Clark S S - OmicsDI

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Unknown (6277)
Transcriptomics (821)
Proteomics (130)
Genomics (87)
Multiomics (14)
Metabolomics (13)
Models (4)
Genomic (1)
Other (1)

Organisms

Homo sapiens (365)
Mus musculus (258)
Drosophila melanogaster (42)
Saccharomyces cerevisiae (37)
Arabidopsis thaliana (36)
Rattus norvegicus (20)
Danio rerio (13)
Caenorhabditis elegans (10)
Bos taurus (8)
Sus scrofa (8)
Tetranychus urticae (6)
Zea mays (5)
Campylobacter jejuni (4)
Glycine max (4)
Gallus gallus (4)
Oryctolagus cuniculus (3)
Macaca mulatta (3)
Neurospora crassa (3)
Mycobacterium tuberculosis (3)
Solanum lycopersicum (3)
Oryza sativa Japonica Group (3)
Xenopus laevis (3)
Boehmeria nivea (2)
Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819 (2)
Hevea brasiliensis (2)
environmental samples (2)
Cryptopygus antarcticus (2)
Amphiura filiformis (2)
Harpagifer antarcticus (2)
cellular organisms (1)

Organisms

Saccharomyces cerevisiae (3)
Arabidopsis thaliana (3)
Proteromonas lacertae (1)
Cryolaternula elliptica (1)
Aphelocoma coerulescens (1)
Salmonella enterica subsp. enterica serovar Typhi (1)
Oryza sativa Japonica Group (1)
Homo sapiens (1)

Repository

biostudies-arrayexpress (872)
pride (78)
MassIVE (31)
EGA (25)
PeptideAtlas (16)
ENA (16)
MetaboLights (11)
BioModels (4)
GNPS (2)
PanoramaPublic (2)
dbGaP (1)
PAXDB (1)

Tissue

Cell culture (12)
Others (11)
Brain (5)
Epithelial cell (5)
Embryonic stem cell (4)
Plasma Non-glyco (3)
Blood (3)
HeLa cell (3)
Heart (3)
T cell (3)
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Kidney (2)
Leaf (2)
Lung (2)
Macrophage (2)
Melanocyte (2)
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Skin (2)
B cell (1)
Bone marrow (1)
Cerebrospinal fluid (1)
Dendritic cell (1)
Dental plaque (1)
Embryo (1)
Fibroblast (1)
Hippocampal neuron (1)
Keratinocyte (1)
Kidney proximal convoluted tubule epithelial cell (1)
Liver (1)
Lymph node (1)

Disease

HHV-6B infected (2)
Brain cancer (2)
Disease free (2)
Lymphoma (2)
XCGD (1)
Huntington's disease mouse model (1)
Metastatic colorectal cancer (1)
GIP-dependent Cushing's syndrome (1)
Osteosarcoma subtype fibroblastic (1)
Small cell lung carcinoma (1)
Glioblastoma (1)
Neuroblastoma (1)
Adult respiratory distress syndrome (1)
Alzheimer's disease (1)
Brain glioblastoma multiforme (1)
Fibrolamellar carcinoma (1)
Lung adenoma (1)
Melanoma (1)
Non-small cell lung carcinoma (1)
Prostate adenocarcinoma (1)
Prostate carcinoma (1)
Renal cell carcinoma (1)

Technology Type

Mass Spectrometry (78)
Shotgun proteomics (36)
Bottom-up proteomics (22)
Affinity purification coupled with mass spectrometry proteomics (13)
Mass spectrometry (10)
Data-dependent acquisition (6)
Gel-based experiment (3)
Data-independent acquisition (2)
SWATH MS (2)
Top-down proteomics (2)
Illumina Omni 2.5, Illiumina Omni 2.5 (1)
Illumina_Infinium_HumanMethylation450, Illumina_HumanHT-12v4 (1)
Mass spectrometry assay (1)
NMR spectroscopy (1)
All-ion fragmentation (1)
Chemical cross-linking coupled with mass spectrometry proteomics (1)
HDMSE (1)
RNA mass spectrometry (1)

