McCarthy J J - OmicsDI

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Unknown (2220)
Genomics (52)
Proteomics (50)
Transcriptomics (43)
Models (19)
Metabolomics (3)
Genomic (1)
Multiomics (1)

Organisms

Homo sapiens (94)
Saccharomyces cerevisiae (23)
Mus musculus (14)
Glycine max (7)
Bos taurus (5)
Escherichia coli (5)
Rattus norvegicus (4)
Staphylococcus aureus (2)
Gallus gallus (2)
Phaeodactylum tricornutum (2)
Metallosphaera sedula DSM 5348 (1)
Oenococcus oeni (1)
Bombyx mori (1)
Lolium perenne (1)
Arabidopsis thaliana (1)
Macaca fascicularis (1)
Caenorhabditis elegans (1)
Candida albicans (1)
Drosophila melanogaster (1)
Equus caballus (1)
Phaeodactylum tricornutum CCAP 1055/1 (1)
Plasmodium falciparum 3D7 (1)
Schizosaccharomyces pombe 927 (1)

Repository

EGA (49)
biostudies-arrayexpress (48)
pride (43)
BioModels (19)
MassIVE (6)
MetaboLights (3)
dbGaP (1)
PanoramaPublic (1)

Tissue

Cell culture (11)
Permanent cell line cell (5)
Embryo (3)
Epithelial cell (3)
Blood (2)
Fibroblast (2)
Melanocyte (2)
T cell (2)
Adipose tissue (1)
Blood cell (1)
Bronchoalveolar lavage (1)
Bursa of Fabricius (1)
Colon (1)
Connective tissue (1)
Cumulus cell (1)
Early embryonic cell (1)
Embryonic stem cell (1)
Eye (1)
Head (1)
Kidney (1)
Mesenchymal cell (1)
Muscle (1)
Muscle cell (1)
Neural crest (1)
Neutrophil (1)
Ovary (1)
Plant cell (1)
Seed (1)
Somatic cell (1)
Striated muscle cell (1)

Disease

Melanoma (4)
Breast cancer (2)
Invasive ductal carcinoma (1)
Colon cancer (1)
Glaucoma (1)
Malignant neoplasm of ovary (1)
Parasitic infectious disease (1)
Plasmodium falciparum malaria (1)
Rhabdoid cancer (1)
Sarcoma (1)

Technology Type

Mass Spectrometry (43)
Shotgun proteomics (22)
Bottom-up proteomics (14)
Illumina 15K (8)
Affinity purification coupled with mass spectrometry proteomics (5)
Data-independent acquisition (5)
Mass spectrometry (3)
Gel-based experiment (3)
All-ion fragmentation (2)
Data-dependent acquisition (2)
SWATH MS (2)
Affymetrix 6.0 (1)
Illumina 1.2M, Affymetrix 6.0 (1)
Illumina 1.2M, Affymetrix 6.0, Affymetrix 6.0 - CHIAMO (1)
Illumina 1.2M, Illumina 610K Quad, Affymetrix 6.0 (1)
Illumina Genome Analyzer II (1)
Illumina HiSeq 2000, ILLUMINA, Illumina HiSeq 2500 (1)
Illumina HumanExome-12v1_A-GenCall, zCall, GenoSNP, - Illuminus (1)
Illumina_670k - Illuminus, Affymetrix 6.0, Illumina 1.2M (1)
Infinium_370k - GenomeStudio (1)
DiaPASEF (1)
Top-down proteomics (1)

Instrument Platform

Illumina HiSeq 2000 (6)
NextSeq 500 (4)
LTQ Orbitrap Velos (3)
Q Exactive (3)
Illumina NovaSeq 6000 (2)
Liquid Chromatography MS - positive - reverse phase (2)
TruSeq RNA Sample Preparation Kit (Illumina) (1)
Rneasy Plant Mini Kit (Qiagen) (1)
Illumina Genome Analyzer IIx (1)
Illumina HiSeq 2500 (1)
Illumina HiSeq 4000 (1)
Orbitrap Fusion (1)
Liquid Chromatography MS - Negative (LC-MS (Negative)) (1)
Liquid Chromatography MS - Positive (LC-MS (Positive)) (1)
Liquid Chromatography MS - negative - hilic (1)
Liquid Chromatography MS - negative - reverse phase (1)
Liquid Chromatography MS - positive - hilic (1)
LCQ Deca XP Plus (1)

Publication Date

2005 (22)
2014 (11)
2016 (9)
2012 (9)
2022 (8)
2021 (8)
2017 (8)
2015 (6)
2011 (6)
2024 (6)
2023 (5)
2020 (4)
2019 (3)
2010 (3)
2008 (3)
2013 (2)
2026 (2)
2025 (2)
2009 (1)
2006 (1)
2018 (1)

UNIPROT ID/AC

P31688 (13)
P32861 (13)
P33401 (13)
P37012 (13)
Q00764 (13)

