Human embryonic stem cells

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Transcriptomics (6909)
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Organisms

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synthetic construct (19)
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Organisms

Homo sapiens (2208)
Mus musculus (503)
Bos taurus (15)
Macaca mulatta (13)
Sus scrofa (13)
Rattus norvegicus (12)
Callithrix jacchus (10)
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Repository

biostudies-arrayexpress (5856)
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geo (2462)
pride (277)
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GNPS (1)

Tissue

Embryonic stem cell (176)
Cell culture (117)
Others (26)
Stem cell (24)
Early embryonic cell (20)
Epithelial cell (16)
Embryo (15)
Fibroblast (14)
Pluripotent stem cell (9)
Kidney (8)
Heart (6)
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Neuronal stem cell (3)
Multipotent stem cell (3)
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Liver (3)
T cell (3)
HiPSC cell (2)
Placenta (2)
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Melanocyte (2)
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Disease

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HHV-6B infected (2)
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Acute promyelocytic leukemia (2)
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MAS (1)
Malignant testicular germ cell tumor (1)
Perilobar nephrogenic rest (1)
Wilms' tumor (1)
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Alzheimer's disease (1)
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Not applicable (1)
Myeloid neoplasm (1)
Gliosarcoma (1)
Invasive Ductal Carcinoma (1)
Squamous cell carcinoma has accession C0007137 in DiseaseStateDatabase NCI_Thesaurus (1)
No tendon xanthomas (1)
Epidermoid carcinoma (1)
Heterodera schachtii nematode infection (1)
Chronic infection with geohelminth ascaris lumbricoides (1)
Basal cell carcinoma, Gorlin-Goltz syndrome (1)
Alpha-1 antitrypsin deficiency (1)
Non-diseased (1)
Mock infected (1)

Technology Type

Mass Spectrometry (277)
Shotgun proteomics (153)
Bottom-up proteomics (48)
Affinity purification coupled with mass spectrometry proteomics (44)
Data-dependent acquisition (29)
Data-independent acquisition (22)
Mass spectrometry (18)
Gel-based experiment (9)
Illumina HiSeq 2000 (8)
SRM/MRM (7)
Mass spectrometry assay (6)
SWATH MS (6)
Affinity proteomics (5)
Top-down proteomics (5)
Chemical cross-linking coupled with mass spectrometry proteomics (5)
Illumina (3)
All-ion fragmentation (3)
NMR spectroscopy (2)
NextSeq 500, ILLUMINA, Illumina HiSeq 2500 (1)
ILLUMINA, Illumina HiSeq 2500 (1)
HiSeq X Ten, ILLUMINA (1)
Illumina_Infinium_HumanMethylation450, Illumina_HumanHT-12v4 (1)
ILLUMINA, Illumina HiSeq 2500, Illumina HiSeq 2000 (1)
ILLUMINA, Illumina HiSeq 2000 (1)
Illumina HiSeq 2500 (1)
DiaPASEF (1)
HDMSE (1)

Instrument Platform

Illumina NovaSeq 6000 (249)
NextSeq 500 (137)
Illumina HiSeq 4000 (124)
Illumina HiSeq 2500 (119)
Illumina HiSeq 2000 (91)
Illumina NovaSeq X (35)
Illumina HiSeq 1500 (30)
NextSeq 550 (30)
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Element AVITI (8)
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GenePix 4000B [Axon Instruments] (7)
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DNBSEQ-G400 (5)
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Illumina HiSeq 3000 (5)
418 [Affymetrix] (4)
Affymetrix Fluidics Station 400 (4)
NA (4)
Illumina HiSeq 1000 (4)
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PromethION (3)
Agilent High resolution C scanner (3)
Agilent 2100 Bioanalyzer (3)
Axon- GenePix4000B (3)
G2565BA DNA microarray scanner [Agilent] (3)
ScanArray Express HT (3)
BD Rhapsody (2)

Publication Date

2015 (848)
2014 (813)
2013 (774)
2012 (742)
2010 (667)
2011 (604)
2016 (569)
2025 (449)
2026 (326)
2024 (322)
2022 (316)
2023 (313)
2021 (307)
2020 (283)
2009 (265)
2008 (254)
2017 (239)
2018 (225)
2019 (217)
2007 (106)
2006 (34)
2005 (33)
2004 (18)
2003 (1)

