Johnson N L NL - OmicsDI

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Unknown (394)
Proteomics (38)
Metabolomics (9)
Transcriptomics (8)

Organisms

Homo sapiens (26)
Mus musculus (8)
Saccharomyces cerevisiae (3)
Drosophila melanogaster (2)
Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821 (1)
Macaca mulatta (1)
Candida albicans (1)
Aeropyrum pernix (1)
Bat coronavirus RaTG13 (1)
Bombus terrestris (1)
Cereibacter sphaeroides 2.4.1 (1)
Chlorocebus aethiops (1)
Chlorocebus sabaeus (1)
Escherichia coli (1)
Halothiobacillus neapolitanus c2 (1)
Penaeus vannamei (1)
Pichia kudriavzevii (1)
Severe acute respiratory syndrome coronavirus 2 (1)

Repository

pride (37)
MetaboLights (9)
biostudies-arrayexpress (8)
MassIVE (1)

Tissue

Cell culture (9)
Epithelial cell (5)
Cell suspension culture (4)
Brain (2)
Cell line cell (2)
Lung (2)
Monocyte (2)
Adipose tissue (1)
B cell (1)
Blood serum (1)
Cerebrospinal fluid (1)
Colon (1)
Endometrial cancer cell line (1)
Fibroblast (1)
Gastrointestinal stromal tumor cell (1)
HeLa cell (1)
Hemolymph (1)
Kidney (1)
Neuron (1)
Pancreas (1)
Photosynthetic cell (1)
Primary cell (1)
Skin (1)
Spleen (1)
T cell (1)
Type B pancreatic cell (1)

Disease

Disease free (4)
Avian influenza (2)
COVID-19 (2)
Influenza (2)
Alzheimer's disease (1)
Breast cancer (1)
Cancer (1)
Down syndrome (1)
Endometrial cancer (1)
Global developmental delay (1)
Inflammatory bowel disease (1)
Metabolic dysfunction-associated steatotic liver disease (1)
Severe acute respiratory syndrome (1)

Technology Type

Mass Spectrometry (37)
Shotgun proteomics (17)
Bottom-up proteomics (10)
Mass spectrometry (7)
Affinity purification coupled with mass spectrometry proteomics (6)
Data-dependent acquisition (5)
Gel-based experiment (5)
Data-independent acquisition (4)
Mass spectrometry assay (1)
NMR spectroscopy (1)
All-ion fragmentation (1)
Immunopeptidomics (1)
Top-down proteomics (1)

Instrument Platform

Liquid Chromatography MS - positive - reverse phase (5)
Q-Exactive HF-X (1)
Liquid Chromatography MS - (1)
Liquid Chromatography MS - positive (1)
Nuclear Magnetic Resonance (NMR) - (1)
Xevo G2 QTOF (Waters) (1)

Publication Date

2023 (14)
2024 (7)
2026 (5)
2025 (5)
2012 (4)
2020 (4)
2021 (4)
2015 (3)
2014 (2)
2013 (2)
2019 (2)
2022 (1)
2018 (1)
2017 (1)

CHEBI ID

CHEBI:16359 (3)
CHEBI:16811 (3)
CHEBI:27432 (3)
CHEBI:28865 (3)
CHEBI:35038 (3)
CHEBI:73858 (3)
CHEBI:116314 (2)
CHEBI:139138 (2)
CHEBI:143745 (2)
CHEBI:143757 (2)
CHEBI:15354 (2)
CHEBI:16335 (2)
CHEBI:16551 (2)
CHEBI:16737 (2)
CHEBI:16755 (2)
CHEBI:17295 (2)
CHEBI:173703 (2)
CHEBI:17687 (2)
CHEBI:18257 (2)
CHEBI:182784 (2)
CHEBI:195271 (2)
CHEBI:25094 (2)
CHEBI:27997 (2)
CHEBI:28610 (2)
CHEBI:28716 (2)
CHEBI:34494 (2)
CHEBI:34687 (2)
CHEBI:4676 (2)
CHEBI:64563 (2)
CHEBI:73054 (2)