Instrument Platform

Illumina NovaSeq 6000 (8)
Illumina HiSeq 4000 (8)
Q Exactive (7)
NextSeq 500 (6)
Q Exactive Plus (6)
Illumina HiSeq 2500 (5)
LTQ Orbitrap (5)
Orbitrap Fusion Lumos (4)
Illumina HiSeq 2000 (3)
Illumina NovaSeq X (2)
Illumina HiSeq 1500 (2)
SYNAPT G2-Si (2)
TSQ Altis (2)
Xevo G2 XS Tof (2)
Xevo G2-XS QTof (2)
Autoflex (2)
LTQ (2)
Orbitrap Ascend (2)
Orbitrap Exploris 480 (2)
Hamamatsu Nanozoomer S60 (1)
Agilent Tapestation 4200 (1)
ProScanArray Microarray Scanner [PerkinElmer] (1)
Illumina Genome Analyzer IIx (1)
418 [Affymetrix] (1)
Ion Torrent Proton (1)
HiSeq X Ten (1)
Illumina MiSeq (1)
NextSeq 550 (1)
Autoflex Speed LRF (1)
LTQ FT (1)

Publication Date

2015 (159)
2010 (151)
2012 (127)
2013 (118)
2014 (96)
2011 (71)
2016 (50)
2008 (37)
2009 (29)
2007 (25)
2024 (20)
2022 (20)
2021 (16)
2025 (15)
2020 (15)
2018 (15)
2023 (13)
2005 (10)
2026 (8)
2017 (6)
2019 (5)
2004 (5)
2006 (2)
2003 (1)

UNIPROT ID/AC

P07522 (1)
P10113 (1)
P11345 (1)
P21708 (1)
P25427 (1)
P35739 (1)
P36506 (1)
P47196 (1)
P47197 (1)
P47736 (1)
P50904 (1)
P63086 (1)
Q01986 (1)
Q62636 (1)
Q63484 (1)
Q63531 (1)
Q99MC6 (1)
Q9QX70 (1)
Q9QYV3 (1)
Q9Z1I1 (1)
Q9Z1I2 (1)
2711.XP_006464469.1 (1)
2711.XP_006464485.1 (1)
2711.XP_006464486.1 (1)
2711.XP_006465039.1 (1)
2711.XP_006465481.1 (1)
2711.XP_006465554.1 (1)
2711.XP_006465598.1 (1)
2711.XP_006465717.1 (1)
2711.XP_006465764.1 (1)

ENSEMBL ID

ENSG00000170477 (7)
ENSG00000229353 (3)
ENSRNOP00000009359 (1)
ENSG00000147251 (1)

CHEBI ID

CHEBI:15741 (6)
CHEBI:16449 (5)
CHEBI:32816 (5)
CHEBI:15428 (4)
CHEBI:15724 (4)
CHEBI:16027 (4)
CHEBI:16335 (4)
CHEBI:16411 (4)
CHEBI:16414 (4)
CHEBI:16704 (4)
CHEBI:16750 (4)
CHEBI:16811 (4)
CHEBI:17154 (4)
CHEBI:17368 (4)
CHEBI:17596 (4)
CHEBI:17724 (4)
CHEBI:17750 (4)
CHEBI:18012 (4)
CHEBI:18237 (4)
CHEBI:27897 (4)
CHEBI:28635 (4)
CHEBI:28867 (4)
CHEBI:29016 (4)
CHEBI:30769 (4)
CHEBI:30887 (4)
CHEBI:133530 (3)
CHEBI:14314 (3)
CHEBI:15318 (3)
CHEBI:15354 (3)
CHEBI:15356 (3)

Metabolite Name

Hypoxanthine (4)
Xanthine (4)
2-Hydroxycinnamic acid (3)
5-L-Glutamyl-L-alanine (3)
Adenosine (3)
Citramalic acid (3)
Isomaltose (3)
L-Arginine (3)
L-Histidine (3)
Maltose (3)
Pyrrolidine (3)
Succinate (3)
Uridine (3)
(R)-2,3-Dihydroxy-isovalerate (2)
(S)-3-Hydroxybutyric acid (2)
1-Aminocyclopropanecarboxylic acid (2)
1-Hexylglycerol (2)
1-methyladenosine (2)
1-methylhistamine (2)
1-methylhistidine (2)
2,5-Dimethyl-1H-pyrrole (2)
2-(1-Ethoxyethoxy)propanoic acid (2)
2-(Ethylamino)-4,5-dihydroxybenzamide (2)
2-Ethoxyethanol (2)
2-Hydroxymethylclavam (2)
2-Isopropylmalic acid (2)
2-Phenylethyl beta-D-glucopyranoside (2)
3,4-Dihydroxyphenylvaleric acid (2)
3-Hexanone (2)
3-Hydroxy-2-methyl-[S-(R,R)]-butanoic acid (2)

