Mouse escs - OmicsDI

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Genomics (1918)
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Mus musculus (1534)
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synthetic construct (2)
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Mus (1)

Organisms

Mus musculus (1238)
Homo sapiens (58)
Bos taurus (9)
Rattus norvegicus (4)
Papio anubis (3)
Macaca mulatta (3)
Mus musculus musculus x Mus musculus castaneus (2)
Macaca fascicularis (2)
Ceratotherium simum cottoni (1)
Heterocephalus glaber (1)
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Disease

Disease free (3)
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Technology Type

Mass Spectrometry (91)
Shotgun proteomics (50)
Affinity purification coupled with mass spectrometry proteomics (30)
Gel-based experiment (9)
Bottom-up proteomics (8)
Data-dependent acquisition (8)
Affinity proteomics (2)
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Illumina HiSeq 2000 (1)
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SWATH MS (1)
Top-down proteomics (1)

Instrument Platform

Illumina HiSeq 2500 (31)
Illumina HiSeq 2000 (23)
NextSeq 500 (22)
Illumina NovaSeq 6000 (18)
Illumina Genome Analyzer IIx (9)
Illumina HiSeq 4000 (6)
NextSeq 550 (5)
NextSeq 2000 (4)
Illumina HiSeq 1500 (4)
Illumina MiSeq (3)
Illumina Genome Analyzer II (2)
Illumina HiSeq 1000 (2)
Deeptools, macs3 (1)
Not (1)
BD FACSAria cell sorter (1)
HiSeq X Five (1)
Fluidigm C1 (1)
Linux computer (1)
Linux Beowulf cluster; AMD Opteron Linux Beowulf cluster; AMD Opteron 6168 (1)
Affymetrix Fluidics Station 400 (1)
Illumina NovaSeq X (1)
Ion Torrent Proton (1)
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Publication Date

2015 (184)
2014 (157)
2013 (153)
2016 (150)
2020 (115)
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2012 (94)
2025 (83)
2019 (83)
2024 (78)
2018 (78)
2017 (77)
2011 (77)
2010 (66)
2026 (63)
2009 (39)
2008 (19)
2007 (10)
2006 (2)
2005 (2)

CHEBI ID

CHEBI:58527 (1)
CHEBI:18083 (1)
CHEBI:165827 (1)
CHEBI:165824 (1)
CHEBI:136461 (1)
CHEBI:17759 (1)
CHEBI:35145 (1)
CHEBI:35766 (1)
CHEBI:133693 (1)
CHEBI:133677 (1)
CHEBI:84562 (1)
CHEBI:84814 (1)
CHEBI:84532 (1)
CHEBI:84527 (1)
CHEBI:138529 (1)
CHEBI:74534 (1)
CHEBI:60312 (1)
CHEBI:37564 (1)
CHEBI:143243 (1)
CHEBI:165860 (1)
CHEBI:26073 (1)
CHEBI:74990 (1)
CHEBI:36315 (1)
CHEBI:68434 (1)
CHEBI:145970 (1)
CHEBI:133515 (1)
CHEBI:78266 (1)
CHEBI:73218 (1)
CHEBI:78261 (1)
CHEBI:82753 (1)

Metabolite Name

Thymidine 5'-monophosphate (1)
Sphingadienine (1)
Ribulose/xylulose 5-phosphate (1)
Nicotinate ribonucleoside (1)
Nicotinate (1)
Glycerophosphoserine (1)
Glycerophosphoinositol (1)
Glucuronate 1-phosphate (1)
Cysteine sulfinic acid (1)
Alpha-ketoglutaramate (1)
2-palmitoleoyl-GPC (16:1) (1)
1-stearoyl-2-docosahexaenoyl-GPE (18:0/22:6) (1)
1-palmitoyl-2-docosahexaenoyl-GPE (16:0/22:6) (1)
1-oleoyl-2-docosahexaenoyl-GPC (18:1/22:6) (1)
1-methyladenine (1)
1-(1-enyl-palmitoyl)-2-palmitoleoyl-GPC (P-16:0/16:1) (1)
(3'-5')-guanylyluridine (1)
(3'-5')-cytidylyluridine (1)
Phenol red (1)
Penicillin G (1)
Gamma-glutamylcysteine (1)
3-hydroxypalmitoylcarnitine (1)
2'-O-methyluridine (1)
Oleoylcholine (1)
Palmitoylcholine (1)
1-stearoyl-2-docosahexaenoyl-GPC (18:0/22:6) (1)
1-palmitoyl-2-docosahexaenoyl-GPC (16:0/22:6) (1)
N-acetylglucosamine/N-acetylgalactosamine (1)
Ribulose/xylulose (1)
Pterin (1)