Metabolite Name

Cholic acid (3)
Methionine (3)
Tris(2-butoxyethyl) phosphate (3)
(2S,3S,4S,5R,6R)-6-[[(3S,4S,6aR,6bS,8aR,9R,12aS,14bR)-9-hydroxy-4-(hydroxymethyl)-4,6a,6b,8a,11,11,14b-heptamethyl-1,2,3,4a,5,6,7,8,9,10,12,12a,14,14a-tetradecahydropicen-3-yl]oxy]-5-[(2S,3R,4S,5R,6R)-4,5-dihydroxy-6-(hydroxymethyl)-3-[(2S,3R,4R,5R,6S)-3,4,5-trihydroxy-6-methyloxan-2-yl]oxyoxan-2-yl]oxy-3,4-dihydroxyoxane-2-carboxylic acid (2)
1-({[2-(2-furylmethyl)-5-methylpyrrolidinyl]amino}methylene)-7-[8-({[2-(2-fury lmethyl)pyrrolidinyl]amino}methylene)-1,6-dihydroxy-3-methyl-5-(methylethyl)-7 -oxo(2-naphthyl)]-3,8-dihydroxy-6-methyl-4-(methylethyl)naphthalen-2-one (2)
1-Stearoyl-2-hydroxy-sn-glycero-3-phosphocholine (2)
2,6-Di-tert-butyl-4-hydroxymethylphenol (2)
9(10)-EpOME (2)
AMP (2)
Adenosine (2)
Alpha-linolenic acid|linolenic acid|(9Z,12Z,15Z)-octadeca-9,12,15-trienoic acid (2)
Chenodeoxycholic acid (2)
Choline (2)
Creatinine (2)
Dibutyl phthalate (DBP) (2)
Dodecanedioic acid (2)
Elaidic acid (2)
Glycocholic acid (2)
L-Phenylalanine (2)
Lysine (2)
Lyso-PC(16:0) (2)
Monoolein (2)
NCGC00385123-01_C22H30O6_7b,9-Dihydroxy-3-(hydroxymethyl)-1,1,6,8-tetramethyl-5-oxo-1,1a,1b,4,4a,5,7a,7b,8,9-decahydro-9aH-cyclopropa[3,4]benzo[1,2-e]azulen-9a-yl acetate (2)
Ornithine (2)
Taurocholic acid (2)
(R)-4-((3R,4R,5S,8S,9S,10R,13R,14S,17R)-3,4-dihydroxy-10,13-dimethylhexadecahydro-1H-cyclopenta[a]phenanthren-17-yl)pentanoic acid (1)
(R)-4-((3R,5S,7R,8R,9S,10S,12S,13R,14S,17R)-3,7,12-trihydroxy-10,13-dimethylhexadecahydro-1H-cyclopenta[a]phenanthren-17-yl)pentanoic acid (1)
1,2-dilinoleoyl-sn-glycero-3-phosphocholine (1)
1,2-dioleoyl-sn-glycero-3-phosphocholine|1,2-dipetroselenoyl-sn-glycero-3-phosphocholine (1)
1,2-dipalmitoleoyl-sn-glycero-3-phosphocholine (1)

Modification

2x(15)N labeled L-lysine (1)
4x(15)N labeled L-arginine (1)

Study type

Transcription profiling by array (4)
Other (3)
RNA-seq of coding RNA (1)

Release Date

2021 (44)
2018 (44)
2024 (37)
2022 (37)
2023 (31)
2013 (25)
2025 (25)
2012 (22)
2015 (21)
2020 (16)
2014 (15)
2017 (14)
2010 (14)
2019 (13)
2016 (12)
2009 (10)
2011 (9)
2026 (6)
2008 (4)
2007 (2)
2003 (1)

