Berger K K - OmicsDI

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Unknown (2144)
Proteomics (81)
Transcriptomics (66)
Genomics (35)
Metabolomics (15)

Organisms

Homo sapiens (114)
Mus musculus (14)
Arabidopsis thaliana (12)
Saccharomyces cerevisiae (11)
Camponotus floridanus (5)
Escherichia coli (4)
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Arachis hypogaea (1)
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Aspergillus nidulans FGSC A4 (1)
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Methermicoccus shengliensis DSM 18856 (1)
Oryza australiensis (1)
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Schizosaccharomyces pombe (1)
Solanum lycopersicum (1)
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Sus scrofa domesticus (1)
Trypanosoma brucei (1)

Organisms

Homo sapiens (4)

Repository

biostudies-arrayexpress (78)
pride (75)
EGA (16)
MetaboLights (15)
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ENA (5)
geo (2)
PanoramaPublic (1)

Tissue

Colon (20)
HCT-116 cell (18)
Cell culture (13)
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Lung (6)
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Disease

Colon cancer (3)
Malignant pleural mesothelioma (3)
Brain cancer (2)
Disease free (2)
Neuroblastoma (2)
Non tumoral reference sample (1)
Diffuse large B-cell lymphoma (1)
Oligodendroglioma (1)
Multiple congenital malformation (1)
Acute leukemia (1)
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Childhood extraosseous osteosarcoma (1)
Cholangiocarcinoma (1)
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Colitis (1)
Embryonal rhabdomyosarcoma (1)
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Head and neck cancer (1)
Hepatocellular carcinoma (1)
Lung carcinoma (1)
Lung small cell carcinoma (1)
Malignant mesothelioma (1)
Medulloblastoma (1)
Melanoma (1)
Pancreatic cancer (1)
Peripheral primitive neuroectodermal tumor (1)
Prostate adenocarcinoma (1)
Prostate carcinoma (1)

Technology Type

Mass Spectrometry (75)
Shotgun proteomics (55)
Mass spectrometry (10)
Affinity purification coupled with mass spectrometry proteomics (10)
Bottom-up proteomics (9)
Data-dependent acquisition (7)
Mass spectrometry assay (3)
NMR spectroscopy (3)
Chemical cross-linking coupled with mass spectrometry proteomics (3)
Data-independent acquisition (2)
Illumina HiSeq 2000 (1)
Gel-based experiment (1)
MSE (1)
Top-down proteomics (1)

Instrument Platform

Liquid Chromatography MS - positive - reverse phase (4)
Liquid Chromatography MS - alternating - reverse phase (3)
Liquid Chromatography MS - negative - reverse phase (3)
Q Exactive HF-X (2)
Nuclear Magnetic Resonance (NMR) - (2)
Illumina HiSeq 2500 (1)
Illumina HiSeq 2000 (1)
Illumina HiSeq 4000 (1)
Q Exactive (1)
Q Exactive HF (1)
Q Exactive Plus (1)
6490 Triple Quadrupole LC/MS (Agilent) (1)
6540 Q-TOF LC/MS (Agilent) (1)
Acquity UPLC - 6530 QToF (1)
Bruker (1)
Gas Chromatography 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)
Liquid Chromatography MS - positive - reverse-phase (1)
MS Imaging - (1)
Nuclear Magnetic Resonance (NMR) (1)
Xevo TQ MS (1)

Publication Date

2022 (29)
2020 (13)
2010 (13)
2023 (12)
2014 (11)
2021 (9)
2015 (9)
2013 (9)
2012 (9)
2024 (8)
2016 (7)
2011 (7)
2008 (7)
2026 (7)
2019 (7)
2018 (6)
2025 (5)
2017 (3)
2009 (2)
2007 (1)
2006 (1)

