Transcriptional co-regulation

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Technology Type

Mass Spectrometry (79)
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Instrument Platform

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UNIPROT ID/AC

3MGH_STRCO (3)
6PGL_STRCO (3)
ACKA_STRCO (3)
ACPX_STRCO (3)
ACSA_STRCO (3)
ACT22_STRCO (3)
ACT3_STRCO (3)
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AMPA_STRCO (3)
AMPP1_STRCO (3)
AMPP2_STRCO (3)
ANSP_STRCO (3)
APEB_STRCO (3)
APT_STRCO (3)
ARC_STRCO (3)

CHEBI ID

CHEBI:18012 (6)
CHEBI:30769 (6)
CHEBI:15741 (6)
CHEBI:18237 (5)
CHEBI:22660 (5)
CHEBI:22653 (5)
CHEBI:16335 (5)
CHEBI:17268 (5)
CHEBI:16000 (5)
CHEBI:16750 (5)
CHEBI:33508 (5)
CHEBI:18211 (5)
CHEBI:16027 (5)
CHEBI:6650 (5)
CHEBI:27897 (5)
CHEBI:26986 (5)
CHEBI:17822 (5)
CHEBI:17596 (5)
CHEBI:28044 (5)
CHEBI:15428 (5)
CHEBI:28300 (5)
CHEBI:27266 (5)
CHEBI:17858 (4)
CHEBI:25094 (4)
CHEBI:15999 (4)
CHEBI:17361 (4)
CHEBI:16695 (4)
CHEBI:18257 (4)
CHEBI:16856 (4)
CHEBI:7916 (4)

Metabolite Name

UMP (4)
CMP (4)
Ethanolamine (3)
Adenine (3)
Betaine (3)
Guanine (3)
Uridine (3)
Guanosine (3)
Asparagine (3)
Myo-inositol (3)
ATP (3)
GDP (3)
AMP (3)
Creatinine (3)
Thymidine (3)
FAD (3)
Adenosine (3)
ADP (3)
NAD+ (3)
Valine (3)
Tryptophan (3)
Threonine (3)
Serine (3)
Phenylalanine (3)
Glutamine (3)
Glucose (3)
Glycine (3)
Sinapic acid (2)
Nicotinate (2)
Isocitrate (2)

First Public Date

2014 (228)
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2023 (117)
2020 (115)
2021 (99)
2022 (80)
2018 (65)
2017 (55)
2019 (51)
2016 (51)
2015 (49)
2013 (36)

Modelling Approach

Ordinary differential equation model (6)

Lab affiliation

Jiangsu Key Laboratory of Crop Genetics and Physiology/Co-Innovation Center for Modern Production Technology of Grain Crops, Key Laboratory of Plant Functional Genomics of the Ministry of Education, Yangzhou University, Yangzhou 225009, China (2)
Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry of the Russian Academy of Sciences (2)
1. Department of Cell Research and Immunology, George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv, Israel 2. Department of Human Molecular Genetics and Biochemistry, Sackler Faculty of Medicine, Tel Aviv University, Tel Aviv, Israel (1)
Agroécologie, INRAE, Institut Agro, Univ. Bourgogne, Univ. Bourgogne Franche-Comté, F-21000 Dijon, France (1)
Assistant Member, Immunology Department St. Jude Children's Research Hospital Memphis, TN USA (1)
Australian Institute for Bioengineering and Nanotechnolog (AIBN), The University of Queensland (1)
Biomedical & Life Sciences, Lancaster University UK (1)
CEITEC, Masaryk University Molecular medicine department, RNA and immunity group (1)
COld Spring Harbor Laboratory (1)
CRUK - Beatson Institute for Cancer Research - Switchback Rd, Bearsden, Glasgow G61 1BD - United Kingdom (1)
CSIRO Biomedical Manufacturing Biology R&D Group (1)
CSIRO Biomedical Manufacturing Protein Mass Spectrometry Lab Parkville, VIC 3052, Australia (1)
Canada's Michael Smith Genome Sciences Centre, BC Cancer Agency, Vancouver V5Z 1L3, Canada (1)
Carnegie Mass Spectrometry Facility at Stanford (1)
Cell and Developmental Biology, Perelman School of Medicine, University of Pennsylvania (1)
Center FOr Cancer Research Development, Proteomics Core Facility, Rhode Island Hospital, Providence, RI, USA (1)
Centre Esther Koplowitz (CEK) (1)
Centre for Engineering Biology, School of Biological Sciences, University of Edinburgh, United Kingdom (1)
Cold Spring Harbor Laboratory (1)
Cologne Excellence Cluster for Cellular Stress Responses in Aging-Associated Diseases (CECAD), University of Cologne, Joseph Stelzmann Strasse 26, 50931 Cologne, Germany. (1)
Core Facility Proteomics, Department of Clinical Chemistry, University Medical Center Goettingen, Germany (1)
Department of Biochemistry Geisel School of Medicine at Dartmouth (1)
Department of Biochemistry and Microbiology, Rutgers, the State University of New Jersey, New Brunswick, NJ, USA. (1)
Department of Microbiology, Biochemistry and Molecular Genetics, Rutgers-New Jersey Medical School, Newark, NJ 07103 (1)
Department of Neuroscience, Washington University School of Medicine, St. Louis, MO 63110, USA (1)
Department of Pathology and Cell Biology and Institute for Cancer Genetics Herbert Irving Comprehensive Cancer Vagelos College of Physicians & Surgeons Columbia University (lab head) (1)
Department of Proteomics and Signal Transduction, Max-Planck-Institute of Biochemistry, Munich, Germany (1)
Department of Translational Medical Sciences, School of Medicine, Texas A&M University, Houston, TX, USA (1)
Departments of Biochemistry and Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA (1)
Epithelial Systems Biology Laboratory, National Heart, Lung, and Blood Institute, NIH, Bethesda, MD, USA (1)