First Public Date

2014 (6)
2020 (2)
2010 (2)
2026 (1)
2023 (1)
2019 (1)
2018 (1)
2016 (1)
2013 (1)

Modelling Approach

Ordinary differential equation model (4)

Lab affiliation

Donnelly Centre for Cellular and Biomolecular Research, Department of Molecular Genetics, University of Toronto, Toronto, Ontario, Canada (10)
University of Dundee, School of Life Sciences (4)
Pathology - Lab & Genomic Medicine (LGM); Washington University School of Medicine (3)
Proteomics (3)
Max Planck Institute for the Science of Human Histoy, Department of Archaeology (2)
Astbury Centre for Structural Molecular Biology, Faculty of Biological Sciences, School of Molecular and Cellular Biology, University of Leeds, Leeds, United Kingdom, LS2 9JT (1)
BioBix, Lab for Bioinformatics and Computational Genomics, Ghent University, Belgium (1)
Boston College (1)
CIR, Queen’s Medical Research Institute, University of Edinburgh (1)
CRUK - Beatson Institute for Cancer Research - Switchback Rd, Bearsden, Glasgow G61 1BD - United Kingdom (1)
CRUK Beatson Institute, Switchback Road, Glasgow G61 1BD, UK. (1)
Cancer Program, Monash Biomedicine Discovery Institute, Clayton, VIC 3800, Australia. Department of Biochemistry and Molecular Biology, Monash University, Melbourne, VIC 3800, Australia. (1)
Cell Signalling and Immunology School of Life Sciences University of Dundee United Kingdom (1)
Centre for Inflammation Research, Queen’s Medical Research Institute, University of Edinburgh, Edinburgh, UK (1)
Centre for medicines discovery, University of Oxford (1)
Chinese Academy of Medical Science (CAMS) Oxford Institute (COI), University of Oxford; Oxford, U.K.; 3MRC Human Immunology Unit, MRC Weatherall Institute of Molecular Medicine, Radcliffe Department of Medicine, University of Oxford; Oxford, U.K. (1)
DZNE Munich Neuroproteomics Feodor-Lynen-Str. 17 81377 München Germany (1)
Department of Biochemistry and Cell Biology; Rice University; Houston, TX USA (1)
Department of Biochemistry and Molecular Genetics, School of Medicine, University of Colorado Anschutz Medical Campus, School of Medicine, Aurora, CO 80045 (1)
Department of Biochemistry, University of Washington, School of Medicine, Seattle, WA 98195, USA (1)
Department of Biological Engineering, Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States (1)
Department of Biomedicine, Aarhus University, Aarhus, Denmark STENO Diabetes Center Aarhus, Aarhus, Denmark (1)
Department of Food Science and Technology, University of Nebraska, Lincoln (1)
Department of Genetics and Development Herbert Irving Comprehensive Cancer Center Columbia University Irving Medical Center New York, NY, USA (1)
Department of Nutrition and Integrative Physiology, College of Health, University of Utah, UT 84112, USA Diabetes and Metabolism Research Center, University of Utah, UT 84112, USA (1)
Department of Oncology and Diagnostics Sciences University of Maryland School of Dentistry Baltimore, MD (1)
Department of Oncology and Pathology, Karolinska Institute and Science for Life Laboratory (1)
Department of Oncology, The Johns Hopkins University School of Medicine's Sidney Kimmel Comprehensive Cancer Center, Baltimore, MD, USA (1)
Department of Pathology, The Johns Hopkins University, Baltimore, MD, USA (1)
Department of Pharmacy and Biotechnology - University of Bologna (1)

IsPrivate

False (4)

Classification

bacteria (1)

Modification

Not available (3)
2x(15)N labeled L-lysine (1)
4 (1)
4x(15)N labeled L-arginine (1)