CHEBI ID

CHEBI:15343 (19)
CHEBI:15361 (19)
CHEBI:15422 (19)
CHEBI:15846 (19)
CHEBI:16001 (19)
CHEBI:16027 (19)
CHEBI:16084 (19)
CHEBI:16108 (19)
CHEBI:16236 (19)
CHEBI:16551 (19)
CHEBI:16761 (19)
CHEBI:16908 (19)
CHEBI:17665 (19)
CHEBI:17754 (19)
CHEBI:17794 (19)
CHEBI:17835 (19)
CHEBI:18021 (19)
CHEBI:28013 (19)
CHEBI:28602 (19)
CHEBI:29052 (19)
CHEBI:30031 (19)
CHEBI:4167 (19)
CHEBI:15978 (15)
CHEBI:16077 (13)
CHEBI:17659 (13)
CHEBI:18066 (13)
CHEBI:18283 (13)
CHEBI:46398 (13)
CHEBI:30089 (12)
CHEBI:28087 (6)

Metabolite Name

(+)-2,7-Dideoxypancratistatin (1)
(+)-Alantolactone (1)
(+)-Procyanidin B2 (1)
(+)-Riboflavin (1)
(+)-abscisic acid beta-D-glucopyranosyl ester (1)
(+)-syringaresinol (1)
(+/-)-Camphoric acid (1)
(-)-2,3-Dehydroemetine (1)
(-)-Abscisic acid (1)
(-)-Caryophyllene oxide (1)
(-)-Febrifugine (1)
(-)-Lupinine (1)
(-)-Rhododendrin (1)
(-)-Santiaguine (1)
(-)-Vindoline (1)
(10E,12Z)-9-Hydroperoxy-10,12-octadecadienoic acid (1)
(10Z)-heptadecenoic acid (1)
(12-Methyl-7-tetraphenyl)methyl hydrogen sulfate (1)
(17beta)-4,4-Difluoro-17-hydroxy-17-methylandrost-5-en-3-one (1)
(1E)-1-(Propylsulfanyl)-1-propene (1)
(1E)-1-{[1-(Methyldisulfanyl)propyl]sulfinyl}-1-propene (1)
(1S)-1-Carboxy-2-(1H-imidazol-4-yl)-N,N,N-trimethylethanaminium (1)
(1S,2R,5S)-2-Isopropyl-5-methylcyclohexyl 3-oxobutanoate (1)
(1S,4S)-menthone-8-thioacetate (1)
(1S,4aS)-1,4a-Dimethyl-1,2,3,4,4a,5,6,8a-octahydronaphthalene (1)
(1S,6S)-6-Aminooctahydro-1-indolizinyl acetate (1)
(2,7-Dimethyloctahydro-1H-cyclopenta[c]pyridin-4-yl)methanol (1)
(2-Amino-2-carboxyethyl)selanyl (1)
(2-Chlorophenyl)diphenylmethanol (1)
(2-Hydroxy-2-oxido-1,3,2-dioxaphospholan-4-yl)methyl palmitate (1)

IsPrivate

False (19)

Modelling Approach

Ordinary differential equation model (19)

Modification

Not available (2)

Study type

Transcription profiling by array (17)
RNA-seq of coding RNA (15)
Comparative genomic hybridization by array (3)
RNA-seq of coding RNA from single cells (3)
RNA-seq of non coding RNA (3)
ChIP-seq (2)
Animal - High-throughput sequencing (1)
Cell line - High-throughput sequencing (1)
Methylation profiling by high throughput sequencing (1)

Release Date

2022 (242)
2021 (226)
2023 (204)
2020 (178)
2024 (177)
2025 (160)
2019 (131)
2018 (129)
2015 (112)
2017 (109)
2014 (103)
2016 (99)
2012 (70)
2013 (68)
2011 (68)
2010 (57)
2009 (41)
2026 (30)
2008 (20)
2007 (19)
2006 (12)
2002 (4)
2005 (3)
1999 (2)
2004 (1)
2003 (1)
2001 (1)
2000 (1)

