Kramer S S - OmicsDI

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Unknown (2758)
Proteomics (121)
Transcriptomics (68)
Genomics (14)
Genomic (7)
Metabolomics (7)

Organisms

Homo sapiens (80)
Mus musculus (27)
Trypanosoma brucei (16)
Bifidobacterium breve UCC2003 (13)
Rattus norvegicus (12)
Saccharomyces cerevisiae (8)
Arabidopsis thaliana (7)
Zea mays (4)
Drosophila melanogaster (4)
Danio rerio (3)
Bacillus subtilis (3)
Caenorhabditis elegans (2)
Escherichia coli (2)
Bifidobacterium breve (1)
Caenorhabditis briggsae (1)
Pristionchus pacificus (1)
Solanum tuberosum (1)
Pichia kudriavzevii (1)
Bemisia tabaci (1)
Capra hircus x Ovis aries (1)
Hordeum vulgare (1)
Neisseria meningitidis serogroup B (1)
Oryza sativa (1)
Rhizophagus irregularis (1)
Schizosaccharomyces pombe OY26 (1)
Sus scrofa domesticus (1)
Synechocystis sp. PCC 6803 (1)
Trypanosoma cruzi Dm28c (1)
Xenopus laevis (1)

Organisms

Bifidobacterium breve UCC2003 (1)

Repository

pride (102)
biostudies-arrayexpress (69)
MassIVE (19)
EGA (11)
dbGaP (7)
MetaboLights (7)
ENA (2)

Tissue

Cell culture (18)
Permanent cell line cell (9)
Heart (5)
Colon (4)
Liver (4)
Blood plasma (3)
Leaf (3)
Lung (3)
Lymph node (3)
Rectum (3)
B cell (2)
Blood serum (2)
Brain (2)
Colonic cancer cell (2)
Colonic cancer cell line (2)
Embryonic stem cell (2)
Hepatocyte (2)
Pancreas (2)
Plant cell (2)
Rectal cancer cell line (2)
Amniotic fluid (1)
Bile (1)
Bile duct (1)
Blood cancer cell (1)
Blood-lymph (1)
Bone cancer cell line (1)
Bone marrow (1)
Brain cancer cell line (1)
HeLa cell (1)
T cell (1)

Disease

Trypanosomiasis (8)
Colon cancer (5)
Prostate adenocarcinoma (3)
Rectum cancer (3)
Normal (2)
Brain cancer (2)
Breast cancer (2)
Disease free (2)
Malignant neoplasm of ovary (2)
Abnormal breast morphology (1)
Acute leukemia (1)
Bladder transitional cell carcinoma (1)
Cell type cancer (1)
Childhood extraosseous osteosarcoma (1)
Cholangiocarcinoma (1)
Chronic bronchitis (1)
Embryonal rhabdomyosarcoma (1)
Fibrosarcoma (1)
Head and neck cancer (1)
Hepatocellular carcinoma (1)
Inflammation (1)
Lung adenocarcinoma (1)
Lung carcinoma (1)
Lymphoma (1)
Malignant mesothelioma (1)
Melanoma (1)
Meningococcal meningitis (1)
Neuroblastoma (1)
Osteosarcoma (1)
Pancreatic cancer (1)

Technology Type

Mass Spectrometry (102)
Shotgun proteomics (66)
Affinity purification coupled with mass spectrometry proteomics (12)
Bottom-up proteomics (10)
Chemical cross-linking coupled with mass spectrometry proteomics (10)
Gel-based experiment (7)
Mass spectrometry (6)
Data-dependent acquisition (4)
Illumina HiSeq 2000 (2)
Illumina Genome Analyzer II, Illumina HiSeq 2000 (1)
NMR spectroscopy (1)
Data-independent acquisition (1)
MSE (1)
Top-down proteomics (1)