Lab affiliation

Molecular Biology and the Lewis-Sigler Institute for Integrative Genomics, Princeton University, USA (2)
1.Department of Medical Oncology, Inselspital, Bern University Hospital, University of Bern, 3010 Bern, Switzerland. 2.Department for BioMedical Research, University of Bern, 3008 Bern, Switzerland. 3. Conway Institute for Biomolecular and Biomedical Research, University College Dublin, Dublin D04 V1W8, Ireland. (1)
Biology Department, College of Charleston, SC, USA (1)
Cambridge Centre for Proteomics Department of Biochemistry University of Cambridge (1)
Cancer Biology Department, Fox Chase Cancer Center, Philadelphia, PA, USA (1)
Cell Biology and Physiology, University of North Carolina at Chapel Hill, North Carolina, USA (1)
Center for Alzheimer's and Related Dementias (CARD), NIA and NINDS, NIH, Bethesda, Maryland, USA. (1)
Copenhagen Center for Glycomics (CCG), Department of Cellular and Molecular Medicine, University of Copenhagen, Denmark (1)
Department of Biochemistry and Molecular and Structural Bilogy, Jozef Stefan Institute, Ljubljana, Slovenia (1)
Department of Biochemistry, Albert Einstein College of Medicine, Bronx, NY 10461, USA (1)
Department of Medicine, Weill Cornell Medicine, New York, NY, USA (1)
Dept. Cellular Molecular Pharmacology, University of California - San Francisco (UCSF), USA (1)
Dept. Cellular Molecular Pharmacology, University of San Francisco (UCSF), USA (1)
Division of Product Quality Research 4, Office of Product Quality Research, Office of Product Quality, Center for Drug Evaluation and Research, U.S. Foodand Drug Administration, Silver Spring, Maryland, USA (1)
Icahn School of Medicine at Mount Sinai (1)
Imperial College London and Université de Montréal (1)
Institute for Cardiovascular Regeneration, Centre for Molecular Medicine, Goethe University Frankfurt am Main, Germany (1)
Institute of Systems, Molecular and Integrative Biology University of Liverpool Liverpool UK (1)
Laboratory of Immunogenetics, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Rockville, MD, USA (1)
Markus M. Rinschen Associate Professor Department of Biomedicine Aarhus University DK-8000C Aarhus (1)
Max Planck Institute of Immunobiology and Epigenetics Freiburg, Germany (1)
Maynooth University Department of Biology Maynooth University, Maynooth, Co. Kildare, Ireland. (1)
Mead Johnson Nutrition (1)
Medicity Research Laboratories and Institute of Biomedicine, Faculty of Medicine, University of Turku, Finland Turku Bioscience Center, University of Turku and Åbo Akademi University, Finland (1)
Michael L. Gatza, PhD Principal Investigator Assistant Professor of Radiation Oncology Robert Wood Johnson Medical School Rutgers Cancer Institute of New Jersey Rutgers, The State University of New Jersey (1)
Molecular Biology and Lewis-Sigler Institute for Intergrative Genomics, Princeton University, USA (1)
Molecular Therapeutics Program, Fox Chase Cancer Center, Philadelphia, PA, USA (1)
Professor of Genome Stability, Genome Damage and Stability, School of Life Sciences, University of Sussex. Brighton. BN1 9RH. (1)
Quantitative Biosciences Institute (QBI), University of California, San Francisco, San Francisco, CA USA J. David Gladstone Institutes, San Francisco, San Francisco, CA, USA Department of Bionengineer and Therapeutic Sciences, University of California, San Francisco, San Francisco, CA, USA (1)
Sant Pau Memory Unit, Department of Neurology, Hospital de la Santa Creu i Sant Pau, Biomedical Research Institute Sant Pau (IIB Sant Pau), Universitat Autònoma de Barcelona, Barcelona, Spain (1)

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Metabolic profiling of Candida clinical isolates of different species and infection sources

Candida species are the most common cause of opportunistic fungal infections. Rapid identification and novel approaches for the characterization of these fungi are of great interest to improve the diagnosis and the knowledge about their pathogenic properties. This study aimed to characte...