CHEBI ID

CHEBI:15354 (5)
CHEBI:15428 (5)
CHEBI:32816 (5)
CHEBI:15741 (4)
CHEBI:16335 (4)
CHEBI:16610 (4)
CHEBI:16865 (4)
CHEBI:27897 (4)
CHEBI:28044 (4)
CHEBI:30769 (4)
CHEBI:30915 (4)
CHEBI:131924 (3)
CHEBI:15603 (3)
CHEBI:15891 (3)
CHEBI:16015 (3)
CHEBI:16414 (3)
CHEBI:16449 (3)
CHEBI:16530 (3)
CHEBI:16643 (3)
CHEBI:16737 (3)
CHEBI:16750 (3)
CHEBI:16811 (3)
CHEBI:16856 (3)
CHEBI:16919 (3)
CHEBI:16977 (3)
CHEBI:17053 (3)
CHEBI:17191 (3)
CHEBI:17295 (3)
CHEBI:17509 (3)
CHEBI:17822 (3)

Metabolite Name

Acetaminophen (3)
Cotinine (3)
Enterolactone (3)
Genistein (3)
4-Methylbenzophenone (2)
5-Hydroxymethylfurfural (2)
Alternariol (2)
Ampicillin (2)
Bisphenol A (2)
Butylparaben (2)
Coumestrol (2)
Daidzein (2)
Diethyl phthalate (2)
Enterodiol (2)
Equol (2)
Ethinylestradiol (2)
Ethylparaben (2)
Formononetin (2)
Glycine (2)
Glycitein (2)
Isobutylparaben (2)
Isoxanthohumol (2)
Jacobine (2)
L-alanine (2)
L-glutamine (2)
L-isoleucine (2)
L-leucine (2)
L-phenylalanine (2)
L-tyrosine (2)
L-valine (2)

First Public Date

2015 (2)
2026 (1)
2021 (1)
2014 (1)

Study type

Transcription profiling by array (31)
RNA-seq of coding RNA (13)
ChIP-seq (12)
Comparative genomic hybridization by array (5)
Unknown experiment type (3)
Cell line - Two-color microarray (2)
ChIP-chip by array (2)
Other (2)
RNA-seq of non coding RNA (2)
Transcription profiling by array;comparative genomic hybridization by array (1)
Human - Two-color microarray (1)
ChIP-chip by tiling array (1)
DNA-seq (1)
Methylation profiling by array (1)
Methylation profiling by high throughput sequencing (1)

Release Date

2022 (278)
2021 (245)
2025 (225)
2023 (224)
2024 (186)
2020 (164)
2019 (151)
2018 (134)
2016 (105)
2017 (88)
2015 (78)
2014 (73)
2012 (47)
2013 (43)
2010 (43)
2011 (37)
2026 (35)
2009 (22)
2008 (21)
2006 (7)
2007 (4)
2004 (4)
1999 (4)
2003 (1)
2002 (1)
2001 (1)
2000 (1)