UNIPROT ID/AC

Q9P2E9 (26)
Q96AE4 (26)
Q9NZI8 (26)
Q9NR30 (26)
Q96E39 (26)
P52701 (26)
P35221 (26)
P17096 (26)
Q13263 (26)
P49327 (26)
Q15365 (26)
P62805 (26)
P62258 (26)
P61978-3 (26)
P61978 (26)
P07814 (26)
O75643 (26)
Q5HY54 (26)
Q58FF8 (26)
Q58FF7 (26)
Q58FF6 (26)
Q15233 (26)
Q14978-3 (26)
Q14978-2 (26)
Q14978 (26)
Q13707 (26)
Q6ZRP7 (2)
Q8N7R0 (2)
Q01860 (2)
P04637 (2)

ENSEMBL ID

ENSG00000247315 (16)
ENSG00000170477 (14)
ENSG00000165661 (2)
ENSG00000176654 (2)
ENSG00000204531 (2)
ENSG00000204131 (2)
ENSG00000147251 (1)

CHEBI ID

CHEBI:17154 (8)
CHEBI:32816 (8)
CHEBI:16919 (8)
CHEBI:15354 (8)
CHEBI:15428 (7)
CHEBI:18012 (7)
CHEBI:17822 (6)
CHEBI:26271 (6)
CHEBI:17287 (6)
CHEBI:16436 (6)
CHEBI:28300 (6)
CHEBI:17562 (6)
CHEBI:15727 (6)
CHEBI:16335 (6)
CHEBI:16467 (6)
CHEBI:16449 (6)
CHEBI:29016 (6)
CHEBI:17053 (6)
CHEBI:15422 (6)
CHEBI:16027 (6)
CHEBI:78320 (6)
CHEBI:18132 (5)
CHEBI:25094 (5)
CHEBI:22653 (5)
CHEBI:27570 (5)
CHEBI:16811 (5)
CHEBI:18295 (5)
CHEBI:15698 (5)
CHEBI:25017 (5)
CHEBI:17148 (5)

Metabolite Name

Creatine (8)
Betaine (7)
Cytosine (7)
Creatinine (7)
Glycerophosphocholine (7)
Pyridoxine (6)
Adenosine (6)
Sphingosine (5)
Phytosphingosine (5)
Histamine (5)
Phosphocreatine (5)
Adenine (5)
Hypoxanthine (5)
Glycine (4)
Taurine (4)
Proline (4)
Methionine (4)
Creatine (4)
Valine (4)
Putrescine (4)
Spermidine (4)
Erucamide (4)
Trigonelline (4)
Thiamine (4)
Argininosuccinic acid (4)
L-Threonine (4)
Pantothenic acid (4)
Nicotinamide (4)
Indole (4)
Choline (4)

First Public Date

2014 (527)
2025 (378)
2024 (357)
2023 (274)
2021 (242)
2020 (237)
2022 (228)
2019 (208)
2026 (207)
2017 (173)
2015 (155)
2018 (142)
2013 (135)
2016 (125)
2012 (4)
2011 (1)
2010 (1)

Modelling Approach

Ordinary differential equation model (4)

