Epigenomics - OmicsDI

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Genomics (3307)
Unknown (2029)
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Organisms

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Trichoderma reesei QM6a (27)
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Drosophila melanogaster (18)
Stenotrophomonas maltophilia (15)
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Geminisphaera colitermitum TAV2 (12)
Sinorhizobium meliloti (12)
Aspergillus niger (12)
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Repository

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Tissue

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Muscle of leg (1)
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Left kidney (1)
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Large intestine (1)
Spinal cord (1)
Stomach (1)
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Adrenal gland (1)
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Knee (1)
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Prostate cancer cell line (1)
Embryonic stem cell (1)
Cotyledon (1)
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Disease

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Neuroblastoma (1)
Osteoarthritis (1)
Malignant neoplasm of ovary (1)
Type 2 diabetes mellitus (1)

Technology Type

Illumina HiSeq 2000 (13)
ILLUMINA, Illumina HiSeq 2000 (4)
ILLUMINA, Illumina HiSeq 2500 (3)
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Illumina Genome Analyzer II, Illumina HiSeq 2000 (2)
Illumina HiSeq 2000, ILLUMINA (2)
Illumina Genome Analyzer II (2)
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Illumina MiSeq, Illumina HiSeq 2000, ILLUMINA (1)
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450K (1)
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Illumina HumanMethylation450K, Illumina HiSeq 2500, Illumina InfiniumCoreExome-24v1-1_A, ILLUMINA (1)
ILLUMINA, Illumina HiSeq 2500, Illumina HumanMethylation450K, Illumina InfiniumCoreExome-24v1-1_A (1)
Illumina Genome Analyzer II, ILLUMINA (1)
Illumina HiSeq 4000, ILLUMINA (1)
Illumina HiSeq 2500, ILLUMINA (1)
Illumina 450K (1)
Illumina HumanMethylation 450K (1)
MeDIP-seq (1)
Illumina_450K, Illumina_HumanHT-12_V4, ILLUMINA, Illumina HiSeq 2000 (1)
Illumina 450k (1)
Illumina HiSeq 2500, Illumina MiSeq, NextSeq 500, Illumina HiSeq 2000 (1)
Illumina Infinium HumanMethylation450 BeadChips (1)

Instrument Platform

Illumina NovaSeq 6000 (47)
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NextSeq 550 (9)
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NextSeq 2000 (5)
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2100 Bioanalyzer Agilent (3)
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Intel Core 2 Duo E8500 3.16 GHz or equivalent (2)
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- (2)
MinION (2)
Illumina HiSeq 1500 (2)
Maxwell® RSC 48 Instrument (Promega, AS8500) (1)
Transrectal ultrasound-guided systematic sampling of prostate tissue (TRUS biopsy) (1)
Active Motif Catalog No. 53150 (1)
Shanghai Genefund Biotech Co., Ltd Illumina NovaSeq 6000 (1)
IEO HPC (1)
NovaSeq6000 (1)
Chromium Controller (10X) (1)
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Qubit (1)
Illumina iScan (1)

Publication Date

2020 (132)
2023 (105)
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2025 (100)
2012 (73)
2013 (65)
2010 (58)
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2011 (55)
2015 (48)
2014 (46)
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2021 (42)
2016 (27)
2018 (23)
2009 (19)
2008 (17)
2019 (16)
2017 (8)
2006 (6)
2007 (2)

UNIPROT ID/AC

P25302 (1)
P00546 (1)
P08153 (1)
P11746 (1)
P20437 (1)
P38634 (1)
P24868 (1)

