McCarthy A A - OmicsDI

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Unknown (4191)
Transcriptomics (115)
Genomics (79)
Proteomics (70)
Models (20)
Genomic (12)
Metabolomics (4)
Multiomics (1)

Organisms

Homo sapiens (129)
Mus musculus (46)
Saccharomyces cerevisiae (28)
Glycine max (7)
Rattus norvegicus (7)
Bos taurus (5)
Escherichia coli (5)
Staphylococcus aureus (4)
Gallus gallus (4)
Danio rerio (3)
Arabidopsis thaliana (3)
Aplysia californica (2)
Equus caballus (2)
Gadus morhua (2)
Caenorhabditis elegans (2)
Phaeodactylum tricornutum (2)
Plasmodium falciparum 3D7 (2)
Salmo salar (2)
Metallosphaera sedula DSM 5348 (1)
Metallosphaera sedula (1)
Boreogadus saida (1)
Oenococcus oeni (1)
Bombyx mori (1)
Salmonella enterica subsp. enterica serovar Enteritidis (1)
Lolium perenne (1)
Zea mays (1)
Pseudomonas aeruginosa PAO1 (1)
Macaca fascicularis (1)
Candida albicans (1)
Drosophila melanogaster (1)

Organisms

Mus musculus (6)
Acinetobacter baumannii AB5075 (5)
Homo sapiens (2)
Acinetobacter baumannii AB0057 (1)
Gadus morhua (1)
Escherichia coli str. K-12 substr. MG1655 (1)
Pseudomonas aeruginosa (1)

Repository

biostudies-arrayexpress (116)
pride (62)
EGA (55)
BioModels (20)
ENA (19)
dbGaP (12)
MassIVE (7)
geo (6)
MetaboLights (4)
PanoramaPublic (1)

Tissue

Cell culture (15)
Permanent cell line cell (6)
Blood (5)
Epithelial cell (4)
Embryo (3)
Embryonic stem cell (3)
Cell line cell (2)
Cell suspension culture (2)
Fibroblast (2)
Gill (2)
Kidney (2)
Melanocyte (2)
T cell (2)
Adipose tissue (1)
B cell (1)
Blood cell (1)
Blood serum (1)
Brain (1)
Bronchoalveolar lavage (1)
Colon (1)
Connective tissue (1)
Cumulus cell (1)
Early embryonic cell (1)
Endothelial cell of hepatic sinusoid (1)
Erythrocyte (1)
Eye (1)
Head (1)
Leukocyte (1)
Liver (1)
Macrophage (1)

Disease

Melanoma (4)
Breast cancer (2)
Parasitic infectious disease (2)
Plasmodium falciparum malaria (2)
Mild hyperglycemia (1)
Mild hyperglycemia, liver dysfunction, and renal glycosuria (1)
Invasive ductal carcinoma (1)
Cardiovascular system disease (1)
Colon cancer (1)
Glaucoma (1)
Malignant neoplasm of ovary (1)
Multiple myeloma (1)
Pancreatic cancer (1)
Pancreatic ductal adenocarcinoma (1)
Rhabdoid cancer (1)
Sarcoma (1)
Type 1 diabetes mellitus (1)
Wounds and Injuries (1)

Technology Type

Mass Spectrometry (62)
Shotgun proteomics (34)
Bottom-up proteomics (19)
Illumina 15K (8)
Affinity purification coupled with mass spectrometry proteomics (7)
Data-independent acquisition (7)
Data-dependent acquisition (5)
Mass spectrometry (3)
Gel-based experiment (3)
SWATH MS (3)
All-ion fragmentation (2)
DiaPASEF (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 (1)
Illumina HiSeq 2000, ILLUMINA, Illumina HiSeq 2500 (1)
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)
Mass spectrometry assay (1)
Top-down proteomics (1)