Study type

Transcription profiling by array (513)
RNA-seq of coding RNA (128)
Unknown experiment type (38)
ChIP-seq (31)
ChIP-chip by tiling array (30)
Comparative genomic hybridization by array (24)
RNA-seq of non coding RNA (23)
Methylation profiling by high throughput sequencing (14)
Other (13)
Methylation profiling by array (13)
Transcription profiling by SAGE (8)
Transcription profiling by tiling array (6)
RNA-seq of coding RNA from single cells (6)
Animal - High-throughput sequencing (5)
Genotyping by array (3)
Transcription profiling by RT-PCR (3)
ChIP-chip by array (2)
Proteomic profiling by array (2)
High-throughput sequencing (1)
Proteomic profiling by mass spectrometer (1)
Spatial transcriptomics by high-throughput sequencing (1)
Bisulfite-seq (1)
ATAC-seq (1)
DNA-seq (1)
Genotyping by high throughput sequencing (1)
RNA-seq of total RNA (1)

Release Date

2022 (689)
2021 (655)
2025 (620)
2023 (595)
2024 (580)
2020 (480)
2019 (435)
2015 (415)
2018 (363)
2016 (323)
2014 (303)
2017 (283)
2013 (270)
2012 (267)
2010 (246)
2011 (172)
2009 (108)
2008 (91)
2026 (85)
2007 (56)
2006 (27)
2005 (25)
2004 (21)
2003 (8)
2002 (7)
2001 (7)
1999 (6)
2000 (5)
1998 (4)
1997 (2)

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Adenosine-to-inosine RNA editing controls cathepsin S expression in atherosclerosis by enabling HuR-mediated post-transcriptional regulation

Adenosine-to-inosine (A-to-I) RNA editing, which is catalyzed by a family of adenosine deaminase acting on RNA (ADAR) enzymes, is important in the epitranscriptomic regulation of RNA metabolism. However, the role of A-to-I RNA editing in vascular disease is unknown. Here we show that cathepsin S mRN...

ORGANISM(S): Homo sapiens

2016-09-05 | E-GEOD-60217 | biostudies-arrayexpress

Observations of volatile organic and sulfur compounds in ambient air and health risk assessment near a paper mill in rural Idaho, U. S. A.

Not available

S-EPMC7644087 | biostudies-literature

Transcription profiling of S. cerevisiae response to the antifungal compound sampangine

Sampangine, a plant-derived alkaloid found in the Annonaceae family, exhibits strong inhibitory activity against the opportunistic fungal pathogens Candida albicans, Cryptococcus neoformans and Aspergillus fumigatus. In the present study, transcriptional profiling experiments coupled with the analy...

ORGANISM(S): Saccharomyces cerevisiae

2008-06-11 | E-GEOD-10073 | biostudies-arrayexpress

Estimating healthcare resource utilisation and cardiovascular events in people with high body mass index and established cardiovascular disease.

Not available

S-EPMC11965005 | biostudies-literature

CLARK: fast and accurate classification of metagenomic and genomic sequences using discriminative k-mers.

Not available

S-EPMC4428112 | biostudies-literature

Body Mass Index Progression, Development of Complications and Healthcare Costs Over 8 Years in UK Individuals Living With Overweight/Obesity.

Not available

S-EPMC12394339 | biostudies-literature

Translation and cultural adaption of MacLeod Clark professional identity scale among Chinese therapy students.

Not available

S-EPMC11774393 | biostudies-literature

YjbH contributes to S. aureus skin pathology and immune response through Agr-mediated alpha-toxin regulation

Staphylococcus aureus is a global health threat that can cause a multitude of diseases in many different areas of the body and is the leading cause of skin infections. This bacterium can produce a variety of proteins that contribute to virulence and disease progression. These virulence factors inclu...

ORGANISM(S): Staphylococcus Aureus Subsp. Aureus Usa300 (ncbitaxon:367830)

2024-05-14 | MSV000094753 | MassIVE

Reinstatement of Ticanto (Leguminosae-Caesalpinioideae) - the final piece in the Caesalpinia group puzzle.

Not available

S-EPMC9849013 | biostudies-literature

Specific and off-target immune responses following COVID-19 vaccination with ChAdOx1-S and BNT162b2 vaccines-an exploratory sub-study of the BRACE trial.

Not available

S-EPMC11058726 | biostudies-literature

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