CHEBI ID

CHEBI:15741 (13)
CHEBI:15891 (13)
CHEBI:30769 (13)
CHEBI:17202 (12)
CHEBI:17858 (12)
CHEBI:16708 (12)
CHEBI:15422 (12)
CHEBI:30915 (12)
CHEBI:16737 (12)
CHEBI:16680 (11)
CHEBI:16335 (11)
CHEBI:17750 (11)
CHEBI:16264 (10)
CHEBI:17659 (10)
CHEBI:22660 (10)
CHEBI:28300 (10)
CHEBI:6650 (10)
CHEBI:17929 (10)
CHEBI:17552 (10)
CHEBI:16761 (10)
CHEBI:17345 (10)
CHEBI:16919 (10)
CHEBI:15414 (9)
CHEBI:26271 (9)
CHEBI:17287 (9)
CHEBI:15846 (9)
CHEBI:18237 (9)
CHEBI:22653 (9)
CHEBI:48928 (9)
CHEBI:18186 (9)

Metabolite Name

Taurine (11)
Adenosine (10)
Creatinine (10)
Betaine (8)
Hypoxanthine (8)
IMP (7)
ADP (7)
GDP (7)
Citrate (7)
Adenine (7)
Uridine (7)
Malate (6)
UTP (6)
UDP (6)
ATP (6)
AMP (6)
Niacinamide (6)
GMP (6)
UMP (6)
Succinate (6)
NADH (6)
Glutamine (6)
Glucose (6)
Cytidine (6)
Xanthine (6)
Creatine (6)
Glycerophosphocholine (6)
L-Phenylalanine (6)
GTP (5)
NADP+ (5)

First Public Date

2020 (368)
2019 (354)
2025 (321)
2018 (254)
2023 (194)
2022 (178)
2024 (171)
2026 (147)
2017 (145)
2021 (144)
2014 (119)
2016 (112)
2013 (79)
2015 (74)
2012 (1)

Modelling Approach

Ordinary differential equation model (1)

Study status

Completed (4)

Lab affiliation

Division of Cancer Epigenomics, German Cancer Research Center (DKFZ), INF280, 69120 Heidelberg, Germany (2)
Department of Biochemistry, Albert Einstein College of Medicine, Bronx, NY 10461, United States (2)
Baylor College of Medicine Houston, Texas (1)
Institute for Clinical Chemistry and Pathobiochemistry, Department for Diagnostic Laboratory Medicine, University Hospital Tübingen, Hoppe-Seyler-Str. 3 72076 Tübingen, Germany (1)
Emmy-Noether Research Group Cellular Proteomics and Metabolic Signaling Institute for Diabetes and Obesity Helmholtz Diabetes Center Germany (1)
Institute of Oncology Research (IOR), Università della Svizzera Italiana (USI), 6500 Bellinzona, Switzerland (1)
Proteomics Center, Erasmus MC, Rotterdam (1)
Head of the Dioscuri Center of Chromatin Biology and Epigenomics Nencki Institute of Experimental Biology Polish Academy of Sciences 3 Pasteur Street, 02-093 Warsaw, Poland (1)
Institute of Plant Breeding and Genetic Resources- ELGO Dimitra PO Box 238 Thermi, Thessaloniki, Postcode: 57001, Greece (1)
Division of Cancer Epigenomics, German Cancer Research Center (DKFZ), INF280, 69120 Heidelberg, Germany. (1)
Division of Cancer Epigenomics, German Cancer Research Center (DKFZ) (1)
German Cancer Research Center, Division of Cancer Epigenomics (1)
Division of Cell Matrix Biology & Regenerative Medicine and KNH Centre for Biomedical Egyptology Faculty of Biology, Medicine and Health University of Manchester United Kingdom (1)
Key Laboratory of Biomedical Information Engineering of Ministry of Education, School of Life Science and Technology, Xi'an Jiaotong University, Xi'an 710049, Shaanxi Province, China. (1)
Laboratoire de Spectrometrie de Masse Proteomique Institut Curie PSL Research University (1)
Epigenomics & Single Cell Biophysics Group, Department of Cell Biology FNWI, Radboud Institute for Molecular Life Sciences (RIMLS), Nijmegen, 6525 HP, the Netherlands Department of Human Genetics, Radboud University Medical Center, 6525 HP, the Netherlands (1)
German Cancer Research Center (DKFZ), Division of Cancer Epigenomics (1)
School of Medicine, Westlake University, Hangzhou, Zhejiang Province, China. Westlake Center for Intelligent Proteomics, Westlake Laboratory of Life Sciences and Biomedicine, Hangzhou, Zhejiang Province, China. Research Center for Industries of the Future, School of Life Sciences, Westlake University, Hangzhou, Zhejiang Province, China. Guomics (1)
Proteomics Center, Erasmus MC (1)
University of Vienna, Faculty of Chemistry, Department of Analytical Chemistry (1)
Johns Hopkins University (1)
Wellcome Trust Sanger Institute (1)

