Hotspots - OmicsDI

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Unknown (7169)
Genomics (1002)
Transcriptomics (203)
Other (84)
Proteomics (73)
Methylation profiling (18)
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Organisms

Homo sapiens (207)
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soil metagenome (2)
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Organisms

Homo sapiens (133)
Mus musculus (88)
Saccharomyces cerevisiae (39)
Schizosaccharomyces pombe (13)
Arabidopsis thaliana (9)
soil metagenome (6)
Triticum aestivum (4)
Drosophila melanogaster (4)
freshwater metagenome (4)
marine metagenome (4)
marine sediment metagenome (4)
Human alphaherpesvirus 1 (3)
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Escherichia coli (3)
synthetic construct (3)
Callithrix jacchus (2)
subsurface metagenome (2)
Caenorhabditis elegans (2)
pond metagenome (2)
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human gut metagenome (2)
Danio rerio (2)
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sediment metagenome (2)
Invertebrate iridescent virus 6 (1)
Leaunio lienosus (1)
Vibrio cyclitrophicus ZF270 (1)
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Enterococcus phage UC1ENC (1)
Enterococcus faecalis UC1ENC (1)

Repository

ENA (779)
geo (352)
biostudies-arrayexpress (161)
pride (57)
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NODE (1)

Tissue

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Disease

COVID-19 (5)
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Disease free (1)
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Technology Type

Mass Spectrometry (57)
Shotgun proteomics (27)
Bottom-up proteomics (10)
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Mass spectrometry (6)
Affinity purification coupled with mass spectrometry proteomics (6)
Chemical cross-linking coupled with mass spectrometry proteomics (6)
SWATH MS (5)
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MSE (2)
ILLUMINA, Illumina HiSeq 2500, HiSeq X Ten, Illumina HiSeq 2000 (1)
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Illumina HiSeq 2000, ILLUMINA, Illumina HiSeq 2500 (1)
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HDMSE (1)
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Instrument Platform

NextSeq 500 (5)
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Illumina HiSeq 4000 (3)
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Q Exactive HF (2)
Q Exactive (2)
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Using NEBNext Ultra II DNA Library (1)
RNA Qubit (Invitrogen Q32852) (1)
Zymo Quick-RNA Microprep Kit (Zymo Research R1051) (1)
12-well plates (Sarstedt 83.3921), 24-Well Plates (1)
BD Rhapsody (1)
NextSeq 2000 (1)
Illumina MiSeq (1)
Illumina HiSeq 2500 (1)
- (1)
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Q Exactive Plus (1)
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Publication Date

2026 (52)
2021 (50)
2015 (43)
2012 (42)
2024 (40)
2013 (40)
2025 (37)
2020 (34)
2014 (33)
2023 (32)
2019 (27)
2016 (24)
2011 (22)
2022 (22)
2018 (22)
2017 (21)
2010 (14)
2009 (12)
2008 (11)
2007 (8)
2006 (5)

CHEBI ID

CHEBI:33511 (2)
CHEBI:24266 (2)
CHEBI:17521 (2)
CHEBI:17992 (2)
CHEBI:33508 (2)
CHEBI:26271 (2)
CHEBI:25094 (2)
CHEBI:18237 (2)
CHEBI:22660 (2)
CHEBI:18186 (2)
CHEBI:28757 (2)
CHEBI:26986 (2)
CHEBI:17234 (2)
CHEBI:18257 (2)
CHEBI:24898 (2)
CHEBI:25017 (2)
CHEBI:15428 (2)
CHEBI:17148 (2)
CHEBI:16958 (2)
CHEBI:16610 (2)
CHEBI:16112 (2)
CHEBI:6650 (2)
CHEBI:28044 (2)
CHEBI:17497 (2)
CHEBI:27266 (2)
CHEBI:16449 (2)
CHEBI:17306 (2)
CHEBI:18012 (2)
CHEBI:16199 (2)
CHEBI:26078 (2)