Lab affiliation

ProGenTomics, Laboratory of Pharmaceutical Biotechnology, Ghent University, B-9000 Ghent, Belgium (5)
Associate Professor Department of Biochemistry Room 220, Research and Innovation Centre, University of Regina, Regina, Saskatchewan S4S 0A2 (4)
1. Faculty of Biology, Technion - Israel Institute of Technology, Haifa 320003, Israel 2. Computer Science Department, Technion - Israel Institute of Technology, Haifa 320003, Israel (4)
Cologne Excellence Cluster for Cellular Stress Responses in Aging-Associated Diseases (CECAD), University of Cologne, Joseph Stelzmann Strasse 26, 50931 Cologne, Germany. (3)
Research Group Leader Bulut-Karslioglu lab Dept. of Genome Regulation Max Planck Institute for Molecular Genetics Ihnestrasse 63-73 14195 Berlin GERMANY (3)
Department of Cell Biology, Harvard Medical School, Boston MA, USA (3)
1. Center for Molecular Medicine Cologne, University of Cologne, Robert-Koch-Str. 21, D- 50931 Cologne, Germany 2. Inst. for Neurophysiology, University of Cologne, Robert-Koch-Str. 39, D-50931 Cologne, Germany 3. CECAD; Cologne Cluster of Excellence in Cellular Stress Responses in Ageing-associated Diseases, University of Cologne, Joseph-Stelzmann-Str. 26, D-50931 Cologne, Germany (2)
Cancer Biology and Genetics, Wexner Medical Center, The Ohio State University, Columbus, OH, USA (2)
Department of Molecular Systems Biology, Cell Science Research Center, Royan Institute for Stem Cell Biology and Technology, ACECR, Tehran, Iran (2)
DNA damage responses and cancer lab Department of Human Genetics Leiden University Medical Center Eithovenweg 20 2333ZC Leiden The Netherlands (2)
Faculty of Chemistry and Pharmacy, Biochemistry II, Theodor-Boveri-Institute, University of Wuerzburg, Germany (2)
College of Chemistry and Molecular Engineering, Peking University, Beijing, China. (2)
CECAD Cluster of Excellence, University of Cologne (2)
Peter MacCallum Cancer Centre, Melbourne, Australia Department of Anatomy and Physiology, The University of Melbourne, Melbourne, VIC, Australia (2)
Department of Medicine, Columbia University Irving Medical Center (2)
Nankai University (2)
EDyP (2)
Proteomics Center, Erasmus MC (2)
Department of Cell Biology, Harvard Medical School, Boston MA (2)
Wellcome Trust Sanger Institute (2)
Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, Denmark (2)
Department of Genetics, Department of Radiation Oncology, Cancer Genomics Netherlands, Erasmus Medical Center Cancer Institute, Rotterdam, The Netherlands (1)
Laboratory of Pharmaceutical Biotechnology, Ghent University (1)
Baylor College of Medicine, Houston, TX, 77054 (1)
Biomedical Center, Chromatin Proteomics Group, Department of Molecular Biology, Faculty of Medicine, Ludwig-Maximilians-Universität München, Großhaderner Strasse 9, 82152 Planegg-Martinsried, Germany. (1)
Prof Matthias Trost Chair of Proteomics Newcastle University Faculty of Medical Sciences Institute for Cell and Molecular Biosciences Framlington Place Newcastle-upon-Tyne NE2 4HH, UK (1)
Faculty of Biology and Center for Molecular Biosystems (BioSysM), Human Biology and BioImaging, Ludwig-Maximilians-Universität München, Munich, 81377, Germany (1)
IMMAGINA BioTechnology S.r.l, Via Sommarive 18, Povo (Italy) (1)
PCF, Biozentrum, University of Basel, Swizerland (1)
MRC Human Genetics Unit, Institute of Genetics and Molecular Medicine, The University of Edinburgh, Edinburgh, EH4 2XU, UK (1)

IsPrivate

False (4)

Model Flag

Non Kinetic (1)

Submitter Keywords

Manuscript Accepted (1)

Classification

fungi (1)

Modification

2x(15)N labeled L-lysine (4)
4x(15)N labeled L-arginine (4)
4 (3)
4x(2)H labeled dimethylated residue (1)
N6 (1)

Study type

Transcription profiling by array (3137)
RNA-seq of coding RNA (937)
ChIP-seq (510)
RNA-seq of coding RNA from single cells (165)
Methylation profiling by array (145)
ChIP-chip by tiling array (122)
Methylation profiling by high throughput sequencing (104)
RNA-seq of non coding RNA (91)
Other (89)
Comparative genomic hybridization by array (88)
RNA-seq of total RNA (44)
Cell line - High-throughput sequencing (41)
Unknown experiment type (38)
Genotyping by array (30)
ChIP-chip by array (29)
Transcription profiling by tiling array (27)
ATAC-seq (26)
DNA-seq (22)
CUT&RUN (17)
Transcription profiling by SAGE (16)
Transcription profiling by RT-PCR (14)
MicroRNA profiling by array (14)
Human - High-throughput sequencing (10)
Animal - High-throughput sequencing (9)
Hi-C (9)
Genotyping by high throughput sequencing (9)
High-throughput sequencing (8)
ScATAC-seq (8)
Bisulfite-seq (7)
Single nucleus RNA sequencing (7)

Release Date

2015 (1086)
2014 (1046)
2013 (933)
2012 (857)
2016 (781)
2010 (765)
2011 (708)
2022 (539)
2021 (522)
2020 (494)
2025 (476)
2018 (458)
2019 (444)
2017 (444)
2023 (439)
2024 (406)
2009 (350)
2008 (311)
2026 (176)
2007 (129)
2006 (55)
2005 (47)
2004 (31)
2003 (12)
2002 (8)
2000 (8)
2001 (5)
1999 (3)
1998 (3)
1996 (1)

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1H NMR metabolite monitoring during the differentiation of human induced pluripotent stem cells provides new insights into the molecular events that regulate embryonic chondrogenesis

The integration of cell metabolism with signalling pathways, transcription factor networks and epigenetic mediators is critical in coordinating molecular and cellular events during embryogenesis. Induced pluripotent stem cells (IPSCs) are an established model for embryogenesis, germ layer specificat...