First Public Date

2014 (185)
2023 (136)
2022 (129)
2024 (120)
2025 (112)
2021 (105)
2020 (105)
2019 (105)
2017 (103)
2018 (85)
2026 (79)
2015 (78)
2016 (75)
2013 (61)

Modification

N6 (2)
N6-dimethyl-L-lysine (1)

Study type

Transcription profiling by array (291)
ChIP-seq (167)
RNA-seq of coding RNA (162)
Methylation profiling by high throughput sequencing (38)
Other (18)
RNA-seq of coding RNA from single cells (11)
Unknown experiment type (9)
RNA-seq of non coding RNA (9)
Cell line - High-throughput sequencing (8)
ATAC-seq (8)
Methylation profiling by array (8)
ChIP-chip by tiling array (7)
Comparative genomic hybridization by array (7)
High-throughput sequencing (4)
RNA-seq of total RNA (4)
ChIP-chip by array (3)
Animal - High-throughput sequencing (2)
RNAi profiling by array (2)
Genotyping by array (2)
Transcription profiling by RT-PCR (2)
Hi-C (2)
RIP-seq (2)
DNA-seq (2)
CUT&RUN (2)
GRO-seq (1)
FAIRE-seq (1)
Cell line - Single-cell sequencing (1)
Baseline (1)
MicroRNA profiling by high throughput sequencing (1)
Bisulfite-seq (1)

Release Date

2015 (222)
2014 (188)
2013 (170)
2016 (162)
2012 (114)
2018 (99)
2021 (94)
2011 (93)
2020 (91)
2023 (80)
2010 (79)
2017 (78)
2019 (70)
2022 (69)
2024 (58)
2009 (45)
2025 (43)
2008 (19)
2026 (9)
2007 (9)
2005 (3)
2006 (1)

Lab affiliation

Department of Medicine, Columbia University Irving Medical Center (4)
Centre for Genomic Regulation (CRG), Barcelona, Spain (3)
Molecular Biology, Radboud Institute for Molecular Life Sciences (RIMLS), Nijmegen, the Netherlands (3)
Proteomics program, Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, 2200 Copenhagen, Denmark (3)
Babraham Research Campus, Cambridge, UK (2)
Center for Genomic Regulation Differentiation and Cancer Passeig Maritim 37-49 Barcelona 08003 SPAIN (2)
Novo Nordisk Foundation Center for Protein Research (CPR), University of Copenhagen, Copenhagen, Denmark. (2)
Ottawa Hospital Research Institute (2)
Asan Medical Center, Clinical Proteomics Core, Republic of Korea (1)
Babraham Institute (1)
Babraham Istitute (1)
Beijing Key Laboratory of Cardiometabolic Molecular Medicine, Institute of Molecular Medicine, Peking University, Beijing, China (1)
CNRS UMR7242, Biotechnology and Cell Signaling, 300 Bd Sébastien Brant, 67412 Illkirch Cedex, France University of Strasbourg (1)
Cell Fate Engineering and Therapeutics Lab, Institute of Molecular and Cell Biology (IMCB), Agency for Science, Technology and Research (A*STAR), 61 Biopolis Drive, Proteos, Singapore 138673, Republic of Singapore (1)
Cell and Regenerative Biology, University of Wisconsin-Madison (1)
Center for Genomic Regulation (CRG) (1)
Center for Genomic Regulation (CRG) University Pompeu Fabra (UPF) (1)
Center of Growth Metabolism and Aging, College of Life Sciences, Sichuan University, Chengdu, China. (1)
Centre for Epigenetics and Department of Biochemistry and Molecular Biology, University of Southern Denmark Campusvej 55 DK-5230 Odense M, Denmark (1)
Department of Anatomy and Developmental Biology, Australian Regenerative Medicine Institute, Monash University, Australia (1)
Department of Biochemistry, Albert Einstein College of Medicine, Bronx, NY 10461, United States (1)
Department of Biology II and Center for Integrated Protein Science Munich (CIPSM), Ludwig-Maximilians-Universität München, Planegg-Martinsried, Germany (1)
Department of Biomedical Science E-04, Florey building Firth Court, Western Bank University of Sheffield Sheffield, S10 2TN United Kingdom (1)
Department of Convergence Medicine, Convergence Medicine Research Center/Biomedical Research Center, Asan Medical Center, Asan Institute for Life Sciences, University of Ulsan College of Medicine, 88 Olympic-ro 43-gil, Songpa-gu, Seoul 05505, Republic of Korea. (1)
Department of Developmental and Cell Biology, University of California, Irvine, Irvine, CA 92697, USA. (1)
Department of Genome Regulation, Max Planck Institute for Molecular Genetics; Berlin, Germany (1)
Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Oncode Institute, Radboud University Nijmegen, 6525 GA Nijmegen, The Netherlands (1)
Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Oncode Institute, Radboud University Nijmegen, Nijmegen, The Netherlands (1)
Department of Molecular Developmental Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Radboud University, Nijmegen, the Netherlands (1)
Department of Molecular Developmental Biology, Radboud Institute for Molecular Life Sciences (RIMLS), Nijmegen, the Netherlands (1)

