Human fetal brain

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Unknown (1454)
Transcriptomics (1149)
Genomics (464)
Proteomics (88)
Methylation profiling (22)
Metabolomics (19)
Genomic (10)
Other (5)
Multiomics (1)

Organisms

Homo sapiens (721)
Mus musculus (349)
Drosophila melanogaster (179)
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Sus scrofa (4)
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synthetic construct (3)
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Caenorhabditis elegans (2)
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Listeria monocytogenes (1)
mixed sample (1)
Cricetulus griseus (1)
Oryctolagus cuniculus (1)

Organisms

Homo sapiens (234)
Mus musculus (42)
Rattus norvegicus (7)
Macaca mulatta (4)
Macaca nemestrina (2)
Danio rerio (2)
Ovis aries (1)
Drosophila melanogaster (1)

Repository

biostudies-arrayexpress (1022)
ENA (344)
geo (248)
pride (73)
EGA (30)
MetaboLights (17)
dbGaP (10)
MassIVE (8)
GNPS (2)
iProX (2)
jPOST (2)
PeptideAtlas (1)

Tissue

Brain (31)
Cell culture (24)
Kidney (7)
Lung (6)
Liver (6)
Placenta (5)
Blood plasma (5)
Colon (5)
Amniotic fluid (4)
Microglial cell (4)
Heart (4)
Testis (4)
Permanent cell line cell (4)
Astrocyte (3)
Pancreas (3)
Adrenal gland (3)
Cerebral cortex neuron (3)
Skin (3)
Early embryonic cell (3)
Ovary (3)
Primary cell (3)
Prostate gland (2)
Embryonic stem cell (2)
Muscle (2)
Bone marrow (2)
Spinal cord (2)
Stem cell (2)
Spleen (2)
Thymus (2)
Urinary bladder (2)

Disease

Normal (6)
Brain cancer (5)
Alzheimer's disease (3)
Glioblastoma (3)
Prostate adenocarcinoma (2)
Parkinson's disease (2)
Disease free (2)
HIV-associated dementia (1)
Primary medulloblastoma (1)
Not applicable (1)
Squamous cell carcinoma has accession C0007137 in DiseaseStateDatabase NCI_Thesaurus (1)
Pancreatic ductal adenocarcinoma (1)
Chronic granulomatous disease (1)
Liposarcoma (1)
IRAK-4 Q293X mutation (1)
Colonic adenocarcinoma (1)
Astrocytoma III (1)
Acute promyelocytic leukemia (1)
Colorectal adenocarcinoma (1)
Fetal alcohol syndrome (1)
Myelomeningocele (1)
Spina bifida (1)
Synovial sarcoma (1)
Embryonal rhabdomyosarcoma (1)
Renal Wilms' tumor (1)
Uveal melanoma (1)
Sickle cell anemia (1)
Peripheral primitive neuroectodermal tumor (1)
Fibrosarcoma (1)
Head and neck cancer (1)

Technology Type

Mass Spectrometry (73)
Shotgun proteomics (41)
Bottom-up proteomics (21)
Mass spectrometry (14)
Data-independent acquisition (11)
Data-dependent acquisition (8)
Top-down proteomics (3)
Chemical cross-linking coupled with mass spectrometry proteomics (3)
Illumina HiSeq 2000 (2)
NMR spectroscopy (2)
Affinity purification coupled with mass spectrometry proteomics (2)
Illumina 450K array, ILLUMINA, Illumina HiSeq 2000, NextSeq 500 (1)
Illumina HiSeq 2500, ILLUMINA, Illumina HiSeq 2000 (1)
Mass spectrometry assay (1)
DiaPASEF (1)
SWATH MS (1)
SRM/MRM (1)
Gel-based experiment (1)