Metabolite Name

Ribonic acid (2)
Phosphoric acid (2)
Leucine (2)
Glycine (2)
Glycolic acid (2)
Valine (2)
Pyroglutamic acid (2)
Putrescine (2)
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Fumaric acid (2)
Citric acid (2)
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Lysine (2)
Malic acid (2)
Tyrosine (2)
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Phenylalanine (2)
Maltose (2)
Isoleucine (2)
Glucose (2)
Glutamic acid (2)
Aspartic acid (2)
Sucrose (2)
Urea (2)
Unknown_38.614_361 (1)
Unknown_36.412_574 (1)

First Public Date

2026 (119)
2025 (89)
2024 (78)
2021 (58)
2014 (58)
2023 (57)
2020 (57)
2019 (48)
2022 (47)
2013 (37)
2018 (32)
2017 (32)
2016 (31)
2015 (28)
2012 (5)
2011 (3)

Classification

bacteria (12)
viruses (10)
protozoa (3)
fungi (1)

Study status

Recruiting (1)

Study type

ChIP-seq (45)
Transcription profiling by array (35)
RNA-seq of coding RNA (17)
Comparative genomic hybridization by array (12)
ChIP-chip by tiling array (11)
Other (7)
Methylation profiling by high throughput sequencing (6)
RNA-seq of non coding RNA (5)
DNA-seq (4)
ChIP-chip by array (3)
RNA-seq of coding RNA from single cells (3)
MNase-seq (2)
Tiling path by array (2)
Cell line - High-throughput sequencing (2)
Genotyping by array (2)
Methylation profiling by array (2)
Cell line - One-color microarray (1)
Plant - One-color microarray (1)
Proteomic profiling by array (1)
Observational (1)

Release Date

2025 (1101)
2022 (896)
2024 (878)
2023 (825)
2021 (652)
2020 (519)
2019 (372)
2018 (333)
2017 (312)
2016 (248)
2015 (233)
2014 (172)
2013 (146)
2026 (134)
2012 (110)
2011 (92)
2010 (72)
2009 (51)
2008 (50)
2007 (40)
2006 (26)
2005 (23)
2003 (14)
2004 (13)
2002 (6)
2000 (4)
2001 (3)
1999 (2)
1997 (2)
1998 (1)

Lab affiliation

Department of Chemistry and Chemical Biology, Harvard University (3)
Department of Biochemistry and Molecular Biology; and Bio21 Molecular Science and Biotechnology Institute, The University of Melbourne, VIC 3010. Australia (2)
Instituto de Nanobiotecnologıa (NANOBIOTEC), UBA-CONICET-Universidad de Buenos Aires, Buenos Aires, Argentina (2)
West China Second University Hospital, Sichuan University (2)
Professor of Biochemistry and Molecular Biology University of Arkansas for Medical Sciences (1)
Department of Chemistry and Chemical Biology, Woo Lab, Harvard University, US (1)
Department of Genetics, Stanford School of Medicine, USA (1)
Department of Biochemistry, Institute of Chemistry, University of São Paulo, 05508-000, São Paulo, SP, Brazil. (1)
Department of Human Molecular Genetics and Biochemistry, Sackler Faculty of Medicine, Tel-Aviv University, Tel-Aviv 69978, Israel (1)
REQUIMTE-LAQV, DEP. DE QUÍMICA E BIOQUÍMICA, FACULDADE DE CIÊNCIAS DA UNIVERSIDADE DO PORTO, RUA DO CAMPO ALEGRE, S/N, 4169-007 PORTO (PORTUGAL) (1)
Bernhard Nocht Institute for Tropical Medicine, Hamburg, Germany (1)
Forschunszentrum Jüich, Germany (1)
Forschungszentrum Jülich, Germany (1)
College of Agronomy, Shandong Agricultural University, Tai’an, China (1)
Department of Clinical Pharmacy, University of Michigan (1)
Head Proteomics Platform, MDC Berlin (1)
Weizmann Institute of science (1)
Northeastern UNiversity (1)
International Centre for Cancer Vaccine Science, University of Gdansk, Kladki 24, Gdansk, Poland (1)
jState Key Laboratory of Proteomics, Beijing Proteome Research Center (BPRC), National Center for Protein Sciences, Beijing, Institute of Lifeomics, Beijing 102206, China (1)
School of Cellular and Molecular Medicine, Faculty of Biomedical Sciences, University of Bristol, Bristol, BS81TD (1)
Prof. Andreas Pichlmair, Technical University Munich, Faculty of Medicine, Institute of Virology, Viral Immunopathology, Schneckenburger Str. 8, D-81675 Munich, Germany (1)
Max Planck Institute for Brain Research (1)
Institute of Bioanalytical Chemistry, Faculty of Chemistry and Mineralogy, and Center for Biotechnology and Biomedicine, Universität Leipzig, Leipzig (1)
Department of Cell Biology, Harvard Medical School, Boston, MA (1)
Max-Planck Institute of Biophysics (1)
Institute of Molecular Biology (IMB) Ackermannweg 4 55128 Mainz (1)
CRUK Scotland Institute for Cancer Research - Switchback Rd, Bearsden, Glasgow G61 1BD - United Kingdom (1)
Max Planck Institute of Brain Research (1)
University of Washington Department of Medicinal Chemistry (1)