Instrument Platform

Illumina HiSeq 2000 (13)
Illumina HiSeq 4000 (6)
NextSeq 500 (6)
Illumina NovaSeq 6000 (3)
LTQ Orbitrap Velos (3)
Q Exactive (3)
Illumina HiSeq 2500 (2)
Liquid Chromatography MS - positive - reverse phase (2)
Ultracentrifuge (1)
TruSeq RNA Sample Preparation Kit (Illumina) (1)
Rneasy Plant Mini Kit (Qiagen) (1)
Spectronic Helios Alpha UV-Vis spectrophotometer (1)
Illumina Genome Analyzer IIx (1)
Illumina NovaSeq X (1)
LTQ Velos (1)
Orbitrap Fusion (1)
Liquid Chromatography MS - Negative (LC-MS (Negative)) (1)
Liquid Chromatography MS - Positive (LC-MS (Positive)) (1)
Liquid Chromatography MS - alternating - hilic (1)
Liquid Chromatography MS - alternating - reverse-phase (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 (21)
2015 (21)
2021 (19)
2014 (19)
2016 (16)
2024 (11)
2022 (11)
2017 (11)
2012 (11)
2023 (9)
2013 (9)
2011 (9)
2009 (8)
2008 (8)
2020 (6)
2019 (6)
2026 (6)
2025 (4)
2018 (4)
2010 (4)
2007 (2)
2006 (1)

UNIPROT ID/AC

P31688 (13)
P32861 (13)
P33401 (13)
P37012 (13)
Q00764 (13)
P02994 (1)
P04147 (1)
P05453 (1)
P06103 (1)
P06634 (1)
P07260 (1)
P09032 (1)
P09064 (1)
P10081 (1)
P12385 (1)
P12754 (1)
P14741 (1)
P16521 (1)
P20459 (1)
P29547 (1)
P32324 (1)
P32471 (1)
P32481 (1)
P32497 (1)
P32501 (1)
P32502 (1)
P32911 (1)
P34167 (1)
P36008 (1)
P38249 (1)

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)

First Public Date

2020 (4)
2025 (3)
2021 (3)
2026 (2)
2024 (2)
2023 (1)
2022 (1)
2019 (1)
2018 (1)
2014 (1)

Modelling Approach

Ordinary differential equation model (20)

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)
College of Life Sciences, University of Dundee (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)
Structural Biology Group, European Synchrotron Radiation Facility (ESRF), Grenoble, France (2)
1School of Biological Sciences, Nanyang Technological University, 60 Nanyang Drive, Singapore, 637551, Singapore (1)
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 Biopharmaceutical & Medical Science,School of Science & Computing,Galway Mayo Institute of Technology, Dublin Rd, Galway, Ireland (1)
Department of Cellular & Molecular Medicine, University of Ottawa, Ottawa, Ontario, Canada Ottawa Institute of Systems Biology, University of Ottawa, Ottawa, Ontario, Canada (1)
Department of Genetics, Department of Radiation Oncology, Cancer Genomics Netherlands, Erasmus Medical Center Cancer Institute, Rotterdam, The Netherlands (1)
Department of Medical Biology, Faculty of Health Sciences, UiT The Arctic University of Norway, Tromsø, Norway (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)
Deputy Head (Research), Department of Biochemistry and Molecular Biology Head Immunoproteomics Laboratory Infection and Immunity Program Room 214, level 2, 15 Innovation Walk Monash Biomedicine Discovery Institute Monash University, Clayton Campus Clayton 3800 Victoria Australia (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)
Group Leader, Cell Atlas (1)
Group Leader, Quantitative Cell Science, Chan Zuckerberg Biohub San Francisco, Ca, USA (1)
Hematology, Department of Translational and Precision Medicine, Sapienza University, Rome, Italy. (1)
Knight Cancer Institute Oregon Health & Science University Portland, OR 97239 USA (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)

IsPrivate

False (20)

Classification

bacteria (8)

Modification

Not available (1)