Instrument Platform

Illumina NovaSeq 6000 (66)
NextSeq 500 (22)
Illumina HiSeq 4000 (16)
Illumina HiSeq 2500 (15)
Illumina HiSeq 2000 (8)
NextSeq 2000 (7)
Illumina MiSeq (6)
Illumina NovaSeq X (4)
NextSeq 550 (4)
Illumina HiSeq 3000 (4)
Single-Cell Extraction: For enzymatic digestion, pronase (Septomyces argeus, 1 mg/mL) was applied for 25 minutes at room temperature for P0 to P8 datasets. Cells were dissociated and triturated into a single-cell suspension in ACSF supplemented with 1% fetal calf serum (FCS) and DNase (1 µL/10 mL). Trituration was performed using three glass Pasteur pipettes of decreasing diameters. For P30 datasets, enzymatic digestion and cell dissociation were carried out using the Worthington Papain Dissociation System, following the manufacturer’s instructions. Single-Nuclei Extraction: For nuclei isolation, the Hibernate™-E Medium was removed, and 500 µL of chilled 0.1X NP40 Lysis Buffer was added. Tissue was homogenized using a Pellet Pestle (15 strokes) and incubated on ice for 5 minutes. The suspension was pipette-mixed 10 times using a wide-bore pipette tip and incubated for an additional 10 minutes on ice. Following lysis, 500 µL of chilled wash buffer was added, and the mixture was pipette-mixed 5 times using a regular-bore pipette tip. The suspension was filtered through a 30 µm cell strainer into a 50 mL tube to remove debris. The filtered suspension was transferred to a 1.5 mL tube and centrifuged at 950 × g for 10 minutes at 4°C. The supernatant was carefully removed, and the nuclei pellet was retained for downstream analysis. (2)
Single nuclei were captured using the 10x Genomics Chromium Controller. (2)
MA900, Sony (2)
10x Chromium Controller (2)
Agilent High resolution C scanner (2)
Sony SH800 (2)
Scanning hardware (2)
Qubit 4 Fluorometer (1)
STAR v2.5.3a, rpkmforgenes, RSeQC 2.6.1 (1)
Illumina Nextera XT index kits (Set A–D) (1)
Oligo(dT) primer and SuperScript II reverse transcriptase (ThermoFisher Scientific), TapeStation 4200 or 2100 Bioanalyzer with a DNA High Sensitivity chip (Agilent Biotechnologies) (1)
Aria III (BD Biosciences) (1)
Chromium Next GEM Chip G (1)
10X v3 (1)
5-Laser BD FACSAria III (1)
CytoFLEX SRT Benchtop Cell Sorter (1)
Sony SH800S Cell Sorter (1)
Chromium Controller (10X) (1)
10X Genomics Chromium v3.1 with multiplexing kit (1)
Diva (1)

Publication Date

2011 (156)
2013 (149)
2014 (118)
2015 (109)
2012 (90)
2010 (85)
2016 (79)
2025 (77)
2026 (65)
2022 (56)
2021 (50)
2024 (47)
2008 (42)
2019 (40)
2023 (38)
2017 (35)
2009 (34)
2018 (33)
2020 (31)
2007 (20)
2004 (8)
2006 (6)
2005 (6)
2003 (1)

UNIPROT ID/AC

Q9Z2S7-4 (1)
Q9Z247 (1)
Q9Z1Q2 (1)
Q9Z0K8 (1)
Q9R014 (1)
Q9JKD3 (1)
Q9ET52 (1)
Q9EP52 (1)
Q9DAY2 (1)
Q9DAY1 (1)
Q9DAX0 (1)
Q9DAV5 (1)
Q9DAT7 (1)
Q9D164 (1)
Q9CR60 (1)
Q9CQV4 (1)
Q9CQC0 (1)
Q9CQ58 (1)
Q91ZF4 (1)
Q91ZD5 (1)
Q8VHQ1 (1)
Q8VDH1 (1)
Q8K078 (1)
Q8BSN5 (1)
Q8BMT0 (1)
Q80UY2 (1)
Q7TNL7 (1)
Q78Y73 (1)
Q78Y72 (1)
Q6ZQ73 (1)

ENSEMBL ID

ENSMUSG00000027651 (1)
ENSMUSG00000072849 (1)
ENSMUSP00000141097 (1)

