Rid - OmicsDI

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Unknown (533)
Transcriptomics (174)
Genomics (115)
Proteomics (80)
Metabolomics (3)
Methylation profiling (2)
Other (2)
Models (1)

Organisms

Caenorhabditis elegans (56)
Homo sapiens (42)
Mus musculus (35)
Schizosaccharomyces pombe (34)
Rhizobium leguminosarum (29)
Gossypium hirsutum (6)
Rattus norvegicus (5)
Drosophila melanogaster (4)
Saccharomyces cerevisiae (4)
Aspergillus flavus (3)
Salmonella enterica (2)
Macaca mulatta (2)
Dugesia japonica (1)
Taenia multiceps (1)
Olea europaea (1)
Capra hircus (1)
Azotobacter vinelandii DJ (1)
Dirofilaria immitis (1)
Bombyx mori (1)
Streptococcus thermophilus (1)
Skeletonema marinoi (1)
Brassica napus (1)
Citrus sinensis (1)
Zea mays (1)
Nicotiana tabacum (1)
Aedes aegypti (1)
Solanum lycopersicum (1)
Glycine max (1)
Mycobacterium tuberculosis H37Rv (1)
Escherichia coli (1)

Organisms

Homo sapiens (10)
Mus musculus (7)
Caenorhabditis elegans (3)
Gossypium hirsutum (2)
Cryphonectria parasitica (1)
Podospora anserina (1)
Streptomyces avermitilis (1)
Aspergillus flavus (1)
Stutzerimonas stutzeri (1)
Salmonella enterica subsp. enterica serovar Typhimurium str. LT2 (1)
Neurospora crassa (1)
synthetic construct (1)
Danio rerio (1)
plant metagenome (1)
Drosophila melanogaster (1)
Rattus norvegicus (1)
Bacteria (1)
Zea mays (1)
Arabidopsis thaliana (1)
Staphylococcus aureus (1)

Repository

biostudies-arrayexpress (229)
pride (79)
ENA (49)
geo (17)
MetaboLights (2)
BioModels (1)
iProX (1)
MetabolomicsWorkbench (1)

Tissue

Cell culture (16)
Whole body (9)
Epithelial cell (9)
Cell suspension culture (5)
Plant cell (3)
Blood serum (3)
Myeloid cell line (2)
Myeloid cell (2)
Root (2)
Permanent cell line cell (2)
Liver (2)
Bacterial cells (1)
Femorotibial joint (1)
MDCK cell (1)
Ascocarp (1)
Abscission zone (1)
Anatomical entity (1)
Protonema (1)
Gametophore (1)
Whole plant (1)
Spermatozoon (1)
Lymph (1)
Breast cancer cell line (1)
Seed (1)
Embryonic stem cell (1)
Urine (1)
Cotyledon (1)
Shoot (1)
Cerebral cortex (1)
Early embryonic cell (1)

Disease

Prostate cancer (4)
Cervix carcinoma (3)
Normal (2)
Cardiovascular system disease (2)
Acute myeloid leukemia (2)
Breast cancer (2)
Disease free (2)
Mild hyperglycemia, liver dysfunction, and renal glycosuria (1)
Internal Carotid Artery Stenosis (NCI Metathesaurus C0340569) has DiseaseStaging Asymptomatic (1)
Carotid artery disease: ASYMPTOMATIC high-grade inner carotid artery stenosis (1)
Autoimmune disease of central nervous system (1)
Infertility (1)
Meningitis (1)
Dehydration (1)
Duchenne muscular dystrophy (1)
Plasmodium falciparum malaria (1)
Inflammatory bowel disease (1)
Parkinson's disease (1)
Osteoarthritis (1)
Brain cancer (1)

Technology Type

Mass Spectrometry (80)
Shotgun proteomics (42)
Bottom-up proteomics (23)
Data-dependent acquisition (17)
Affinity purification coupled with mass spectrometry proteomics (6)
Chemical cross-linking coupled with mass spectrometry proteomics (5)
Gel-based experiment (3)
Mass spectrometry (2)
Mass spectrometry imaging (2)
Affinity proteomics (2)
Top-down proteomics (2)
ESI (1)
All-ion fragmentation (1)
SWATH MS (1)

Instrument Platform

Axon GenePix 4000B scanning hardware (11)
NextSeq 500 (9)
Axon- GenePix4000B (3)
Illumina HiSeq 2000 (3)
Illumina NovaSeq 6000 (2)
Affymetrix GeneTitan system (1)
Affymetrix GeneChip HT MG-430 PM (1)
Axon Instruments GenePix 4000B scanner (1)
Axon GenePix4000B (1)
Scanning hardware (1)
Illumina NovaSeq X (1)
GridION (1)
BGISEQ-500 (1)
Illumina MiSeq (1)
Illumina HiSeq 2500 (1)
Illumina HiSeq 4000 (1)
Gas Chromatography MS - (1)
Liquid Chromatography MS - negative - hilic (1)
Liquid Chromatography MS - positive - hilic (1)

