Branch C A CA - OmicsDI

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Unknown (2703)
Transcriptomics (171)
Proteomics (24)
Genomics (18)
Metabolomics (5)
Genomic (4)
Other (1)

Organisms

Homo sapiens (68)
Mus musculus (28)
Mycobacterium tuberculosis (22)
Mycobacterium tuberculosis H37Rv (8)
Saccharomyces cerevisiae (7)
Arabidopsis thaliana (6)
Rattus norvegicus (6)
Oryctolagus cuniculus (5)
Caenorhabditis elegans (5)
Canis lupus familiaris (4)
Drosophila melanogaster (3)
Ulmus minor (2)
Schizosaccharomyces pombe (2)
Sus scrofa (2)
Babesia microti (1)
Eucalyptus nitens (1)
Pseudomonas syringae (1)
Bacillus sp. N16-5 (1)
Cryptomeria japonica (1)
Pyrus communis (1)
Olea europaea (1)
Coffea arabica (1)
Nicotiana attenuata (1)
Gluconobacter oxydans 621H (1)
Pinus radiata (1)
Populus x canadensis (1)
Leymus triticoides (1)
Mycobacterium avium subsp. paratuberculosis (1)
Leymus cinereus (1)
Ciona intestinalis (1)

Organisms

Mus musculus (5)
Homo sapiens (4)
Rattus norvegicus (2)

Repository

biostudies-arrayexpress (176)
pride (23)
ENA (13)
MetaboLights (5)
dbGaP (4)
EGA (1)
GPMDB (1)
MassIVE (1)

Tissue

Cell culture (4)
Lung (3)
Permanent cell line cell (3)
Brain (2)
Lymph node (2)
Plant cell (2)
Blood (1)
Blood cell (1)
Breast cancer cell (1)
Early embryonic cell (1)
Epithelial cell (1)
HEK-293T cell (1)
HeLa cell (1)
Kidney (1)
Leaf (1)
Liver (1)
Respiratory epithelial cell (1)
Root (1)
T cell (1)
Uterine cervix (1)
Vascular tissue (1)

Disease

Cervical adenocarcinoma (2)
Lung cancer (2)
Bladder tumour (1)
Atypical lung carcinoid (1)
Not Available (1)
Alzheimer's disease (1)
Brain glioblastoma multiforme (1)
Breast cancer (1)
Chronic myeloid leukemia (1)
Disease free (1)
Non-small cell lung carcinoma (1)

Technology Type

Mass Spectrometry (23)
Shotgun proteomics (12)
Bottom-up proteomics (7)
Mass spectrometry (5)
Affinity purification coupled with mass spectrometry proteomics (3)
Data-dependent acquisition (2)
All-ion fragmentation (1)
SRM/MRM (1)
Top-down proteomics (1)

Instrument Platform

Bio-Rad T100 Thermocycler (2)
Illumina NovaSeq 6000 (2)
LTQ Orbitrap Classic (Thermo Scientific) (2)
Illumina DNA Prep sample preparation kits (Illumina Inc., San Diego, CA, USA). Final libraries concentrations and size were assessed with Quant-IT DNA Assay Kit and Agilent 4200 Tapestation System (Agilent Technologies, Milan, Italy), (1)
QIAamp DNA minikit, Qiagen, Germany (1)
Dell Precision Tower 7910 workstation (1)
Affymetrix GCS3000 7G SCANNER (1)
GeneChip Hybridization Oveer 640 (1)
HIVE computer cluster (1)
Bioanalyser (1)
Scanning hardware (1)
None (1)
Ion Torrent Proton (1)
MinION (1)
Illumina MiSeq (1)
Illumina HiSeq 1500 (1)
Illumina HiSeq 2500 (1)
NextSeq 500 (1)
Instrument (1)
Orbitrap Fusion Lumos (1)
GCMS-QP2010 Plus (Shimadzu) (1)
Gas Chromatography MS - - - Liquid Chromatography MS - - - Gas Chromatography MS - positive (1)
Liquid Chromatography MS - (1)
SYNAPT HDMS (Waters) (1)

Publication Date

2010 (32)
2014 (28)
2013 (21)
2012 (21)
2011 (19)
2015 (13)
2008 (11)
2009 (9)
2007 (7)
2016 (6)
2025 (6)
2019 (6)
2023 (5)
2026 (4)
2017 (4)
2024 (3)
2020 (3)
2021 (2)
2018 (2)
2005 (1)
2003 (1)
2022 (1)

CHEBI ID

CHEBI:13997 (2)
CHEBI:14314 (2)
CHEBI:15414 (2)
CHEBI:15422 (2)
CHEBI:15595 (2)
CHEBI:15682 (2)
CHEBI:15713 (2)
CHEBI:15721 (2)
CHEBI:15756 (2)
CHEBI:15781 (2)
CHEBI:15846 (2)
CHEBI:15891 (2)
CHEBI:15996 (2)
CHEBI:16020 (2)
CHEBI:16027 (2)
CHEBI:16070 (2)
CHEBI:16264 (2)
CHEBI:16335 (2)
CHEBI:16383 (2)
CHEBI:16436 (2)
CHEBI:16454 (2)
CHEBI:16474 (2)
CHEBI:16543 (2)
CHEBI:16675 (2)
CHEBI:16680 (2)
CHEBI:16695 (2)
CHEBI:16704 (2)
CHEBI:16708 (2)
CHEBI:16737 (2)
CHEBI:16750 (2)

