Chromatin-mediated interaction

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UNIPROT ID/AC

Q9BQ50 (1)
Q07283 (1)
Q969L4 (1)
Q8NG06 (1)
Q8IUC1 (1)
Q8N8D1 (1)
Q9Y2Y9 (1)
Q6W4X9 (1)
Q9UJ98 (1)
P35326 (1)
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Q13835-2 (1)
Q13835 (1)
Q08554 (1)
Q08188 (1)
P31944 (1)
P07476 (1)
Q9UKL3 (1)
Q9UKK6 (1)
Q9UBJ2 (1)
Q9H967 (1)
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Q9UQ49 (1)
Q9BSM1 (1)
Q9BQE9 (1)
Q99728 (1)
Q96QA5 (1)

ENSEMBL ID

ENSG00000170477 (1)

CHEBI ID

CHEBI:15539 (1)
CHEBI:89575 (1)
CHEBI:57443 (1)
CHEBI:28498 (1)
CHEBI:42491 (1)
CHEBI:16069 (1)
CHEBI:49537 (1)
CHEBI:17633 (1)
CHEBI:16284 (1)
CHEBI:17808 (1)
CHEBI:28207 (1)
CHEBI:16001 (1)
CHEBI:16666 (1)
CHEBI:19569 (1)
CHEBI:90324 (1)
CHEBI:88356 (1)
CHEBI:90355 (1)
CHEBI:16891 (1)
CHEBI:47878 (1)
CHEBI:17111 (1)
CHEBI:24267 (1)
CHEBI:28862 (1)
CHEBI:17211 (1)
CHEBI:15842 (1)
CHEBI:28013 (1)
CHEBI:50392 (1)
CHEBI:15641 (1)
CHEBI:1606 (1)
CHEBI:45931 (1)
CHEBI:15633 (1)

Metabolite Name

Ascorbic acid (2)
Uric acid (2)
N-Acetyl-?-D-glucosamine 1-phosphate (1)
Uridine 5'-diphosphoglucuronic acid (1)
3'-Adenosine monophosphate (3'-AMP) (1)
Guanosine monophosphate (GMP) (1)
D-(-)-Mannitol (1)
N-acetyl-L-aspartylglutamic acid (1)
HMG-CoA (1)
Retinoic acid (1)
Arginosuccinic acid (1)
Adenylosuccinate (1)
Nicotinamide Riboside (1)
N-acetyl spermidine (1)
N-acetyl spermine (1)
Succinyl-CoA (1)
Malonyl-CoA (1)
Acetoacetyl-CoA (1)
Propionyl-CoA (1)
Diiodothyronine (1)
5-methyl-THF (1)
7,8-dihydrofolate (1)
Folate (1)
S-adenosyl-L-homoCysteine (1)
Xanthosine-5-phosphate (XMP) (1)
S-adenosyl-L-methioninamine (1)
Thiamine-phosphate (TMP) (1)
Aminoimidazole carboxamide ribonucleotide (1)
S-methyl-5-thioadenosine (1)
Deoxyguanosine (1)

First Public Date

2026 (122)
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2020 (35)
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2018 (24)
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Modelling Approach

Ordinary differential equation model (2)