Lab affiliation

Crick-GSK LinkLabs, UK (3)
Institute of Cancer Research, Division of Cancer Biology, 237 Fulham Road, London SW3 6JB, UK. (3)
Tumor Biology Department Molecular Medicine Program Moffitt Cancer Center Tampa, FL, USA (3)
Basic Sciences, College of Veterinary Medicine (2)
Computational Systems Biochemistry Research Group, Max-Planck Institute of Biochemistry, Am Klopferspitz 18, 82152 Martinsried, Germany (2)
Scripps Institution of Oceanography, University of California (2)
Sequence database group (2)
Structural Biology Group, European Synchrotron Radiation Facility (ESRF), Grenoble, France (2)
Biomolecular Mass Spectrometry and Proteomics, Utrecht University (1)
Bristol Myers Squibb (1)
Centre for Cancer Biology, University of South Australia and SA Pathology, Adelaide, Australia (1)
Church Lab, Department of Genetics, Harvard Medical School, Boston, USA (1)
Department of Genetics, Department of Radiation Oncology, Cancer Genomics Netherlands, Erasmus Medical Center Cancer Institute, Rotterdam, The Netherlands (1)
Department of Ophthalmology, Casey Eye Institute, Oregon Health & Science University, Portland, OR, USA (1)
Department of Physiology, University of Kentucky, USA (1)
Department of Veterinary Biosciences, The University of Melbourne (1)
Director Adelaide Proteomics Centre, School of Biological Sciences Deputy Director, The Institute for Photonics & Advanced Sensing (IPAS), School of Physical Sciences The University of Adelaide Adelaide, South Australia, Australia, 5005 (1)
Division of Cancer Biology, Institute of Cancer Research, 237 Fulham Road, London SW3 6JB, UK. (1)
Genome Regulation, Friedrich Miescher Institute for Biomedical Research, Basel, Switzerland (1)
LSMP Institut Curie FRANCE (1)
Leader of the Molecular and Systems Oncology Team in the Division of Molecular Pathology at The Institute of Cancer Research, London, UK (1)
Molecular Structure of Cell Signalling Laboratory, The Francis Crick Institute, United Kingdom (1)
Molecular and Systems Oncology Laboratory Division of Molecular Pathology The Isntitute of Cancer Research London, United Kingdom (1)
Professor , department of Laboratory Medicine and pathology, Mayo Clinic (1)
Protein Networks, The Institute of Cancer Research, Division of Cancer Biology, 237 Fulham Road, London, SW3 6JB, UK (1)
Richard Dimbleby Laboratory of Cancer Research, School of Cancer & Pharmaceutical Sciences, King's College London, London, UK. UCL Cancer Institute, University College London, London, United Kingdom. Cancer Research UK City of London Centre. GSK (1)
School of Molecular and Cellular Biology, Faculty of Biological Sciences, University of Leeds, LS2 9JT, UK. (1)
The Australian Wine Research Institute (1)
The Novo Nordisk Foundation Center for Protein Research, Faculty of Health Sciences, University of Copenhagen, Dept. of Proteomics and Cell Signaling (1)
Tumor Biology Moffitt Cancer Center Tampa, FL, USA (1)

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A Synergistic Approach to Atmospheric Water Scavenging.

Not available

S-EPMC10032561 | biostudies-literature

Excitable neurons, firing threshold manifolds and canards.

Not available

S-EPMC3819701 | biostudies-literature

Lithium-response pathway in hiPSCs implicates the phosphoregulatory set-point for a cytoskeletal

Tobe BTD, Crain AM, Winquist AM, Calabrese B, Makihara H, Zhao W, Lalonde J, Nakamura H, Konopaske G, Sidor M, Pernia C, Yamashita N, Wada M, Inoue Y, Nakamura F, Sheridan SD, Logan R, Brandel M, Wu D, Hunsberger J, Dorsett L, Duerr C, Basa RCB, McCarthy MJ, Udeshi N, Mertins P, Carr SA, Rouleau G, ...

ORGANISM(S): Homo Sapiens (ncbitaxon:9606)

2017-04-21 | MSV000080975 | MassIVE

Considering sex as a biological variable in preclinical research.

Not available

S-EPMC6191005 | biostudies-literature

Epigenome-wide association of DNA methylation markers in peripheral blood from Indian Asians and Europeans with incident type 2 diabetes: a nested case-control study.

Not available

S-EPMC4724884 | biostudies-literature

Endothelial microparticles prevent lipid-induced endothelial damage via Akt/eNOS signaling and reduced oxidative stress.

Not available

S-EPMC5714503 | biostudies-literature

Generation of an antibody recognizing a set of acetylated proteins, including subunits of BAF complexes.

Not available

S-EPMC7261705 | biostudies-literature

RNA-seq of hypoxic and normoxic soybean roots (cultivars: Embrapa 45 and BR 4)

RNA-sequencing of twelve treatments: two cultivars (Embrapa 45 and BR 4), two oxygen conditions [fully aerobic state (normoxy) and hypoxic], and three treatment sampling times (0.5h, 4h, and 28h). For each of twelve treatments, equimolar quantities of purified total RNA from roots of twelve plants [...

ORGANISM(S): Glycine max

2017-11-21 | E-MTAB-5709 | biostudies-arrayexpress

Factors associated with toileting disability in older adults without dementia living in residential care facilities.

Not available

S-EPMC3947551 | biostudies-literature

Proteomic Analysis of Post-hatch Bursa of Fabricius

Duplicate samples of bursal B- and stroma cells were isolated from four 21-day-old Ross 508 chickens as described (McCarthy, Burgess et al, 2005) except that we kept the stromal cells that do not pass through sterile gauze. Samples were analysed by DDF-MudPIT and the resulting spectra searched again...

ORGANISM(S): Gallus gallus (Chicken)

2005-08-21 | PRD000755 | Pride

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