rna turnover - OmicsDI

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Mus musculus (270)
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CHEBI ID

CHEBI:15428 (3)
CHEBI:15741 (3)
CHEBI:16449 (3)
CHEBI:17234 (3)
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CHEBI:18012 (3)
CHEBI:18237 (3)
CHEBI:22660 (3)
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CHEBI:27266 (3)
CHEBI:32816 (3)
CHEBI:6650 (3)
CHEBI:15940 (2)
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CHEBI:16335 (2)
CHEBI:16708 (2)
CHEBI:17306 (2)
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CHEBI:18186 (2)
CHEBI:18257 (2)
CHEBI:22653 (2)
CHEBI:24898 (2)
CHEBI:25094 (2)
CHEBI:26271 (2)
CHEBI:26986 (2)
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CHEBI:27897 (2)
CHEBI:28044 (2)
CHEBI:28300 (2)
CHEBI:29016 (2)

Metabolite Name

Glucose (3)
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Valine (2)
(+)-7-Isomethyljasmonate (1)
(3,5-dimethylphenyl)-[4-(3-ethyl-1,2,4-triazol-4-yl)piperidin-1-yl]methanone (1)
(R)-4-((8S,9S,10R,13R,14S,17R)-10,13-dimethyl-3-oxo-2,3,6,7,8,9,10,11,12,13,14,15,16,17-tetradecahydro-1H-cyclopenta[a]phenanthren-17-yl)pentanoic acid (1)
(R)-pantothenic acid (1)
1,6-Anhydroglucose (1)
1-(2-methylbutan-2-yloxy)-3-(2-methylpropylamino)propan-2-ol (1)
1-Hexadecanol (1)
1-[2-[3-(1-propan-2-ylsulfonylazetidin-3-yl)-1,2,4-oxadiazol-5-yl]pyrrolidin-1-yl]ethanone (1)
1-[5-amino-3-(2-methylphenyl)-1,2,4-triazol-1-yl]-2,2-dimethylpropan-1-one (1)
12-Ketolithocholic Acid (1)
13,14-dihydro-19-hydroxyPGE1 (1)
13E-Docosenamide (1)

IsPrivate

False (1)

First Public Date

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2012 (2)
2011 (1)

Classification

bacteria (32)
protozoa (7)
fungi (5)

Modelling Approach

Ordinary differential equation model (1)

Study type

Transcription profiling by array (324)
RNA-seq of coding RNA (69)
ChIP-seq (40)
RNA-seq of non coding RNA (19)
ChIP-chip by tiling array (14)
Other (11)
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Hi-C (1)
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Release Date

2015 (152)
2016 (126)
2014 (125)
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2020 (121)
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2012 (108)
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2013 (106)
2010 (106)
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2009 (76)
2008 (53)
2007 (44)
2026 (31)
2006 (29)
2005 (21)
2004 (14)
2003 (8)
2001 (5)
2002 (4)
2000 (4)
1999 (3)
1997 (2)