Instrument Platform

TimsTOF Pro (6)
Apex Q (3)
LTQ Orbitrap Velos (3)
Liquid Chromatography MS - negative - hilic (3)
Q Exactive (2)
Q Exactive Plus (2)
Liquid Chromatography MS - positive - hilic (2)
ScanArray Express HT [PerkinElmer] (1)
ScanArray 4000XL [PerkinElmer] (1)
Axon GenePix 4000B scanning hardware (1)
Illumina HiSeq 2500 (1)
LTQ Orbitrap Elite (1)
Orbitrap Fusion (1)
Orbitrap Fusion ETD (1)
Q Exactive HF (1)
Q Exactive HF-X (1)
Q-TOF (Micromass instrument model) (1)
TimsTOF pro (1)
Exactive (Thermo Scientific) (1)
Liquid Chromatography MS - negative - reverse (1)
Liquid Chromatography MS - negative - reverse phase (1)
Liquid Chromatography MS - positive - reverse (1)
Liquid Chromatography Tandem MS (LC-MS/MS) (1)
Nuclear Magnetic Resonance (NMR) (1)

Publication Date

2022 (20)
2017 (19)
2023 (18)
2021 (14)
2025 (13)
2015 (12)
2014 (12)
2011 (10)
2018 (10)
2024 (10)
2020 (9)
2013 (8)
2012 (8)
2016 (6)
2010 (6)
2019 (5)
2009 (4)
2008 (4)
2007 (3)
2004 (3)
2026 (3)

CHEBI ID

CHEBI:116314 (2)
CHEBI:15603 (2)
CHEBI:15891 (2)
CHEBI:16027 (2)
CHEBI:16467 (2)
CHEBI:16668 (2)
CHEBI:16695 (2)
CHEBI:16704 (2)
CHEBI:16737 (2)
CHEBI:16742 (2)
CHEBI:16828 (2)
CHEBI:17368 (2)
CHEBI:17385 (2)
CHEBI:17562 (2)
CHEBI:18123 (2)
CHEBI:21557 (2)
CHEBI:28044 (2)
CHEBI:30769 (2)
CHEBI:65842 (2)
CHEBI:10017 (1)
CHEBI:10018 (1)
CHEBI:10136 (1)
CHEBI:10329 (1)
CHEBI:10565 (1)
CHEBI:10586 (1)
CHEBI:108 (1)
CHEBI:11060 (1)
CHEBI:1157 (1)
CHEBI:11946 (1)
CHEBI:1237 (1)

Metabolite Name

UMP (2)
(2S)-2-Isopropylmalate (1)
(2S,3R)-3-hydroxybutane-1,2,3-tricarboxylate (1)
(9Z,11E,13E,15Z)-4-Oxo-9,11,13,15-octadecatetraenoic acid (1)
(E)-3-Hexadecenoic acid (1)
(L-Seryl)adenylate (1)
(R)-2,3-Dihydroxy-3-methylbutanoate (1)
(R)-3-Hydroxybutanoate (1)
(R)-Malate (1)
(S)-1-Pyrroline-5-carboxylate (1)
(S)-2-Acetolactate (1)
(S)-3-Methyl-2-oxopentanoic acid (1)
(S)-Malate (1)
(Z)-4',6-Dihydroxyaurone 6-glucoside (1)
1,2-Di-(9Z,12Z,15Z-octadecatrienoyl)-3-(Galactosyl-alpha-1-6-Galactosyl-beta-1)-glycerol (1)
1,3-benzenedisulfonate (1)
1-(10Z-Heptadecenoyl)-sn-glycero-3-phospho-(1'-myo-inositol) (1)
1-O-Methyl-myo-inositol (1)
1-Salicylateglucuronide (1)
10-Formyltetrahydrofolate (1)
10-Hydroxydecanoic acid (1)
12-Hydroxydodecanoic acid (1)
13-OxoODE (1)
13Z-Docosenamide (1)
16-Hydroxy-10-oxohexadecanoic acid (1)
16-hydroxypalmitate (1)
2'-Norberbamunine (1)
2(alpha-D-Mannosyl)-D-glycerate (1)
2,3-Dihydro-2,3-dihydroxy-4-(4-methoxyphenyl)-1H-phenalen-1-one (1)
2,5-Dioxopentanoate (1)

