Neural organoid

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Unknown (325)
Transcriptomics (296)
Genomics (224)
Proteomics (34)
Other (7)
Metabolomics (7)
Methylation profiling (2)

Organisms

Homo sapiens (279)
Mus musculus (48)
Allexis (23)
Arabidopsis thaliana (23)
Callinectes sapidus (23)
Drosophila (23)
Drosophila melanogaster (23)
Ensifer adhaerens (23)
Entamoeba histolytica (23)
Escherichia coli (23)
Leishmania major strain Friedlin (23)
Listeria monocytogenes (23)
Medicago truncatula (23)
Methylohalobius crimeensis 10Ki (23)
Mus musculus (23)
Mycobacterium tuberculosis (23)
Oryza sativa Indica Group (23)
Physcomitrium patens (23)
Pseudomonas fluorescens WH6 (23)
Pseudomonas putida KT2440 (23)
Rattus norvegicus (23)
Saccharomyces cerevisiae (23)
Pan troglodytes (3)
Xenopus laevis (3)
mixed sample (2)
Pan paniscus (1)
Sus scrofa (1)
Drosophila melanogaster (1)
Homo sapiens/Mus musculus xenograft (1)
Aedes aegypti (1)

Organisms

Homo sapiens (148)
Mus musculus (15)
Xenopus laevis (3)

Repository

ENA (203)
biostudies-arrayexpress (170)
geo (148)
pride (23)
EGA (8)
MetaboLights (7)
jPOST (4)
MassIVE (4)
iProX (3)

Tissue

Cell culture (9)
Brain (7)
Pluripotent stem cell (6)
Embryonic stem cell (2)
Neural cell (2)
Basal forebrain (1)
Forebrain (1)
Neural progenitor cell (1)
Neural retina (1)
Neuronal stem cell (1)
Permanent cell line cell (1)

Disease

Normal (2)
Schizophrenia (2)
Post-stasis (1)
Congenital disorder of glycosylation (1)
Disease free (1)
Leigh disease (1)

Technology Type

Mass Spectrometry (23)
Shotgun proteomics (14)
Bottom-up proteomics (6)
Mass spectrometry (4)
Data-independent acquisition (4)
HDMSE (4)
Mass spectrometry assay (3)
Data-dependent acquisition (2)
All-ion fragmentation (1)
SRM/MRM (1)

Instrument Platform

Illumina NovaSeq 6000 (71)
NextSeq 500 (12)
Illumina HiSeq 2500 (11)
Illumina HiSeq 4000 (11)
N/A (8)
Illumina NovaSeq X (5)
Illumina HiSeq 2000 (5)
Chromium Next GEM Single Cell Multiome ATAC + Gene Expression Reagent Bundle, (4)
10X Genomics reagent kit (4)
NextSeq 550 (3)
10X Chromium Nuclei Isolation Kit (2)
Fluidigm C1 (2)
Agilent 2100 Bioanalyzer (2)
NA (2)
NextSeq 2000 (2)
Chromium X instrument (10x Genomics); GEM-X FX Chips (10x Genomics); Agilent TapeStation D1000; qPCR (library quantification kit for Illumina platforms) (1)
Chromium X instrument (10x Genomics); GEM-X Flex Sample Preparation v2 Kit (10x Genomics; 1000781); Human Gene Expression Probe Set v1.0.1 (10x Genomics) (1)
Countess 3 FL Automated Cell Counter (Thermo Fisher Scientific; AMQAF2000); GEM-X Flex Sample Preparation v2 Kit (10x Genomics; 1000781) (1)
Illumina NOVAseq 6000 (1)
Chromium Controller, 10x Genomics and Chromium X, 10x Genomics (1)
Chromium Controller, 10x Genomics and Chromium X, 10x Genomics (1)
Cell culture (1)
Chromium Next GEM Single Cell Multiome Reagent Bundle (1)
10X Genomics reagents (1)
IEO HPC (1)
CytoFLEX SRT Benchtop Cell Sorter (1)
Sony SH800S Cell Sorter (1)
10X Chromium On-Chip Multiplex (1)
Sony SH8000S Cell Sorter (1)
10x Chromium with a target of 5,000 cells. Chromium Single Cell 3’ Library & Gel Bead Kit v2 (1)

Publication Date

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2025 (48)
2022 (46)
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2020 (25)
2013 (11)
2019 (10)
2016 (8)
2014 (8)
2018 (6)
2012 (6)
2010 (4)
2015 (3)
2009 (3)
2011 (2)
2017 (2)
2007 (1)
2004 (1)