Publication Date

2013 (65)
2010 (23)
2025 (19)
2009 (19)
2008 (18)
2004 (17)
2011 (16)
2023 (15)
2012 (15)
2021 (14)
2020 (12)
2015 (12)
2024 (12)
2019 (10)
2016 (10)
2014 (10)
2026 (7)
2022 (7)
2018 (7)
2007 (7)
2017 (5)
2006 (5)
2005 (4)

CHEBI ID

CHEBI:17306 (2)
CHEBI:17992 (2)
CHEBI:16000 (2)
CHEBI:30746 (2)
CHEBI:15428 (2)
CHEBI:50211 (1)
CHEBI:176488 (1)
CHEBI:176487 (1)
CHEBI:176485 (1)
CHEBI:176484 (1)
CHEBI:88716 (1)
CHEBI:176483 (1)
CHEBI:176481 (1)
CHEBI:176479 (1)
CHEBI:176477 (1)
CHEBI:176476 (1)
CHEBI:176474 (1)
CHEBI:16809 (1)
CHEBI:176470 (1)
CHEBI:65148 (1)
CHEBI:90373 (1)
CHEBI:63671 (1)
CHEBI:176468 (1)
CHEBI:176465 (1)
CHEBI:61061 (1)
CHEBI:175617 (1)
CHEBI:168209 (1)
CHEBI:176459 (1)
CHEBI:80408 (1)
CHEBI:176455 (1)

Metabolite Name

Benzoic acid (2)
Sucrose (2)
Dimethylarginine; LC-tDDA; CE10 (1)
Ne,Ne-Dimethyl-lysine (1)
Protocatechiuc acid 4-O-sulfate (1)
N2-Succinylglutamic acid (1)
5-Carboxy-2-deoxyuridine (1)
Methylgallic O-sulfate (1)
Dihydromaleimide beta-glucoside (1)
4-O-alpha-Galactopyranuronosyl-galacturonic acid (1)
3-hydroxy-3-(3-hydroxyphenyl)propanoic acid O-sulphate (1)
Cysteinosuccinic acid (1)
4-methoxy-3-(sulfooxy)benzoic acid (1)
Galactose 6-sulfate (1)
3-Sulfooxybutanoic acid (1)
Glucose 6-sulfate (1)
Glycerophosphorylethanolamine (1)
4-Hydroxy-5-(dihydroxyphenyl)valeric acid O-sulphate (1)
Succinylserine (1)
3-O-sulfo-beta-galactose (1)
Sinapinic acid-O-sulfate (1)
N-Sulfotyrosine (1)
TRIBOA-beta glucoside (1)
Dihydro isoferulate 3-O-sulfate (1)
Sialosonic acid (1)
3-Dehydro-2-deoxygluconic acid (1)
N-Acetylglucosamine-6-sulfate (1)
Keto-Lactose (1)
Dopamine 4-O-sulfate (1)
N(6)-Acetonyllysine (1)

IsPrivate

False (1)

First Public Date

2025 (8)
2026 (6)
2020 (5)
2014 (5)
2013 (5)
2023 (3)
2022 (3)
2019 (3)
2017 (3)
2015 (3)
2024 (2)
2016 (2)
2021 (1)

Classification

bacteria (2)
fungi (1)

Modelling Approach

Ordinary differential equation model (1)

Study type

Transcription profiling by array (101)
ChIP-seq (59)
RNA-seq of non coding RNA (27)
RNA-seq of coding RNA (14)
ChIP-chip by array (5)
Comparative genomic hybridization by array (5)
Other (4)
Methylation profiling by high throughput sequencing (3)
ChIP-chip by tiling array (1)
Human - Single-cell sequencing (1)
Translation profiling (1)
High-throughput sequencing (1)
Animal - High-throughput sequencing (1)
Cell line - High-throughput sequencing (1)
Transcription profiling by RT-PCR (1)
RNA-seq of coding RNA from single cells (1)
RNA-seq of total RNA (1)

Release Date

2022 (89)
2021 (79)
2023 (75)
2013 (68)
2025 (60)
2024 (45)
2020 (42)
2019 (37)
2010 (31)
2018 (30)
2016 (29)
2008 (22)
2009 (20)
2012 (20)
2017 (18)
2015 (17)
2004 (17)
2011 (16)
2014 (15)
2007 (8)
2005 (8)
2026 (6)
2006 (5)
2002 (2)
2001 (2)
2003 (1)