2024-07-09 | MTBLS1978 | MetaboLights

Randomized Trial of Lenalidomide Alone Versus Lenalidomide Plus Rituximab in Patients With Recurrent Follicular Lymphoma: CALGB 50401 (Alliance).

Not available

S-EPMC4622102 | biostudies-literature

Human milk whey proteins treated Caco-2 cells

Human milk whey proteins facilitate the development of enterocyte-like Caco-2 cells over time.

ORGANISM(S): Homo sapiens (Human)

2015-11-23 | PXD002121 | Pride

The EZH2 inhibitor tazemetostat mitigates HIV immune evasion, reduces reservoir formation, and promotes durable CD8⁺ T-cell revitalization

Persistent HIV reservoirs in CD4⁺ T-cells impede efforts to cure HIV infection. We identified overexpression of enhancer of zeste homolog 2 (EZH2) in HIV-infected CD4⁺ T-cells that survive cytotoxic T lymphocyte (CTL) exposure, suggesting a mechanism of CTL resistance. Inhibition of EZH2 with the FD...

ORGANISM(S): Homo sapiens (Human)

2026-01-26 | PXD061146 | Pride

Hiv Cd8 t cells Ezh2 Tazemetostat

Retrospective study of methylmercury and other metal(loid)s in Madagascar unpolished rice (Oryza sativa L.).

Not available

S-EPMC4352114 | biostudies-literature

Comparative analysis of ChAdOx1 nCoV-19 and Ad26.COV2.S SARS-CoV-2 vector vaccines

Vector-based SARS-CoV-2 vaccines such as AstraZeneca's ChAdOx1 nCoV-19 have been associated with vaccine-induced thrombosis (TTS/VITT). We studied ChAdOx1 nCov-19 (AstraZeneca) and Ad26.COV2.S (Johnson & Johnson) and compared the vaccines using proteomics with mass spectrometric measurements. We cou...

ORGANISM(S): Homo sapiens (Human)

2023-05-04 | PXD027344 | Pride

Ad26.cov2.s Sars-cov-2 Vector vaccines Chadox1

Systems Biology Analysis of Zymomonas mobilis ZM4 Ethanol Stress Responses

Background Zymomonas mobilis ZM4 is a capable ethanologenic bacterium with high ethanol productivity and ethanol tolerance. Previous studies indicated that several stress-related proteins and changes in the ZM4 membrane lipid composition may contribute to ethanol tolerance. However, the molecular m...

ORGANISM(S): Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821

2013-09-04 | E-GEOD-21165 | biostudies-arrayexpress

13C6-Lysine-labelled mouse serum N-terminomics

To investigate the putative lifetime of proteolytically cleaved protein fragments in mouse serum, wildtype mice were fed with 13C6-Lysine for 1 or 2 weeks and the incorporation of 13C6-Lysine into proteins/protein fragments was investigated to achieve lifetime estimations for the fragment(s') genera...

ORGANISM(S): Mus musculus (Mouse)

2025-09-12 | PXD051273 | Pride

Mouse Serum Hunter Degradome N-termini 13c6-lysine

Characterization of leptospira isolates from animals and humans: phylogenetic analysis identifies the prevalence of intermediate species in India.

Not available

S-EPMC3736078 | biostudies-literature

White-Opaque Switching in Natural MTLa/alpha Isolates of Candida albicans: Evolutionary Implications for Roles in Host Adaptation, Pathogenesis and Sex

The discovery of white-opaque switching in natural MTLa/alpha isolates of Candida albicans sheds new light on the evolution of phenotypic plasticity and host adaptation. Comparing gene expression of white and opaque cells of a MTL a/alpha strain

ORGANISM(S): Candida albicans

2013-04-01 | E-GEOD-43938 | biostudies-arrayexpress

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