CHEBI ID

CHEBI:16959 (1)
CHEBI:61553 (1)
CHEBI:37736 (1)
CHEBI:18105 (1)
CHEBI:67040 (1)
CHEBI:16284 (1)
CHEBI:67168 (1)
CHEBI:17482 (1)
CHEBI:46905 (1)
CHEBI:17312 (1)
CHEBI:28358 (1)
CHEBI:16001 (1)
CHEBI:29042 (1)
CHEBI:17588 (1)
CHEBI:17768 (1)
CHEBI:18077 (1)
CHEBI:18307 (1)
CHEBI:15903 (1)
CHEBI:35619 (1)
CHEBI:17202 (1)
CHEBI:16742 (1)
CHEBI:16349 (1)
CHEBI:48928 (1)
CHEBI:16610 (1)
CHEBI:17561 (1)
CHEBI:4047 (1)
CHEBI:16857 (1)
CHEBI:17794 (1)
CHEBI:15996 (1)
CHEBI:30887 (1)

Metabolite Name

SM(d18:1/25:1) (1)
SM(d18:2/26:1) (1)
SM(d18:2/24:3) (1)
PI(16:0_14:1) (1)
PI(18:0_20:1) (1)
PI(15:1_18:1) (1)
PI(15:0_21:0) (1)
PG(20:3_22:6) (1)
PG(17:0_18:1) (1)
PE(P-20:0_22:6) (1)
PE(P-24:1_18:2) (1)
PE(P-17:0_20:1) (1)
PE(P-18:0_19:1) (1)
PE(P-20:0_20:3) (1)
PE(P-20:0_20:0) (1)
PE(P-18:1_20:1) (1)
PE(O-20:1_22:6) (1)
PE(O-24:1_18:2) (1)
PE(22:2_18:0) (1)
PC(O-24:0_20:4) (1)
PC(O-16:1_24:2 (1)
PC(O-18:1_22:0) (1)
PC(O-18:1_22:1) (1)
PA(16:1_20:5) (1)
PA(16:0_16:1) (1)
PA(16:1_22:4) (1)
MGDG(16:0_16:0) (1)
MGDG(14:0_18:0) (1)
LPS(24:1) (1)
LPS(24:0) (1)

First Public Date

2025 (47)
2026 (34)
2024 (32)
2023 (27)
2021 (25)
2022 (14)
2020 (11)
2019 (4)
2018 (3)
2017 (3)
2016 (1)
2015 (1)
2014 (1)

Study type

RNA-seq of coding RNA from single cells (59)
RNA-seq of coding RNA (44)
Transcription profiling by array (20)
Methylation profiling by array (8)
Cell line - High-throughput sequencing (6)
ScATAC-seq (4)
Single nucleus RNA sequencing (4)
Cell line - Single-cell sequencing (3)
Human - Single-cell sequencing (3)
DNA-seq (3)
Genotyping by array (2)
RNA-seq of total RNA (2)
RNA-seq of non coding RNA (2)
Baseline (1)
RNA-seq of non coding RNA from single cells (1)
ChIP-chip by tiling array (1)
High-throughput sequencing (1)
Human - One-color microarray (1)
ChIP-chip by array (1)
Transcription profiling by RT-PCR (1)
ATAC-seq (1)
Genotyping by high throughput sequencing (1)
Methylation profiling by high throughput sequencing (1)

Release Date

2024 (76)
2025 (73)
2022 (70)
2021 (60)
2023 (51)
2020 (41)
2026 (28)
2019 (21)
2018 (17)
2016 (12)
2013 (11)
2014 (9)
2012 (6)
2017 (6)
2010 (4)
2015 (3)
2009 (3)
2011 (2)
2007 (1)
2004 (1)

Lab affiliation

Lab of Neuroproteomics, Department of Biochemistry and Tissue Biology, Institute of Biology, University of Campinas (UNICAMP), Campinas, SP, Brazil (3)
Biomedical Research Institute, Foundation for Research and Technology-Hellas, University Campus, 45110 Ioannina, Greece (1)
CNRS, UMR7178, LSMBO, 67087 Strasbourg, FRANCE Université de Strasbourg, IPHC, 25 rue Becquerel, 67087 Strasbourg, FRANCE (1)
Children's Medical Research Insitute, The University of Sydney (1)
Department of Biochemistry and Molecular Biology University of Southern Denmark (1)
Department of Biochemistry and Molecular Biology, University of Southern Denmark, Denmark (1)
Department of Laboratory Medicine and Pathology Mayo Clinic, Rochester, Minnesota 55905 United States (1)
Department of biochemistry and molecular biology, BioMS section, University of Southern Denmark (1)
Division of Neurobiology Department of Experimental Medical Science Lund Stem Cell Center Wallenberg Neuroscience Center BMC A11, Lund University 221 84 Lund, Sweden (1)
IMBA – Institute of Molecular Biotechnology of the Austrian Academy of Sciences, Vienna Biocenter (VBC), Vienna, Austria (1)
ISSCOR / UCSD (1)
Lab of Neuroproteomics, Department of Biochemistry and Tissue Biology, Institute of Biology, University of Campinas (UNICAMP), Campinas, SP, Brazil. (1)
Princess Margaret Hospital University of Toronto University Health Network (1)
Principal Investigator „Stem Cell Metabolism“ Group Department of General Pediatrics, Neonatology, and Pediatric Cardiology University Clinic Düsseldorf (UKD), Heinrich Heine University (HHU) Moorenstraße 5, 40225 Düsseldorf, Germany Building 13.41, Level 3, Room 29 (1)
Proteomics Core Facility and Research Group Proteomics, CEITEC-MU, Masaryk University, Brno, Czech Republic (1)
Proteomics Unit, Institute of Chemistry, Federal University of Rio de Janeiro (UFRJ), Rio deJaneiro, Brazil. Precision Medicine Research Center, Institute of Biophysics Carlos Chagas Filho, Federal University of Rio de Janeiro (UFRJ), Rio de Janeiro, Brazil. (1)
Singapore Immunology Network (SIgN), Agency for Science, Technology and Research, Singapore 138648, Singapore (1)
Strand Leader BENM, Lloyd Sansom Chair Future Industries Institute, UniSA (1)
Synapse Proteomics, Children's Medical Research Insitute, The University of Sydney, Australia (1)
University Health Network, University of Toronto (1)
University of Zurich, Brain Research Institute, Laboratory of Neural Plasticity (1)