2023-05-24 | MTBLS4854 | MetaboLights

The functional role of OGDH for maintaining mitochondrial respiration and identity of primed human embryonic stem cells

Human embryonic stem cells (hESCs) can self-renew infinitely or differentiate into the 3 germ layer lineages in vitro with certain cues, holding great promise to model early human embryo development ex vivo. It is wildly accepted that hESCs take advantage of both glycolysis and ...

2022-03-03 | MTBLS4223 | MetaboLights

Stable isotope-resolved metabolomics of WT, GYG1 KO, and GYG2 KO human embryonic stem cells using 13C-labeled glucose and palmitate

Proper regulation of glycogen metabolism is fundamental to cellular energy homeostasis, and its disruption is associated with various metabolic disorders, including glycogen storage diseases (GSDs) and potentially diabetes. Despite glycogen’s role as an essential energy reservoir, the mechanisms gov...

2025-07-15 | MTBLS12586 | MetaboLights

Expression & polysome association in pluripotent human embryonic stem cells

The goal was to measure the expression and polysome association of genes with polysomes in human embryonic stem cells H9 human embryonic stem cells were kept in pluripotent conditions. Total RNA and polysome extracts were isolated.

ORGANISM(S): Homo sapiens

2012-09-01 | E-GEOD-31768 | biostudies-arrayexpress

Transcription profiling of human embryonic stem cells and neuroepithelial cells

Comparing gene expressing profile of human embryonic stem cells and neuroepithelial cells differentiated from human embryonic stem cells.

ORGANISM(S): Homo sapiens

2009-11-08 | E-MEXP-2426 | biostudies-arrayexpress

Mining Missing Protein Landscape in Subcellular Proteome of Human Embryonic Stem Cells

Human embryonic stem cells (hESCs) have capacity of self-renewal and multi-lineage differentiation into derivatives of three germ layers that are of clinical importance for regeneration medicine. Despite the significant progress of hESCs study for clinical application, factors responsible for mainta...

ORGANISM(S): Homo Sapiens (human)

2019-05-20 | PXD009840 | JPOST Repository

Comprehensive transcriptomic and proteomic characterization of human mesenchymal stem cells reveals source specific cellular markers

Mesenchymal stem cells (MSC) are multipotent cells with great potential in therapy, reflected by more than 500 MSC-based clinical trials registered with the NIH. MSC are derived from multiple tissues but require invasive harvesting and imply donor-to-donor variability. Embryonic stem cell-derived MS...

ORGANISM(S): Homo Sapiens (ncbitaxon:9606)

2017-03-31 | MSV000080827 | MassIVE

Microarray Expression Data from Haematopoietic Differentiated Human Embryonic Stem Cells

The underlying mechanisms which are responsible and govern early haematopoietic differentiation during development are poorly understood. Gene expression comparison between pluripotent human embryonic stem cells and earliest haematopoietic progenitors may reveal novel transcripts and pathways and p...

ORGANISM(S): Homo sapiens

2012-01-06 | E-GEOD-29115 | biostudies-arrayexpress

Transcription profiling by array of human astrocytes derived from trisomic human embryonic stem cells

Astrocytes derived from normal and aneuploid human embryonic stem cells, along with CCF-STTG1 astrocytoma cell line, and using three biological replicates for each sample, were used to develop an in-vitro model system, to identify biomarkers for astrocytic cancer cells and premalignant stem-like pro...

ORGANISM(S): Homo sapiens

2010-06-01 | E-MEXP-2633 | biostudies-arrayexpress

Human embryonic stem cells, differerentiated EBs and adult cells

This SuperSeries is composed of the following subset Series: GSE12228: Gene expression profiling among human embryonic stem cells, differerentiated EBs and adult cells GSE12229: microRNA expression profiling among human embryonic stem cells, differerentiated EBs and adult cells Refer to individual S...

ORGANISM(S): Homo sapiens

2009-04-17 | E-GEOD-12250 | biostudies-arrayexpress

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