Lab affiliation

German Cancer Consortium (DKTK), partner site Freiburg German Cancer Research Center (DKFZ) Foundation under Public Law c/o Department of Urology Zentrale Klinische Forschung (ZKF) Medical Center-University of Freiburg Breisacher Str. 66, 79106 Freiburg, Germany (4)
National Health Research Institutes, Taiwan (3)
Dept. of Molecular Biosciences, University of Texas at Austin, Texas 78712 USA (2)
Department of Genome Sciences, University of Washington (2)
Department of Biological Science Wayne State University (1)
Chemistry Department, Scripps Research (1)
Laboratory of Genetics, University of Wisconsin-Madison, Madison, WI, USA Wisconsin Institute for Discovery, University of Wisconsin-Madison, Madison, WI, USA (1)
Department of Environmental, Biological and Pharmaceutical Sciences and Technologies, University of Campania “Luigi Vanvitelli”, 81100 Caserta, Italy (1)
Department of Anatomy and Developmental Biology, Australian Regenerative Medicine Institute, Monash University, Australia (1)
Institute of Biomedical Science, Academia Sinica, Taiwan (1)
Proteomics Facility, The Netherlands Cancer Institute, Amsterdam, 1066 CX, The Netherlands; Biomolecular Mass Spectrometry and Proteomics, Bijvoet Center for Biomolecular Research, Utrecht Institute for Pharmaceutical Sciences, Utrecht University and Netherlands Proteomics Centre, Utrecht, 3584 CH, The Netherlands (1)
Department of Laboratory Medicine, Sahlgrenska University Hospital, Gothenburg, Sweden (1)
Chemistry Department, The Scripps Research Institute, La Jolla, California, USA (1)
Molecular Biology Biomedical Center Munich Ludwig-Maximilians-Universität Munich (LMU) Großhaderner Strasse 9 82152 Planegg-Martinsried (1)
Associate Professor in Chromosome Dynamics and Stability (Genome Damage and Stability) Chromosome Dynamics and Stability Group Genome Damage and Stability Centre University of Sussex Brighton BN1 9RQ (1)
Friedrich Miescher Institute for Biomedical Research Maulbeerstrasse 66 4058 Basel Switzerland (1)
Irving Laboratory, Department of Rural Clinical Science, La Trobe University, Australia (1)
CeMM, Research Center for Molecular Medicine, Austrian Academy of Sciences, Austria (1)
Department of Biochemistry and Biophysics, RNA Discovery Center, and Lineberger Comprehensive Cancer Center, The University of North Carolina at Chapel Hill (1)
State Key Laboratory of Chemical Biology, Center for Excellence in Molecular Synthesis, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences (1)
Institute of Biomedicine, Faculty of Health Sciences, University of Eastern Finland, Kuopio, Finland (1)
Department of Genetics, Harvard Medical School, Boston MA 02115 USA (1)
Institute of Molecular Biotechnology of the Austrian Academy of Sciences (IMBA), Vienna BioCenter (VBC), 1030 Vienna, Austria. (1)
University of Regensburg Biochemistry I Mass Spectrometry group (1)
Ludwig-Maximilians-Universität München Protein Analysis Unit Molecular Biology Department Großhadernerstr. 9 82152 Planegg-Martinsried (1)
Interfaculty Institute of Biochemistry Universität Tübingen Hoppe-Seyler-Straße 4 72076 Tübingen Germany (1)
1Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill School of Medicine, Chapel Hill, NC 27599, USA 2Department of Biochemistry and Biophysics, University of North Carolina at Chapel Hill School of Medicine, Chapel Hill, NC 27599, USA 3Curriculum in Genetics and Molecular Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA (1)
Dame Roma Mitchell Cancer Research Laboratories, Adelaide Medical School, University of Adelaide, Adelaide, Australia (1)
University of edinburgh (1)
Laboratory of Cellular and Molecular Biology, Center for Cancer Research, National Cancer Institute, Bethesda, Maryland 20892 (1)

IsPrivate

False (2)

Classification

protozoa (1)

Study type

Transcription profiling by array (299)
ChIP-seq (105)
RNA-seq of coding RNA (57)
ChIP-chip by tiling array (38)
RNA-seq of non coding RNA (19)
Other (14)
Unknown experiment type (11)
ChIP-chip by array (11)
Methylation profiling by array (8)
Methylation profiling by high throughput sequencing (7)
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Hi-C (3)
Transcription profiling by SAGE (2)
ATAC-seq (2)
RIP-seq (2)
DNA-seq (2)
CUT&RUN (2)
RIP-chip by array (1)
Animal - One-color microarray (1)
Plant - High-throughput sequencing (1)
RNAi profiling by array (1)
MicroRNA profiling by high throughput sequencing (1)
Bisulfite-seq (1)
RNA-seq of coding RNA from single cells (1)