Location

France (1)

Keyword

Epigenetic landscape (1)
Tumor heterogeneity (1)
Peritoneal carcinomatosis (1)

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Transcription factor cooperativity in early adipogenic hotspots and super-enhancers

Here we have used a combination of advanced proteomics and genomics approaches to investigate the extent and mechanisms of transcription factor cross-talk at genomic hotspots. We identify ~12,000 transcription factor hotspots in the early phase of adipogenesis, and we find evidence of both simultane...

ORGANISM(S): Mus musculus

2014-04-17 | E-GEOD-56872 | biostudies-arrayexpress

Histone H3 lysine9 acetylation, rather than lysine4 trimethylation, marks meiotic recombination hotspots and promotes recombination initiation in fission yeast

Histone modifications are associated with meiotic recombination hotspots, discrete sites with augmented recombination frequency. For example, trimethylation of histone H3 lysine4 (H3K4me3) marks most hotspots in budding yeast and mouse. Modified histones are known to regulate meiotic recombinatio...

ORGANISM(S): Schizosaccharomyces pombe

2013-03-07 | E-GEOD-31648 | biostudies-arrayexpress

Defense Hotspots

Prophage-encoded hotspots of anti-phage systems

PRJEB47940 | ENA

Genome-wide map of H3K4me3 and PRDM9-binding in 12 day post-partum mouse spermatocytes

PRDM9, a histone methyltransferase, initiates meiotic recombination by binding DNA at recombination hotspots and directing the position of DNA double-strand breaks (DSB). The DSB repair mechanism suggests that hotspots should eventually self-destruct, yet genome-wide recombination levels remain cons...

ORGANISM(S): Mus musculus

2015-01-13 | E-GEOD-60906 | biostudies-arrayexpress

Extensive Chromatin Remodeling and Establishment of Transcription Factor 'Hotspots' during Early Adipogenesis

Adipogenesis is tightly controlled by a complex network of transcription factors acting at different stages of differentiation. Peroxisome proliferator-activated receptor gamma (PPAR gamma) and CCAAT/enhancer binding protein (C/EBP) family members are key regulators of this process. We have employ...

ORGANISM(S): Mus musculus

2011-03-22 | E-GEOD-27826 | biostudies-arrayexpress

Molecular properties of epimutation hotspots

PRJNA740019 | ENA

DNA damage hotspots for the Top2i "ICRF193"

PRJNA1078073 | ENA

Excision repair hotspots of UV-induced DNA damage in the human genome

PRJNA623860 | ENA

Molecular architecture of transcription factor hotspots in early adipogenesis

Here, we have used digital genomic footprinting to precisely define protein localization for several adipogenic transcription factors at a genome-wide level. In combination with ChIP-seq data, these analyses reveal novel molecular insight into the organization of transcription factors at hotpot regi...

ORGANISM(S): Mus musculus

2014-05-08 | E-GEOD-57415 | biostudies-arrayexpress

PRDM9 drives the location and rapid evolution of recombination hotspots in salmonids

PRJNA1162462 | ENA

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