First Public Date

2019 (2)

Modification

1x(15)N labeled L-valine (1)

Study type

Transcription profiling by array (55)
RNA-seq of coding RNA (10)
Genotyping by array (1)
Comparative genomic hybridization by array (1)
ChIP-seq (1)
RNA-seq of non coding RNA (1)

Release Date

2022 (324)
2025 (301)
2023 (283)
2021 (263)
2024 (237)
2020 (206)
2018 (178)
2019 (166)
2017 (131)
2016 (111)
2015 (105)
2014 (94)
2013 (80)
2012 (80)
2011 (63)
2026 (57)
2010 (43)
2008 (28)
2009 (26)
2007 (12)
2005 (10)
2006 (8)
2004 (7)
1998 (3)
2003 (2)
2002 (2)
2000 (2)
1999 (2)
2001 (1)
1997 (1)

Lab affiliation

Chair of Proteomics and Bioanalytics, Technische Universität München, Germany (8)
Clinical Proteomics Facility, Medical Biochemistry, Academic Medical Center, University of Amsterdam (3)
Basic Immune System of Plants / Protein Mass Spectrometry Max Planck Institute for Plant Breeding Research Carl-von-Linne-Weg 10, 50829 Cologne, Germany (2)
Head of Drug Discovery and Evaluation Charles University in Prague, BIOCEV Průmyslová 595 252 50 Vestec Czech Republic (2)
Head of Proteomics & Metabolomics (2)
Max-Planck-Institute for Multidisciplinary Sciences Bioanalytical Mass Spectrometry Group Am Fassberg 11 D-37077 Goettingen, Germany University Medical Center Goettingen Bioanalytics Institute for Clinical Chemistry Robert Koch Strasse 40 D-37075 Goettingen, Germany (2)
Technical University of Munich, Germany (2)
"Chair of Proteomics and Bioanalytics, Technical University of Munich, Freising, Germany" (1)
1. Center for Medical Biotechnology, VIB, Ghent, Belgium. 2. Department for Biomolecular Medicine, Ghent University, Ghent, Belgium 3. VIB Proteomics Core, VIB, Ghent, Belgium (1)
Associate Professor, Department of Biochemistry, Faculty of Medicine & Dentistry, University of Alberta (1)
Babraham Institute Cambridge CB22 3AT (1)
BioArch South, Waitati, New Zealand (1)
Bioanalytical Mass Spectrometry Group, Max Planck Institute for Biophysical Chemistry, Am Fassberg 11, D-37077 Göttingen, Germany Bioanalytics, Institute for Clinical Chemistry, University Medical Center Göttingen, Robert-Koch-Strasse 40, D-37075 Göttingen, Germany (1)
Bioanalytical Mass spectrometry, Max Planck Institute For Biophysical Chemistry, Goettingen, Germany (1)
Bioanalytics, Institute of Biotechnology, Technische Universität Berlin, 13355 Berlin, Germany (1)
Biocenter, Faculty of Biology, Genetics, Ludwig-Maximilians-University Munich (LMU), 82152 Martinsried, Germany (1)
Biomedical Engineering department, Lerner Research Institute, Cleveland Clinic, Cleveland, Ohio, United States (1)
Biomolecular Mass Spectrometry and Proteomics, Bijvoet Center for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences , Utrecht University, 3584 CH Utrecht, The Netherlands (1)
Biozentrum LMU, Genetics Großhaderner Strasse 2-4 82152 Planegg-Martinsried phone +4989218074603 http://www.genetik.biologie.uni-muenchen.de/research/boshart/index.html (1)
Carlos Chagas Institute (ICC), FIOCRUZ/PR, Curitiba, Brazil (1)
Central Institute for Translational Cancer Research (TranslaTUM) Radiation Immuno-Oncology Group, Klinikum rechts der Isar (1)
Chair of Proteomics and Bioanalytics, Technical University of Munich (1)
Chair of Proteomics and Bioanalytics, Technical University of Munich (TUM), 85354 Freising, Germany (1)
Chair of Proteomics and Bioanalytics, Technical University of Munich, Bavaria, Germany (1)
Chair of Proteomics and Bioanalytics, Technical University of Munich, Germany (1)
Charité - Universitätsmedizin Berlin (1)
Charles University in Prague Faculty of Science, Department of Parasitology BIOCEV Průmyslová 595 252 50 Vestec Czech Republic (1)
Cleveland Clinic (1)
Clinical Proteomics Facility Medical Biochemistry Academic Medical Center, University of Amsterdam (1)
Clinical Proteomics Group, Department of Medical Biochemistry, Academic Medical Center, University of Amsterdam, Amsterdam, the Netherlands. (1)