CHEBI ID

CHEBI:18132 (6)
CHEBI:17553 (5)
CHEBI:16856 (5)
CHEBI:16027 (5)
CHEBI:64561 (5)
CHEBI:15891 (5)
CHEBI:16015 (5)
CHEBI:16467 (5)
CHEBI:17895 (5)
CHEBI:17295 (5)
CHEBI:16828 (5)
CHEBI:30769 (5)
CHEBI:44215 (4)
CHEBI:16870 (4)
CHEBI:18176 (4)
CHEBI:6650 (4)
CHEBI:15318 (4)
CHEBI:16708 (4)
CHEBI:17568 (4)
CHEBI:16264 (4)
CHEBI:16704 (4)
CHEBI:15741 (4)
CHEBI:17115 (4)
CHEBI:17203 (4)
CHEBI:18019 (4)
CHEBI:15971 (4)
CHEBI:18050 (4)
CHEBI:17196 (4)
CHEBI:15428 (4)
CHEBI:16919 (4)

Metabolite Name

Xanthine (4)
Valine (3)
Glutamylmethionine (3)
DL-2-hydroxy stearic acid (3)
Undecanedioic acid (3)
N-Acetylneuraminic acid (3)
Taurine (3)
Xanthosine (3)
L-Tyrosine (3)
Hypoxanthine (3)
Tyrosine (3)
Threonine (3)
Proline (3)
L-Tryptophan (3)
Glutamine (3)
Glucose (3)
Citric acid (3)
Uric acid (3)
Uridine (3)
6-Chloroapigenin (2)
5-Aminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate (2)
2-Undecen-1-ol (2)
Neuromedin N (1-4) (2)
1-(gamma-Glutamylamino)cyclopropanecarboxylic acid (2)
D-Glucosamine-6-phosphate (2)
Humulol (2)
PSOROMIC ACID (2)
Fluazifop (2)
D-Glucuronic acid 1-phosphate (2)
S-3-oxodecanoyl cysteamine (2)

First Public Date

2014 (60)
2025 (55)
2024 (31)
2017 (26)
2023 (25)
2026 (22)
2019 (19)
2022 (18)
2021 (18)
2016 (18)
2015 (17)
2020 (16)
2018 (12)
2013 (7)

Modification

4'-dihydroxyphenylalanine (1)
4x(15)N labeled L-arginine (1)

Study type

Transcription profiling by array (479)
ChIP-chip by tiling array (153)
RNA-seq of coding RNA (121)
RNA-seq of coding RNA from single cells (57)
ChIP-seq (47)
Methylation profiling by array (26)
Comparative genomic hybridization by array (18)
Methylation profiling by high throughput sequencing (16)
RNA-seq of non coding RNA (13)
Other (11)
RNA-seq of total RNA (9)
Unknown experiment type (8)
Animal - High-throughput sequencing (5)
Cell line - High-throughput sequencing (5)
Single nucleus RNA sequencing (5)
Cell line - One-color microarray (4)
RNAi profiling by array (4)
Genotyping by array (4)
ChIP-chip by array (3)
ScATAC-seq (3)
DNA-seq (3)
Transcription profiling by SAGE (2)
Cell line - Single-cell sequencing (2)
Animal - One-color microarray (2)
One-color microarray (2)
Animal - Single-cell sequencing (2)
Human - High-throughput sequencing (2)
ATAC-seq (2)
Proteomic profiling by array (2)
Single-nucleus ATAC-seq (1)

Release Date

2013 (184)
2011 (184)
2023 (164)
2021 (163)
2014 (158)
2022 (153)
2025 (144)
2015 (143)
2020 (140)
2016 (140)
2018 (126)
2012 (117)
2017 (111)
2024 (109)
2019 (101)
2010 (101)
2009 (54)
2026 (51)
2008 (50)
2007 (28)
2006 (14)
2005 (9)
2004 (8)
2003 (6)
2000 (4)
2002 (3)
2001 (3)
1999 (3)
1998 (2)
1997 (2)