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Genome-wide map of PCL2 (Polycomb-like 2) enrichment in undifferentiated mouse embryonic stem cells (ESCs)

In total 8,736,191 reads from IP fraction and 9,958,984 reads from Wash fraction uniquely mapped to the mouse genome (mm9). Settings for enrichment analysis: maxSpacing=500; minHits=20; minPeakHits=6; minRatio=3. 4,701 regions have been identified as enriched in the IP fraction. In order to get a ro...

ORGANISM(S): Mus musculus

2010-02-05 | E-GEOD-16526 | biostudies-arrayexpress

Engineering of a histone-recognition domain in Dnmt3a alters the epigenetic landscape of ESCs revealing changes in lineage specification and chromosomal stability (ChIP-Seq)

Histone modifications and DNA methylation represent two distinct modes of varying epigenetic landscapes, but whose exact interrelationship remains unclear. Previous studies have shown that histone H3 lysine 4 trimethylation (H3K4me3) inhibits the binding of de novo DNA methyltransferases (Dnmt) thro...

ORGANISM(S): Mus musculus

2015-06-22 | E-GEOD-57574 | biostudies-arrayexpress

eIF4A3 interactome by IP-MS in mouse ESCs

RNA helicases are involved in multiple steps of RNA metabolism to direct their roles in gene expression, yet their functions in pluripotency control remain largely unexplored. Starting from an RNAi screen of RNA helicases, we identified that eIF4A3, a DEAD-box (Ddx) helicase component of the exon ju...

ORGANISM(S): Mus musculus (Mouse)

2023-03-11 | PXD031362 | Pride

Engineering of a histone-recognition domain in Dnmt3a alters the epigenetic landscape of ESCs revealing changes in lineage specification and chromosomal stability (RNA-Seq)

ORGANISM(S): Mus musculus

2015-06-22 | E-GEOD-57575 | biostudies-arrayexpress

Engineering of a histone-recognition domain in Dnmt3a alters the epigenetic landscape of ESCs revealing changes in lineage specification and chromosomal stability (Bisulfite-Seq)

ORGANISM(S): Mus musculus

2015-06-22 | E-GEOD-57576 | biostudies-arrayexpress

H2A.Z.1 mono-ubiquitylation antagonizes BRD2 to maintain poised chromatin in ESCs [RNA-seq]

Histone variant H2A.Z occupies the promoters of active and poised, bivalent genes in ESCs to regulate developmental programs, yet how it contributes to these contrasting states is poorly understood. Here, we investigate the function of H2A.Z.1 mono-ubiquitylation (H2A.Z.1ub) by mutation of the PRC1 ...

ORGANISM(S): Mus musculus

2016-01-21 | E-GEOD-53207 | biostudies-arrayexpress

H2A.Z.1 mono-ubiquitylation antagonizes BRD2 to maintain poised chromatin in ESCs [ChIP-seq]

ORGANISM(S): Mus musculus

2016-01-21 | E-GEOD-53206 | biostudies-arrayexpress

Genome-wide maps of Tbx3 binding sites in mouse ESCs

Induced pluripotent stem (iPS) cells can be obtained through the introduction of defined factors into somatic cells. The combination of Oct4, Sox2 and Klf4 (OSK) constitutes the minimal requirement for generating iPS cells from mouse embryonic fibroblasts (MEFs). Through the genomic analyses of ESC ...

ORGANISM(S): Mus musculus

2009-12-04 | E-GEOD-19219 | biostudies-arrayexpress

Genome-wide comparison of DNA hydroxymethylation in mouse embryonic stem cells and neural progenitor cells by relative quantitative hMeDIP-seq

DNA hydroxymethylation (5hmC) represents a new layer of epigenetic regulation in addition to DNA methylation (5mC). The genome-wide patterns of 5hmC distribution in many tissues and cells have recently been revealed by hydroxymethylated DNA immunoprecipitation (hMeDIP) followed by high throughput se...

ORGANISM(S): Mus musculus

2013-03-08 | E-GEOD-40810 | biostudies-arrayexpress

TET1 interactome by SILAC IP-MS in mouse ESCs

TET1 maintains hypomethylation at bivalent promoters through its catalytic activity in embryonic stem cells (ESCs). However, whether and how TET1 exerts catalytic activity-independent functions in regulating bivalent genes is not well understood. Therefore, we mapped the TET1 interactome in mouse ES...

ORGANISM(S): Mus musculus (Mouse)

2022-06-10 | PXD033587 | Pride

Silac Ip-ms Tet1 Escs

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