Lab affiliation

ARC Centre of Excellence in Plant Energy Biology, M316, 35 Stirling Hwy, 6009, WA, Australia Faculty of Science, The University of Western Australia (2)
Cologne Excellence Cluster for Cellular Stress Responses in Aging-Associated Diseases (CECAD), University of Cologne, Joseph Stelzmann Strasse 26, 50931 Cologne, Germany. (2)
Erasmus MC (2)
Institute for Cardiovascular Regeneration, Centre for Molecular Medicine, Goethe University Frankfurt am Main, Germany (2)
Institute of Virology - Viral Immunopathology, Faculty of Medicine, Technical University Munich (2)
Max Planck Institute for Infection Biology, Berlin, Germany (2)
Max Planck Institute of Immunobiology and Epigenetics Proteomics Unit Stuebeweg 51 79108 Freiburg, Germany (2)
1: Macquarie Medical School, Faculty of Medicine, Health and Human Sciences, Macquarie University, NSW, Australia 2: School of Medical Sciences, Faculty of Medicine and Health, University of Sydney, NSW, Australia (1)
Basic Immune System of Plants / Protein Mass Spectrometry Max Planck Institute for Plant Breeding Research Carl-von-Linne-Weg 10, 50829 Cologne, Germany (1)
Bavarian Center for Biomolecular Mass Spectrometry (BayBioMS) Technische Universität München (TUM) (1)
Boston Children's Hospital | Harvard Medical School (1)
CABIMER (1)
Cedars-Sinai Medical Center (1)
Cell Biology Program and Center for Epigenetics Research, Memorial Sloan Kettering Cancer Center, New York, NY, USA (1)
Center for Malaria Research, Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, Pennsylvania 16802 (1)
Centre for Genomic Regulation (CRG) (1)
College of Dental Medicine, Oral Health Sciences, Medical Univeristy of South Carolina, USA (1)
Cologne Excellence Cluster for Cellular Stress Responses in Aging-Associated Diseases (CECAD), University of Cologne, Joseph Stelzmann Strasse 26, 50931 Cologne, Germany (1)
Department of Biochemistry and Biophysics University of North Carolina Chapel Hill, NC USA (1)
Department of Biochemistry and Molecular Biology, University of Southern Denmark, Campusvej 55, 5230 Odense M, Denmark (1)
Department of Biochemistry, University of Washington, Seattle, Washington 98195, USA Institute for Stem Cell and Regenerative Medicine, University of Washington, Seattle, Washington 98109, USA (1)
Department of Biomedical Sciences, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark (1)
Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado USA (1)
Department of Fundamental Neurosciences, Université de Lausanne, 1005 Lausanne, Switzerland & Department of Biomedicine and Prevention, Università degli studi di Roma "Tor Vergata", 00133 Rome, Italy (1)
Department of Genome Sciences, University of Washington, Seattle, WA 98105, USA (1)
Department of Human Biology, School of Nutrition and Translational Research in Metabolism (NUTRIM), Maastricht University, Maastricht, the Netherlands (1)
Department of Medical Biochemistry and Cell biology, University of Gothenburg, Sweden (1)
Department of Molecular Biology, Princeton University, USA (1)
Department of Molecular Mechanisms of Disease, University of Zurich (UZH), Zurich, Switzerland (1)
Department of Neuro- and Sensory Physiology University Medical Center Göttingen Humboldtallee 23 37073 Göttingen (1)

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An extended PAXT connection is required for turnover of nuclear polyadenylated RNA in human cells

Recruitment of the human ribonucleolytic RNA exosome to nuclear polyadenylated (pA+) RNA is facilitated by the Poly(A) Tail eXosome Targeting (PAXT) connection. Besides its core dimer, formed by the exosome co-factor MTR4 and the ZFC3H1 protein, the PAXT connection remains poorly defined. By charact...

ORGANISM(S): Homo Sapiens (human)

2019-10-31 | PXD016070 | JPOST Repository

Genome-wide miRNA turnover profile after transcription inhibition in HDMYZ cells with biological triplicate

HDMYZ cells were treated with 4ug/ml ActD for 0, 1, 4 and 12 hours. Small RNAs of 15-40 bases were gel-purified from 5 ug total RNA, and subjected to multiplex Illumina small RNA library preparation. Small RNA libraries were sequenced on a HiSeq2000 (Illumina). Measure miRNA expression level at 0, ...

ORGANISM(S): Homo sapiens

2015-02-05 | E-GEOD-60036 | biostudies-arrayexpress

Genome-wide incorporation dynamics reveal distinct categories of turnover for the histone variant H3.3

We developed a system to study the DNA replication-independent turnover nucleosomes containing the histone variant H3.3 in mammalian cells. By measuring the genome-wide incorporation of H3.3 at different time points following epitope-tagged H3.3 expression, we find three categories of H3.3-nucleosom...

ORGANISM(S): Mus musculus

2013-10-23 | E-GEOD-51505 | biostudies-arrayexpress

Long noncoding RNA as regulatory switch of protein turnover

Long intervening noncoding RNAs (lincRNAs) are prevalent genes with poorly understood functions. Here we discover a pathway of lincRNA-regulated proteolysis. The enhancer-like lincRNA HOTTIP extends the half-life of its binding protein WDR5, a subunit of the MLL H3K4 methylase complex, resulting in ...

ORGANISM(S): Mus musculus

2013-02-18 | E-GEOD-36513 | biostudies-arrayexpress

The G3BP1-UPF1-Associated Long Non-Coding RNA CALA Regulates RNA Turnover in the Cytoplasm.

Not available

S-EPMC9326601 | biostudies-literature

Spatial mapping of RNA turnover kinetics in the mouse brain

PRJNA1048974 | ENA

A homolog of lariat-debranching enzyme modulates turnover of branched RNA.

Not available

S-EPMC4105757 | biostudies-literature

CDK12 regulates co-transcriptional splicing and RNA turnover in human cells.

Not available