Lab affiliation

DZNE Munich, Neuroproteomics, Feodor-Lynen-Str. 17, 81377 München, Germany (3)
IRCCS Istituto G Gaslini (2)
Proteomics Unit, Department of Biochemistry, Chemistry Institute, Federal University of Rio de Janeiro (UFRJ). Av. Athos da Silveira Ramos, 149 - bloco A 5° andar - Cidade Universitária da Universidade Federal do Rio de Janeiro, Rio de Janeiro - RJ, 21941-909, Brazil. (1)
Department of Pediatrics University of Maryland, School of Medicine (1)
Mass spectrometry facility, Functional Proteomics, SFB 815 Core Unit, Goethe-Universität, Frankfurt am Main, Germany (1)
Federal State Institution V. P. Serbsky Federal Medical Research Center of Psychiatry and Narcology National Scientific Research Centre on Addictions of the Ministry of Healthcare of the Russian Federation, 119002 Moscow, Russian Federation (1)
Thoracic and GI Malignancies Branch, CCR, NCI, NIH, Bethesda, MD (1)
Institute of Biomedical Chemistry of Russian Academy of Medical Sciences, Pogodinskaya 10, Moscow, 119121, Russia (1)
Institut national de la recherche scientifique(INRS)-Centre Armand Frappier Santé Biotechnologie (1)
Department of Anatomy and Neurobiology, Research Center for Sectional and Imaging Anatomy, Shandong Provincial Key Laboratory of Mental Disorder, Shandong Key Laboratory of Digital Human and Clinical Anatomy, School of Basic Medical Sciences, Cheeloo College of Medicine, Shandong University, China (1)
Neurovirology group, Wuhan institute of Virology, Chinese Academy of Sciences (1)
Mount Sinai Hospital (Lab Head) (1)
Ted and Frances Chanock Chair in Virology Head, Clinical Virology Unit Dept. of clinical Microbiology & Infectious Diseases Hadassah University Hospital Jerusalem, Israel 91120 (1)
Zilkha Neurogenetic Institute, University of Southern California, Los Angeles, CA, USA (1)
V.L. Talrose Institute for Energy Problems of Chemical Physics, N.N. Semenov Federal Research Center of Chemical Physics RAS (1)
Chemistry Institute, LADETEC, Proteomics Laboratory, UFRJ, RJ, Brazil. (1)
Functional Proteomics Lab, National Center for Biotechnology (CNB-CSIC) (1)
Neurodegenerative Diseases Research Group, Korea Brain Research Institute (1)
Principal Investigator and Associate Director – VIB-UGent Center for Medical Biotechnology, Belgium Head of Department – UGent Department of Biomolecular Medicine, Belgium (1)
State Key Laboratory of Medical Molecular Biology & Department of Immunology, Institute of Basic Medical Sciences, Chinese Academy of Medical Sciences (1)
Biomolecular Mass Spectrometry and Proteomics, Bijvoet Center for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands Singapore Immunology Network (SIgN), Agency for Science, Technology and Research (A*STAR), 138648 Singapore, Singapore. Department of Pharmacy, National University of Singapore, 117543, Singapore, Singapore. (1)
Department of Neurology, Emory University, Atlanta, GA 30322, US (1)
Professor, Department of Obstetrics and Gynecology, University of South Florida, Tampa, Florida, USA (1)
Laboratory of Protein Chemistry - Proteomic Unit Department of Biochemistry, Institute of Chemistry, UFRJ Av. Athos da Silveira Ramos, 149, CT, Bl. A, 543, Cidade Universitária, CEP 21941-909, Rio de Janeiro, RJ, Brazil (1)
Neurotoxin Research Group, School of Life Sciences, The University of Technology Sydney, Ultimo, NSW 2007, Australia; kenneth.rodgers@uts.edu.au (K.J.R.) (1)
Hematology Laboratories, BIOCEV; 1st Faculty of Medicine; Charles University; Vestec, Czech Republic (1)
Department of Surgery Cedars-Sinai Medical Center (1)
Max Planck Institute of Psychiatry Kraepelinstrasse 2 80804 Munich Germany (1)
Centre for Proteome Research, Institute of Systems, Molecular and Integrative Biology, University of Liverpool, Liverpool L69 7ZB, UK (1)
Department of Medicine Beth Israel Deaconess Medical Center Boston, MA (1)

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Mass spectrometry imaging as an emerging tool for studying metabolism in human brain organoids

Human brain organoids are emerging models to study human brain development and pathology as they recapitulate the development and characteristics of major neural cell types, and enable manipulation through an in vitro system. Over the past decade, with the advent of spatial technologies,...