Keyword

Screening (2)
CRC (2)
Stability of the Septin 9 biomarker (1)
Epi Pro Colon Test (1)
Multiple adenomatous polyposis (1)
Genetic syndrome (1)
Epigenomics (1)
Septin9 (1)
Plasma (1)
Septin 9 (1)
SEPT9 (1)
Methylation (1)
FOBT (1)
Blood (1)
FIT (1)
Biomarker (1)
Adenoma (1)
Colonoscopy (1)

IsPrivate

False (1)

Classification

bacteria (75)
fungi (74)
helminths (5)
protozoa (5)
viruses (3)

Study type

Transcription profiling by array (110)
Methylation profiling by array (90)
ChIP-seq (68)
RNA-seq of coding RNA (60)
Methylation profiling by high throughput sequencing (47)
ChIP-chip by tiling array (18)
ATAC-seq (11)
ChIP-chip by array (10)
Bisulfite-seq (10)
Other (10)
RNA-seq of coding RNA from single cells (10)
RNA-seq of total RNA (10)
RNA-seq of non coding RNA (10)
Comparative genomic hybridization by array (7)
DNA-seq (7)
Unknown experiment type (4)
Cell line - High-throughput sequencing (3)
MBD-seq (3)
MicroRNA profiling by high throughput sequencing (3)
Single nucleus RNA sequencing (3)
Transcription profiling by tiling array (2)
ScATAC-seq (2)
MicroRNA profiling by array (2)
CUT&RUN (2)
Genotyping by high throughput sequencing (2)
Cell line - Methylation microarray (1)
RNA-seq of non coding RNA from single cells (1)
MeDIP-seq (1)
Plant - High-throughput sequencing (1)
Cell line - One-color microarray (1)

Release Date

2025 (263)
2021 (225)
2024 (224)
2023 (218)
2022 (217)
2019 (152)
2020 (148)
2018 (139)
2016 (132)
2017 (116)
2015 (114)
2013 (102)
2014 (98)
2012 (95)
2026 (85)
2010 (72)
2011 (69)
2009 (30)
2008 (23)
2006 (9)
2007 (6)
2004 (2)
2002 (2)
2005 (1)

Location

China (1)
Germany (1)
Hungary (1)
United States (1)

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RNA-seq of coding RNA of 19 human tissues from fetuses with congenital defects (NIH Roadmap Epigenomics Mapping Consortium)

The NIH Roadmap Epigenomics Mapping Consortium aims to produce a public resource of epigenomic maps for stem cells and primary ex vivo tissues selected to represent the normal counterparts of tissues and organ systems frequently involved in human disease. This data set was submitted by University of...

ORGANISM(S): Homo sapiens

2010-02-26 | E-MTAB-3871 | biostudies-arrayexpress

Bisulfite-free epigenomics and genomics of single cells through methylation-sensitive restriction.

Not available

S-EPMC7851132 | biostudies-literature

The SEQC2 epigenomics quality control (EpiQC) study.

Not available

S-EPMC8650396 | biostudies-literature

Enhanced JBrowse plugins for epigenomics data visualization.

Not available

S-EPMC5921565 | biostudies-literature

Plasma cell free DNA methylation markers for hepatocellular carcinoma surveillance in patients with cirrhosis: a case control study.