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Transcription profiling of rodent hepatic carcinogenesis

3 dose levels of each of 9 compounds were used to dose male SD rats q.d. by oral gavage. Compounds included 5 nongenotoxic carcinogens (bemitradine, clofibrate, doxylamine, methapyrilene, & phenobarbital), 2 genotoxic agents (tamoxifen and 2-AAF) and 2 non-carcinogens (4-AAF and isoniazid). This w...

ORGANISM(S): Rattus norvegicus

2004-03-08 | E-MEXP-89 | biostudies-arrayexpress

iNOS is not responsible for RyR1 S-nitrosylation in mdx mice with truncated dystrophin.

Not available

S-EPMC7374827 | biostudies-literature

SYNTHESIS OF THE INTERSPECIES SIGNALING MOLECULE AUTOINDUCER-2 PLAYS AN IMPORTANT ROLE IN THE ANTI-MICROBIAL EFFECT OF BIFIDOBACTERIA

In the present study we show that a functional luxS gene is present in all members of the genus Bifidobacterium and that AI-2 production by Bifidobacterium breve UCC2003 is necessary to confer protection against Salmonella infection in Caenorhabditis elegans. Mutants carrying a disrupted luxS gene c...

ORGANISM(S): Bifidobacterium breve UCC2003

2015-12-31 | E-GEOD-49880 | biostudies-arrayexpress

A two-component regulatory system controls serpin expression in Bifidobacterium breve UCC2003.

This work reports on the identification and molecular characterization of a two-component regulatory system (2CRS), encoded by serRK, which is believed to control the expression of the ser2003 locus in Bifidobacterium breve UCC2003. The ser2003 locus consists of two genes, Bbr_1319 (sagA) and Bbr_13...

ORGANISM(S): Bifidobacterium breve UCC2003

2012-08-28 | E-GEOD-37835 | biostudies-arrayexpress

A new species of the water mite genus Sperchon Kramer, 1877 from China, with identifying Sperchon rostratus Lundblad, 1969 through DNA barcoding (Acari, Hydrachnidia, Sperchontidae).

Not available

S-EPMC5674144 | biostudies-literature

Fatiguing contractions increase protein S-glutathionylation occupancy in mouse skeletal muscle.

Not available

S-EPMC6007084 | biostudies-literature

Transcription profiling of clofibrate treated rat livers

5 day q.d. treatment by oral gavage of SD rats using 0, 200, 400 or 800 mg/kg/day of the peroxisome proliferator clofibrate. Livers were removed, RNA was isolated, and Cy3/Cy5 probes generated for 2-channel microarray experiments.

ORGANISM(S): Rattus norvegicus

2004-01-14 | E-MEXP-3 | biostudies-arrayexpress

Auranofin induces disulfide bond-mimicking S-Au adducts in protein thiol pairs.

Not available

S-EPMC11875817 | biostudies-literature

Fluorinated β-Lactones and Poly(β-hydroxyalkanoate)s: Synthesis via Epoxide Carbonylation and Ring-Opening Polymerization.

Not available

S-EPMC2583445 | biostudies-literature

A Slice-Low-Rank Plus Sparse (slice-L + S) Reconstruction Method for k-t Undersampled Multiband First-Pass Myocardial Perfusion MRI.

Not available

S-EPMC9325064 | biostudies-literature