2023-05-23 | MTBLS7565 | MetaboLights

FBSeq: RNA sequencing of human fetal brain.

RNA sequencing of 120 human fetal brains (aged 12-19 post-conception weeks) was performed as part of a Medical Research Council (U.K.) funded project (MR/L010674/2) to investigate genetic effects on gene expression in the developing human brain and their role in neuropsychiatric disorders. Human fet...

EGAS00001003214 | EGA

RNA-seq of fetal murine intestine, brain and placenta from germ-free vs specific pathogen free dams

The effects of maternal microbiota on the fetal development was investigated by comparing tissues of fetuses from germ-free (GF) and normal (SPF) murine dams using RNA-seq and non-targeted metabolomics (for metabolomics data, see: https://bmcmicrobiol.biomedcentral.com/articles/10.1186/s12866-022-02...

ORGANISM(S): Mus musculus

2022-12-17 | E-MTAB-12442 | biostudies-arrayexpress

Tissue-specific circular RNA induction during human fetal development

The pervasive expression of circular RNA from protein coding loci is a recently discovered feature of many eukaryotic gene expression programs. Computational methods to discover and quantify circular RNA are essential to the study of the mechanisms of circular RNA biogenesis and potential functiona...

ORGANISM(S): Homo sapiens

2015-06-25 | E-GEOD-64283 | biostudies-arrayexpress

Spatio-temporal transcriptome of the human brain

The development of the human brain is a complex and precisely regulated process that unfolds over a protracted period of time. Human-specific features of this process, especially the ways in which highly complex neural circuits of the cerebral cortex form, are likely to be important factors in the e...

ORGANISM(S): Homo sapiens

2011-10-26 | E-GEOD-25219 | biostudies-arrayexpress

Gene profile in fetal human heart and brain

To describe normal cardiac and brain development during late first and early second trimester in human fetuses using microarray and pathways analysis and the creation of a corresponding M-bM-^@M-^\normalM-bM-^@M-^] database. RNA from recovered tissues was used for transcriptome analysis with Affym...

ORGANISM(S): Homo sapiens

2014-05-21 | E-GEOD-56048 | biostudies-arrayexpress

The amniotic fluid transcriptome: a source of novel information about human fetal development

Amniotic fluid (AF) is a complex biological material that provides a unique window into the developing human. Residual AF supernatant contains cell-free fetal RNA. The objective of this study was to develop an understanding of the AF core transcriptome by identifying the transcripts ubiquitously pre...

ORGANISM(S): Homo sapiens

2012-01-11 | E-GEOD-33168 | biostudies-arrayexpress

RNA-seq of human fetal brain cortex

The dataset contains RNA-seq for 32 human fetal brain cortex samples between 7 weeks post-conception (wpc) and 11.5 wpc and 14 control samples from different tissues across the same time frame. The study is designed with 8 fetal adrenal samples (4 of 46,XY; 4 of 46,XX) at 7wpc, 8wpc, 9wpc, 11.5wpc

ORGANISM(S): Homo sapiens

2025-04-05 | E-MTAB-13662 | biostudies-arrayexpress

RNA-seq of human fetal brain cortex

PRJEB71496 | ENA

A survey of human brain transcriptome diversity at the single cell level

We used single cell RNA sequencing on 466 cells to capture the cellular complexity of the adult and fetal human brain at a whole transcriptome level. Healthy adult temporal lobe tissue was obtained from epileptic patients during temporal lobectomy for medically refractory seizures. We were able to c...

ORGANISM(S): Homo sapiens

2015-05-20 | E-GEOD-67835 | biostudies-arrayexpress

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