Lab affiliation

Helmholtz Centre for Environmental Research – UFZ, Department of Molecular Environmental Biotechnology, Leipzig, Germany (5)
Whitehead Institute and MIT (2)
Molecular Genetics, TU Kaiserslautern (2)
Dept. of Laboratory Medicine University of California, San Francisco, USA (2)
Principal Investigator Centre for Targeted Protein Degradation (2)
Proteomics Core Facility and Research Group Proteomics, CEITEC-MU, Masaryk University, Brno, Czech Republic (2)
Proteomics Core Facility, Department of Biochemistry and Molecular Biology, Faculty of Medicine, University of Debrecn (1)
PROFESSOR, PI, PROTEOMICS LAB, DEPARTMENT OF BIOSCIENCES AND BIOENGINEERING, IIT BOMBAY (1)
Peking University Graduate School (1)
Flemish Institute for Technological Research (VITO) Boeretang 200 2400 Mol (1)
UNIST (1)
Institute for Plant Sciences of Montpellier (IPSiM) (1)
Biochemistry and Molecular Biology, The Institute for Medical Research Israel-Canada (IMRIC). School of Medicine. The Hebrew University of Jerusalem, Israel. (1)
Department of Physiology and Cell Biology, University of Arkansas for Medical Sciences, 4301 West Markham Street, Little Rock, AR 72205, USA. (1)
Université de Strasbourg, CNRS, Architecture et Réactivité de l’ARN, 67084 Strasbourg, France (1)
Department of Experimental Medicine and Surgery, University of Rome "Tor Vergata", Rome, and Santa Lucia IRCCS Foundation, Rome, Italy (1)
David Geffen School of Medicine, UCLA, USA BD2K Center of Excellence for Big Data Computing at UCLA, UCLA, USA (1)
Group Leader Proteostasis Charité Universitätsmedizin Berlin, Germany (1)
Biologie des interactions hôte-parasite Institut Pasteur (1)
Department of Clinical Sciences, Cornell University, Ithaca, NY, USA Department of Surgical and Radiological Sciences, School of Veterinary Medicine, University of California-Davis, Davis, CA, USA (1)
Radiation Oncology; Weill Cornell medicine College; 1300 York Avenue; 10065, New York, New York, USA (1)
IBG-1: Biotechnology Forschungszentrum Juelich (1)
Stanford University - Assistant Professor (1)
MOE Key Laboratory of Biosystems Homeostasis & Protection, State Conservation Centre for Gene Resources of Endangered Wildlife, College of Life Sciences, Zhejiang University, Hangzhou 310058, P. R. China (1)
Proteomics Platform CIC bioGUNE Bizkaia Tech. Park Build. 800 48160 Derio (Spain) (1)
Histone Modifications Group Zentrallabor für Proteinanalytik BioMedical Center (Faculty of Medicine) Ludwig-Maximilians-University of Munich Großhadernerstr. 9 82152 Planegg-Martinsried GERMANY (1)
China University of Geosciences(Wuahn),Wuahn, China (1)
Dipartimento di Medicina Veterinaria, Università degli Studi di Milano, Milano, Italy (1)
CECAD Research Center Institute for Genome Stability in Aging and Disease University of Cologne (1)
Peking University Shenzhen Graduate School (1)

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Chemical proteomics of RID substrates

To globally profile the fatty-acylation substrate proteins of RID, we utilized the bioorthogonal chemical reporter Alk-16, an alkynyl-functionalized fatty acid analogue, to metabolically label fatty-acylated proteins in living cells. To identify the substrate proteins of RID, we sought to perform qu...

ORGANISM(S): Homo sapiens (Human)

2024-06-22 | PXD046500 | Pride

Rid Chemical proteomics

Metabolomics analysis of multiple metabolic functions in the YjgF/YER057c/UK114 (Rid) protein family LCMS

Not available

ORGANISM(S): Salmonella enterica;Escherichia coli

ST000119 | MetabolomicsWorkbench

Transcription profiling of mouse 3T3-MEFs derived from wild-type and SMRT RID mutants

SMRT (silencing mediator of retinoid and thyroid hormone receptors) is recruited by numerous transcription factors to mediate lineage and signal dependent transcriptional repression. We generated a knock-in mutation in the receptor interaction domain (RID) of SMRT (SMRTmRID) that solely disrupts it...

ORGANISM(S): Mus musculus

2009-01-18 | E-GEOD-13143 | biostudies-arrayexpress

SEPT6 affinity purification-mass spectrometry (AP-MS)

Septin proteins interact intermolecularly to form hetero-oligomeric complexes that further assemble into higher-order filaments. To investigate whether the interactions among septin proteins are affected by RID, we conducted affinity purification-mass spectrometry (AP-MS) experiments. In this regard...

ORGANISM(S): Homo sapiens (Human)

2024-06-22 | PXD046497 | Pride

Sept6 Rid Fatty-acylation

Expression data from 3T3-MEFs derived from wild-type and SMRT RID mutant mice

ORGANISM(S): Mus musculus

2009-01-07 | GSE13143 | GEO

Rid Enhances the 6-Hydroxypseudooxynicotine Dehydrogenase Reaction in Nicotine Degradation by Agrobacterium tumefaciens S33.

Not available

S-EPMC8091605 | biostudies-literature

Synthesis of BODIPY FL-tethered ridaifen-B, RID-B-BODIPY, and its localization in cancer cells.

Not available

S-EPMC11377228 | biostudies-literature