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Posterior brain organoids multi-omics atlas

Here, we generated multiome (coupled scRNA-seq and scATAC-seq) data over a time course of mid- and hindbrain organoid development to map cell composition and explore the regulatory mechanisms underlying cell type maturation. The dataset incorporates 5 time points from day 7 to day 120 from 3 human i...

ORGANISM(S): Homo sapiens

2026-03-17 | E-MTAB-15659 | biostudies-arrayexpress

Lineage recording in human cerebral organoids (microdissected)

Induced pluripotent stem cell (iPSC) derived organoid systems provide models to study human organ development. Single-cell transcriptome sequencing enables highly-resolved descriptions of cell state heterogeneity within these systems and computational methods can reconstruct developmental trajectori...

ORGANISM(S): Homo sapiens

2021-11-03 | E-MTAB-10973 | biostudies-arrayexpress

Lineage recording in human cerebral organoids (whole organoids)

ORGANISM(S): Homo sapiens

2021-11-03 | E-MTAB-10974 | biostudies-arrayexpress

bulk RNA-seq NOHA

Bulk RNA sequencing (bulk RNA-seq) data of the Neural Organoid Hormonal Atlas (NOHA). To investigate the impact of hormonal modulation on neurodevelopmental processes, we used neural organoids derived from two genetically validated human induced pluripotent stem cell (hiPSC) control lines (CTL08, ma...

ORGANISM(S): Homo sapiens

2026-07-22 | E-MTAB-17185 | biostudies-arrayexpress

scRNA-seq of posterior brain organoid morphogen screen

To pattern novel posterior brain regions, we used a multiplexed morphogen screen with a single-cell sequencing readout to test 48 concentrations and combinations of 10 morphogens involved in brain patterning. This screen revealed the emergence of regions harboring under-represented cell types, such ...

ORGANISM(S): Homo sapiens

2026-03-16 | E-MTAB-15660 | biostudies-arrayexpress

iPS2-10X-seq Neural organoid differentiation

PRJEB91672 | ENA

Lineage recording in human cerebral organoids (iTracer-perturb)

ORGANISM(S): Homo sapiens

2021-11-03 | E-MTAB-10971 | biostudies-arrayexpress

iPS2-10X-seq Neural organoid differentiation

iPS2-10X-seq on Neural organoid differentiation after 35days of differentiation. This experiment is a proof of principle that iPS2seq can be applied to different differentiation strategies without risk of silencing. This experiment also showed how neuro-iPSC clones differentiate preferentially towar...

ORGANISM(S): Homo sapiens

2025-10-27 | E-MTAB-15308 | biostudies-arrayexpress

Lineage recording in human cerebral organoids (Visium)

ORGANISM(S): Homo sapiens

2021-11-03 | E-MTAB-10972 | biostudies-arrayexpress

Analysis of human enteroids and colonoids (3D organoid models from small intestine and colon) exposed to chemotherapy agent 5-fluorouracil (5FU) in a dose-repeated exposure across three doses (10,100 and 1000uM) and sampled at three points (24, 48 and 72h) since initial exposure. Organoids were obtained from healthy human tissues.

ADRs (adverse drug reactions) are one of the main reasons for treatment discontinuation or alterations in dose regimens in clinical settings. Chemotherapy-induced ADRs are common, especially gastrointestinal-induced ones. Within TransQST (transqst.org), one of the main goal is to improve the in vitr...

ORGANISM(S): Homo sapiens

2021-09-09 | E-MTAB-9134 | biostudies-arrayexpress

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895 Results

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