective Death in Spinal Muscular Atrophy: Genome-Wide RNA-Seq Using Purified Patient-Derived Motor Neurons2015Motor no exact timepointNot statedbulkbulk RNA-seqHarvard University
GSE71289 GEOTranscriptome profiling of human neural progenitor cells and neurons with DISC1 interruption2015Other neurons2D directed differentiationbulkbulk RNA-seqUCSB
GSE71594 GEOTranscriptome of iPSC-derived Neural Cells with Heterozygous Knockout in CHD82015Other neurons no exact timepointNot statedbulkbulk RNA-seqAlbert Einstein College of Medicine
GSE72994 GEOHuman stem cell based models of neuronal migration provide insight into neurological disease pathogenesis and potential treatment2015Cortical / excitatory no exact timepoint2D directed differentiationbulkbulk RNA-seqRockefeller University
GSE75140 GEOHuman cerebral organoids recapitulate gene expression programs of fetal neocortex development.2015Cortical / excitatoryOrganoidsOrganoidsingle-cell/nucleusscRNA-seqMax Planck Institute for Evolutionary Anthropology
GSE43143 GEORNA-Seq analysis of neurons derived from induced pluripotent stem cells reprogrammed from dental pulp2014Other neurons no exact timepointNot statedbulkbulk RNA-seqAlbert Einstein College of Medicine
GSE52431 GEOHuman iPSC-based Modeling of Late-Onset Disease using Progerin-induced Aging2014Dopaminergic no exact timepoint2D directed differentiationbulkbulk RNA-seqMemorial Sloan Kettering Cancer Center
GSE53667 GEOGene expression profiling in an induced pluripotent stem cell model of the developing human telencephalon: effect of heat shock and its potential impact on the development of neuropsychiatric disorders2014Other neuronsOrganoidsOrganoidbulkbulk RNA-seqAlbert Einstein College of Medicine
GSE54112 GEOZNF804A transcriptome networks in differentiating human neurons derived from induced pluripotent stem cells2014Other neuronsNot statedbulkbulk RNA-seqAlbert Einstein College of Medicine
GSE54409 GEOPathways Disrupted in Human ALS Motor Neurons Identified Through Genetic Correction of Mutant SOD12014Motor no exact timepoint2D directed differentiationbulkbulk RNA-seqHarvard University
GSE57821 GEOTranscriptional dysregulation of synaptic genes in a human iPSC model of major mental disorders2014NGN2 / TF-programmedCortical / excitatoryTF programming (NGN2)bulkbulk RNA-seqUniversity of California Santa Barbara
GSE60548 GEORapid neurogenesis through transcriptional activation in human stem cell (RNA-Seq)2014NGN2 / TF-programmedTF programming (NGN2)bulkbulk RNA-seqUniversity of California, San Diego
GSE60902 GEORestoration of Progranulin Expression Rescues Cortical Neuron Generation in Induced Pluripotent Stem Cell Model of Frontotemporal Dementia2014Cortical / excitatory no exact timepoint2D directed differentiationbulkbulk RNA-seqVIB
GSE62642 GEORNA-Seq Analysis in purified iPS cell-derived neuronal samples2014Dopaminergic2D directed differentiationbulkbulk RNA-seqThe New York Stem Cell Foundation
GSE62936 GEORNA-Seq Analysis in hES/ iPS cell-derived neuronal samples2014Other neurons2D directed differentiationbulkbulk RNA-seqColumbia University Medical Center
GSE43526 GEOCo-ordinate inhibition of autism candidate genes by topoisomerase inhibitors [Seq]2013Cortical / excitatory no exact timepoint2D directed differentiationbulkbulk RNA-seqUniversity of North Carolina at Chapel Hill
GSE46562 GEORNA-seq in neurons derived from iPSCs in controls and patients with schizophrenia and 22q11 del2013Other neuronsNot statedbulkbulk RNA-seqAlbert Einstein College of Medicine
GSE52202 GEOiPSC derived motor neuron cultures from C9ORF72 carriers2013Motor no exact timepointNot statedbulkbulk RNA-seqCedars-Sinai Medical Center
GSE32625 GEORNA-Seq of human neurons derived from iPS cells Reveals candidate long non-coding RNAs Involved in neurogenesis and neuropsychiatric disorders.2011Other neuronsNot statedbulkbulk RNA-seqAlbert Einstein college of medicine

GEO 1,109, ArrayExpress 54. Years 2011 to 2026. "No exact timepoint" marks series added in v1.1 that do not state a differentiation day.

Scoring set

These fixed references are what PROXIMA scores against. Where a DOI is shown it was checked against the publisher record.

Human brain atlases

ReferenceTitleUsed asDOI
Braun et al. 2023, ScienceComprehensive cell atlas of the first-trimester developing human brainFetal brain classes (single-cell, pseudobulk)10.1126/science.adf1226
Siletti et al. 2023, ScienceTranscriptomic diversity of cell types across the adult human brainAdult brain classes (single-nucleus, pseudobulk)10.1126/science.add7046

GEO 1,109, ArrayExpress 54. Years 2011 to 2026. "No exact timepoint" marks series added in v1.1 that do not state a differentiation day.

Only public accession metadata is shown on this page.