Release Date

2023 (130)
2012 (130)
2015 (121)
2013 (120)
2014 (115)
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2003 (5)
1998 (2)
2002 (1)
2001 (1)
2000 (1)

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A SWI/SNF nucleosome remodeling complex acts in non-coding RNA-mediated transcriptional silencing

RNA-mediated transcriptional silencing prevents deleterious effects of transposon activity and controls the expression of protein-coding genes. It involves long non-coding RNAs (lncRNAs)1, which in Arabidopsis thaliana are produced by a specialized RNA Polymerase V (Pol V)2. lncRNAs guide Argonaute-...

ORGANISM(S): Arabidopsis thaliana

2012-12-01 | E-GEOD-38400 | biostudies-arrayexpress

A comprehensive synthetic genetic interaction network governing yeast histone acetylation and deacetylation

Histone acetylation and deacetylation are among the principal mechanisms by which chromatin is regulated during transcription, DNA silencing, and DNA repair. We analyzed patterns of genetic interactions uncovered during comprehensive genome-wide analyses in yeast to probe how histone acetyltransfera...

ORGANISM(S): Saccharomyces cerevisiae

2008-06-11 | E-GEOD-9771 | biostudies-arrayexpress

Oncogene-Mediated Alterations in Chromatin Conformation

Emerging evidence suggests that chromatin adopts a non-random three-dimensional (3D) topology and that the organization of genes into structural hubs and domains affects their transcriptional status. How chromatin conformation changes in diseases such as cancer is poorly understood. Moreover, how on...

ORGANISM(S): Homo sapiens

2012-05-23 | E-GEOD-37752 | biostudies-arrayexpress

TAC-C uncovers open chromatin interaction in crops and SPL-mediated photosynthesis regulation.

Not available

S-EPMC12124369 | biostudies-literature

AP-2γ regulates oestrogen receptor-mediated long-range chromatin interaction and gene transcription.

Not available

S-EPMC3155293 | biostudies-literature

comprehensive chromatin interaction in TNF alpha stimulated HUVECs

HUVECs were stimulated and samples were prepared after 0 and 30 min. Chromatin interaction mediated by active RNA polymerase II was detected by ChIA-PET. Samples were made afrer 0 and 30 min after TNF alpha stimulation.

ORGANISM(S): Homo sapiens

2012-10-13 | E-GEOD-41553 | biostudies-arrayexpress

A novel SNF2 ATPase complex in Trypanosoma brucei with a role in H2A.Z-mediated chromatin remodelling

A cascade of histone acetylation events with subsequent incorporation of a histone H2A variant plays an essential part in transcription regulation in various model organisms. A key player in this cascade is the chromatin remodellling complex SWR1, which replaces the canonical histone H2A with its va...

ORGANISM(S): Rhizophagus irregularis Trypanosoma brucei Oryza sativa (Rice)

2022-08-12 | PXD026796 | Pride

Lc-ms/ms

The interaction of NSBP1/HMGN5 with nucleosomes in euchromatin counteracts linker histone-mediated chromatin compaction and modulates transcription.

Not available

S-EPMC2757144 | biostudies-literature

An in silico procedure for generating protein-mediated chromatin interaction data and comparison of significant interaction calling methods.

Not available

S-EPMC10793909 | biostudies-literature

Molecular basis for chromatin binding and regulation of MLL5

The human mixed lineage leukemia 5 (MLL5) protein mediates hematopoietic cell homeostasis, cell cycle and survival, however, the molecular basis underlying MLL5 activities remains unknown. Here, we show that MLL5 is recruited to gene-rich euchromatic regions via the interaction of its PHD finger wit...

ORGANISM(S): Mus musculus

2013-07-01 | E-GEOD-47100 | biostudies-arrayexpress

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