IsPrivate

False (6)

Model Flag

Non Kinetic (2)

Classification

bacteria (27)
fungi (17)
protozoa (14)

Modification

4-tetrahydrothiazine-3-carboxylic acid (1)

Study type

Transcription profiling by array (1329)
ChIP-seq (223)
RNA-seq of coding RNA (172)
ChIP-chip by tiling array (69)
Unknown experiment type (47)
RNA-seq of non coding RNA (47)
ChIP-chip by array (31)
Other (18)
RNAi profiling by array (15)
Transcription profiling by tiling array (13)
Methylation profiling by array (13)
Comparative genomic hybridization by array (10)
RNA-seq of coding RNA from single cells (9)
Methylation profiling by high throughput sequencing (5)
Transcription profiling by SAGE (4)
Cell line - High-throughput sequencing (4)
MicroRNA profiling by array (4)
DNA-seq (4)
RNA-seq of total RNA (4)
Genotyping by array (3)
Spatial transcriptomics by high-throughput sequencing (2)
RIP-seq (2)
ScATAC-seq (2)
Cell line - Two-color microarray (1)
Proteomic profiling by mass spectrometer (1)
Single nucleus RNA sequencing (1)
Proteomic profiling by array (1)

Release Date

2010 (387)
2014 (353)
2015 (324)
2012 (323)
2025 (318)
2011 (308)
2008 (295)
2016 (290)
2022 (286)
2013 (275)
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2019 (208)
2018 (208)
2017 (206)
2009 (186)
2007 (119)
2004 (89)
2026 (70)
2006 (41)
2005 (25)
2002 (10)
2003 (5)
2000 (2)
2001 (1)

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Regulation of co-transcriptional splicing by RNA-binding protein PTBP1

PRJEB51671 | ENA

VAL1 acts as an assembly platform co-ordinating co-transcriptional repression and chromatin 2 regulation at Arabidopsis FLC

• Polycomb (PcG) regulation is crucial for development across eukaryotes, but how PcG targets are specified is still incompletely understood. The slow timescale of cold-induced Polycomb Repressive Complex 2 silencing during vernalization at Arabidopsis thaliana FLOWERING LOCUS C (FLC) provides an ex...

ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress)

2022-10-13 | PXD036548 | Pride

Mechanistic dissection of GRHL2 and PR transcriptional co-regulation in breast cells

PRJNA1314756 | ENA

Transcriptional regulation of co-expressed microRNA target genes.

Not available

S-EPMC5952361 | biostudies-literature

Kinetic modeling reveals additional regulation at co-transcriptional level by post-transcriptional sRNA regulators.

Not available

S-EPMC8634553 | biostudies-literature

Regulation of pre-mRNA splicing by m6A through the low-complexity protein hnRNPG and co-transcriptional pausing

PRJNA470932 | ENA

VAL1 acts as an assembly platform co-ordinating co-transcriptional repression and chromatin regulation at Arabidopsis FLC

Polycomb (PcG) silencing is crucial for development, but how targets are specified remains incompletely understood. The cold-induced Polycomb Repressive Complex 2 (PRC2) silencing of Arabidopsis thaliana FLOWERING LOCUS C (FLC) provides an excellent system to elucidate PcG regulation. Association...

ORGANISM(S): Arabidopsis Thaliana

2022-08-15 | PXD036057 |

Evidence for an RNAi-independent role of DICER-LIKE2 in conferring growth inhibition and basal antiviral resistance

Higher plants encode four or five DICER-LIKE (DCL) enzymes responsible for the production of small non-coding RNAs which function in RNA interference (RNAi). Different RNAi pathways in plants effect transposon silencing, antiviral defense and endogenous gene regulation. DCL2 acts genetically redunda...

ORGANISM(S): Arabidopsis Thaliana

2024-07-26 | PXD046163 | panorama

Regulation of co-transcriptional splicing by RNA-binding protein PTBP1

We examined the role of PTBP1 in regulation of co-transcriptional splicing process by depleting this RNA-binding protein from embryonic stem cells using the auxin-inducible degron technology and analysing the total and chromatin-associated RNA fractions by RNA-seq. We also performed mNET-seq and ChI...

ORGANISM(S): Mus musculus

2023-01-08 | E-MTAB-11544 | biostudies-arrayexpress

Global co-transcriptional splicing in Arabidopsis and the correlation with splicing regulation in mature RNAs

PRJNA520905 | ENA

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