Study type

Transcription profiling by array (49)
RNA-seq of coding RNA (33)
Comparative genomic hybridization by array (7)
RNA-seq of coding RNA from single cells (5)
RNA-seq of non coding RNA (5)
Methylation profiling by high throughput sequencing (3)
ChIP-seq (2)
Methylation profiling by array (2)
RNA-seq of total RNA (2)
Translation profiling (1)
Animal - High-throughput sequencing (1)
Cell line - High-throughput sequencing (1)
RNAi profiling by array (1)
ChIP-chip by array (1)
ATAC-seq (1)

Release Date

2021 (433)
2022 (431)
2023 (384)
2024 (342)
2020 (334)
2025 (320)
2019 (283)
2018 (242)
2017 (238)
2015 (219)
2016 (201)
2014 (165)
2013 (126)
2012 (115)
2011 (106)
2010 (82)
2009 (74)
2026 (59)
2008 (51)
2007 (35)
2006 (21)
2002 (11)
2004 (10)
2005 (8)
2001 (6)
2003 (4)
2000 (3)
1999 (3)
1998 (1)

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A general non-self response as part of plant immunity

Plants, like other multicellular lifeforms, are colonized by microorganisms. How plants respond to their microbiota is currently not well understood. We used a phylogenetically diverse set of 39 endogenous bacterial strains from Arabidopsis thaliana leaves to assess host transcriptional and metaboli...

2021-09-13 | MTBLS2522 | MetaboLights

Self-reported COVID-19 severity among persons with tuberculosis infection in western Kenya, 2021.

Not available

S-EPMC12043119 | biostudies-literature

MicroRNA expression in rat soleus muscle during atrophy induced by hindlimb suspension

The objective of the study was to identify microRNAs expressed in the rat soleus muscle and determine if their expression was changed in response to hindlimb suspension. The microRNA expression profile (Sanger miRBase 9.0) of the rat soleus muscle was determined in the following three groups: contro...

ORGANISM(S): Rattus norvegicus

2009-08-25 | E-GEOD-17776 | biostudies-arrayexpress

Health Care Segregation, Physician Recommendation, and Racial Disparities in BRCA1/2 Testing Among Women With Breast Cancer.

Not available

S-EPMC5012689 | biostudies-literature

Heart rate dynamics during cardio-pulmonary exercise testing are associated with glycemic control in individuals with type 1 diabetes.

Not available

S-EPMC5880363 | biostudies-literature

Health sciences librarian competency perceptions: a survey of national community college librarians.

Not available

S-EPMC7772980 | biostudies-literature

MiRNA expression in adipose tissue and liver from a spontaneous rat model of Type 2 diabetes

MicroRNAs (miRNAs) are non-coding RNA molecules involved in post-transcriptional control of gene expression of a wide number of genes, including those involved in glucose homeostasis. Type 2 diabetes (T2D) is characterized by hyperglycaemia and defects in insulin secretion and action at target tissu...

ORGANISM(S): Rattus norvegicus

2010-05-16 | E-GEOD-17058 | biostudies-arrayexpress

Protrusion vs Cell-body SILAC proteomics

In mesenchymal-like cell migration, cells need to polarise into a protrusive front and a retracting cell body. To understand this process better, we set out to quantify the distribution of cellular proteins between protrusions and cell-body by proteomics, using MDA-MB-231 cells, a highly invasive br...

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

2016-03-10 | MSV000079570 | MassIVE

Exploring deprescribing opportunities for community pharmacists: Protocol for a qualitative study.

Not available

S-EPMC6141936 | biostudies-literature

Chickspress: a resource for chicken gene expression

Red Jungle Fowl (male and female) tissues were analyzed using LC-MS/MS. Tissues analyzed were: adipose, adrenal gland, breast muscle, cerebellum, cerebrum, gonad, heart, hypothalamus, kidney, liver, lung, pancreas, proventriculus, sciatic nerve, speen. Samples were analyzed using an LTQ Velos Pro ...

ORGANISM(S): Gallus Gallus (ncbitaxon:9031)

2016-11-07 | MSV000080320 | MassIVE

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4493 Results

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