Lab affiliation

University of Vienna, Faculty of Chemistry, Department of Analytical Chemistry (22)
Institute of Molecular Pathology (IMP), Vienna BioCenter (VBC), Vienna, Austria. (4)
Centre de recherche Cardio-Thoracique de Bordeaux, INSERM U1045, PTIB, Hôpital Xavier Arnozan, Avenue du Haut Lévêque, 33604 Pessac Cedex (2)
FeROS, BPMP, INRA (2)
Proteomics Core Facility, University of Gothenburg, Sweden (2)
University of Vienna, Faculty of Chemistry, Department of Analytical Chemistry ( lab head ) (2)
BPMP, CNRS, INRA, Montpellier SupAgro, Univ Montpellier, Montpellier, France (1)
BPMP, CNRS, INRAE, Institut Agro, Univ Montpellier, 34060 Montpellier, France (1)
Bioanalytics, Institute of Biotechnology, Technische Universität Berlin, 13355 Berlin, Germany. Wellcome Centre for Cell Biology, University of Edinburgh, Edinburgh EH9 3BF, United Kingdom. (1)
Center for Molecular Bacteriology and Infection, Imperial College London (1)
Chair of Proteomics and Bioanalytics, Technische Universität München, Germany (1)
Department of Biochemistry, University of Wisconsin - Madison (1)
Department of Biology, Maynooth University, Maynooth, Co. Kildare, Ireland (1)
Department of Chemistry and Bioscience, Aalborg University, Denmark (1)
Department of Clinical Science, Haukeland university hospital, Norway (1)
Department of Pathology, Medical University of Vienna (1)
Director of Proteomics Boston Children's Hospital Associate Professor of Pathology Harvard Medical School (1)
Director of Women’s Health Research Women’s Service Line Inova Health System (1)
Dr Stephan A. Sieber, TUM Center for Functional Protein Assemblies (CPA), Department of Chemistry and Chair of Organic Chemistry II, Technical University of Munich, Lichtenbergstraße 4, 85748 Garching, Germany. (1)
EDyP (1)
Experimental Neurology, University Hospital, Frankfurt am Main, Germany (1)
German Cancer Research Center (DKFZ), c/o Zentrale Klinische Forschung (ZKF), University Medical Center Freiburg, Breisacher Str. 66, 79106 Freiburg, Germany (1)
Gottfried Schatz Research Center for Cell Signaling, Metabolism & Aging, Division of Cell Biology, Histology and Embryology, Medical University of Graz, 8010 Graz, Austria (1)
IPSIM, INRAE, Montpellier, France (1)
Institut de Génétique et de Biologie Moléculaire et Cellulaire IGBMC, Illkirch, France  Centre National de la Recherche Scientifique, UMR7104, Illkirch, France  Institut National de la Santé et de la Recherche Médicale, U964, Illkirch, France  Université de Strasbourg, Illkirch, France (1)
Institut de Génétique et de Biologie Moléculaire et Cellulaire, Illkirch, France  (1)
Institute for Molecular Medicine I, Medical Faculty, Heinrich-Heine-University Duesseldorf, Universitaetsstrasse 1, 40225 Duesseldorf, Germany (1)
Institute of Cell Biology, University of Berne, Switzerland (1)
Institute of Systems Biology, Seattle, WA. (1)
Lehrstuhl fuer Organische Chemie II Department Chemie TU Muenchen (1)

Tags

xref:PubMed:23457546 (1)
xref:PubMed:25944800 (1)
xref:PubMed:34303699 (1)
xref:PubMed:25775564 (1)
xref:PubMed:25313048 (1)

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Integrative proteomic and transcriptomic profiling identifies unique and shared functions of oncogenic KRAS and RIT1

Lo A, Holmes K, Mundt F, Moorthi S, Fung I, Fereshetian S, Watson J, Carr SA, Mertins P, Berger A. Aberrant activation of RAS oncogenes is a prevalent event in lung adenocarcinoma, with somatic mutation of KRAS occurring in ~30% of tumors. Recently, we identified somatic mutation of the RAS-family G...

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

2020-04-03 | MSV000085225 | MassIVE

Efficient minimizer orders for large values of k using minimum decycling sets.

Not available

S-EPMC10538483 | biostudies-literature

Fast genotyping of known SNPs through approximate k-mer matching.

Not available

S-EPMC5013917 | biostudies-literature

Traversing the k-mer Landscape of NGS Read Datasets for Quality Score Sparsification.

Not available

S-EPMC5558603 | biostudies-literature

Two new combinations, lectotypifications and a new name for Costa Rican Palicourea s.l.

Not available

S-EPMC5543270 | biostudies-literature

Kidney Function-Dependence of Vitamin K-Status Parameters: Results from the TransplantLines Biobank and Cohort Studies.

Not available

S-EPMC8467091 | biostudies-literature

A K(+)-selective CNG channel orchestrates Ca(2+) signalling in zebrafish sperm.

Not available

S-EPMC4749565 | biostudies-literature

Predicting the binding preference of transcription factors to individual DNA k-mers.

Not available

S-EPMC2666811 | biostudies-literature

Lactobacillus johnsonii NCC comparative genomics with L. iatae

Whole genome DNA microarray designed for the probiotic L. johnsonii strain NCC533 was used for comparative genomic hybridization (CGH) of L. johnsonii ATCC 33200T, L. johnsonii BL261, L. gasseri ATCC 33323T and L. iatae BL263 (CECT 7394T). In these experiments, the fluorescence ratio distributions o...

ORGANISM(S): Lactobacillus johnsonii

2010-11-24 | E-GEOD-21627 | biostudies-arrayexpress

Evaluating Cancer of the Central Nervous System Through Next-Generation Sequencing of Cerebrospinal Fluid.

Not available

S-EPMC4981784 | biostudies-literature

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2341 Results

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