Metabolite Name

Citrate (2)
Creatine (2)
Phosphoenolpyruvate (2)
Uracil (2)
(-)-11-hydroxy-9,10-dihydrojasmonic acid 11-ß-D-glucoside (1)
(-)-Jasmonic acid (1)
(-)-Quebrachitol (1)
(2S)-5,7,3',4'-Tetrahydroxyflavanone 7-(6-galloylglucoside) (1)
(2S)-7,4'-Dihydroxy-8-geranylflavanone (1)
(3S,8Z,11Z,14Z,17Z)-3-Hydroxyicosatetraenoyl-CoA (1)
(9Z)-Octadecenoic acid (1)
(S)-2-Hydroxybutyric acid (1)
1,3-Dicaffeoylquinate (1)
1,4a-Dimethyl-7-propan-2-yl-2,3,4,9,10,10a-hexahydrophenanthrene-1-carboxylic acid (1)
1,5-Anhydroglucitol (1)
1,5-Anhydrohexitol (1)
1-Ethylnaphthalene (1)
1-Kestose (1)
1-Methyl-adenosine (1)
1-Methyl-guanosine (1)
1-Octanol (1)
15-Hydroxysolavetivone (1)
2'',4'',6''-Triacetylglycitin (1)
2'-O-Methylphaseollinisoflavan (1)
2,3,4,5,6-Pentahydroxycyclohexyl hexopyranoside (1)
2,3,5,6-Tetrahydroxy-4-[3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]oxyhexanal (1)
2,3-diaminopropionic acid (1)
2,4-Diaminobutyric acid (1)
2,6-Diamino-7-hydroxy-azelaic acid (1)
2-(3,4-Dihydroxyoxolan-2-yl)-2-hydroxyacetaldehyde (1)

First Public Date

2014 (10)
2015 (2)
2020 (1)

Study type

Transcription profiling by array (149)
Unknown experiment type (7)
RNA-seq of coding RNA (7)
ChIP-seq (3)
Transcription profiling by RT-PCR (2)
RNA-seq of total RNA (2)
Animal - High-throughput sequencing (1)
Genotyping by array (1)
DNA-seq (1)
Genotyping by high throughput sequencing (1)
RNA-seq of non coding RNA (1)

Release Date

2023 (292)
2022 (264)
2021 (259)
2024 (237)
2025 (209)
2020 (177)
2019 (174)
2018 (162)
2016 (152)
2017 (134)
2014 (128)
2015 (126)
2013 (106)
2012 (90)
2011 (80)
2010 (76)
2009 (55)
2008 (45)
2026 (38)
2007 (30)
2005 (7)
2003 (7)
2006 (7)
2000 (5)
2002 (4)
2001 (4)
1998 (4)
2004 (3)
1999 (3)
1997 (1)

Lab affiliation

1Thoracic and Gastrointestinal Oncology Branch, Center for Cancer Research, National Cancer Institute, Bethesda, MD, USA (1)
Associate Professor, Department of Biochemistry & Molecular Biology, UTMB Mass Spectrometry Director, University of Texas Medical Branch – Galveston, Texas, USA (1)
Center for Addiction Research Department of Pharmacology and Toxicology The University of Texas Medical Branch Galveston, TX 77555 (1)
Department Plant Pathology, University of California, Davis (1)
Department of Biochemistry, College of Life Science & Biotechnology, Yonsei University, 262 Seongsanno, Seodaemun-Gu, Seoul 120-749, Korea. Tel.: +82-2-2123-2704; Fax: 82-2-362- 9897 (1)
Department of Biochemistry, College of Life Science & Biotechnology, Yonsei University, 262 Seongsanno, Seodaemun-Gu, Seoul 120-749, Korea. Tel.: +82-2-2123-2704; Fax: 82-2-362-9897. (1)
Department of Microbiology and Immunology, University of Michigan, 1150 W Medical Center Dr, 1526 MSRB1, Ann Arbor, MI, 48109. (1)
Department of Pharmacology and Toxicology, School of Medicine, University of Texas Medical Branch (1)
Genetics and Biochemistry Branch, NIDDK, National Institutes of Health, Bethesda, MD 20814, USA.  National Institute of Neurological Disorders and Stroke (NINDS), National Institutes of Health, Bethesda, MD, USA (1)
Inserm, CBRS, Ais Marseille University, CRCM, Marseille Proteomics (1)
Institute for Genomics, Biocomputing, and Biotechnology, Mississippi State University, Mississippi State, MS 39759, USA (1)
Laboratoire de Biologie Structurale de la Cellule, BIOC Ecole polytechnique CNRS Institut Polytechnique de Paris 91128 Palaiseau cedex France (1)
Maria Skłodowska-Curie National Research Institute of Oncology Gliwice Branch, Gliwice, Poland (1)
Mass Spectrometry Facility, Department of Biochemistry and Molecular Biology, University of Texas Medical Branch at Galveston, USA (1)
Stefan Kubicek Lab, CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences, Lazarettgasse 14, 1090 Vienna, Austria (1)
Systematische Proteomforschung & Bioanalytik - Institut für Experimentelle Medizin (IEM) Christian-Albrechts-Universität zu Kiel Niemannsweg 11 (Campus UK-SH, Kiel) 24105 Kiel, Germany (1)
THORACIC & GI ONCOLOGY BRANCH, NCI, NIH, Bethesda, MD 20892 (1)
Thoracic and Gastrointestinal Oncology Branch, CCR , NCI, NIH (1)
Translational Gerontology Branch, National Institute on Aging, National Institutes of Health, USA (1)
Univeristy Of Toronto (1)
University of Pittsburgh Department of Psychiatry (1)
Winter Lab, CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences, Vienna, Austria (1)
Winter Lab, CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences, Vienna, Austria (lab head) (1)

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The N-terminal Tail of CENP-A Confers Epigenetic Stability to Centromeres via the CENP-T Branch of the CCAN in Fission Yeast

We employ the well-studied fission yeast centromere to investigate the function of the CENP-A (Cnp1) N-tail. We show that alteration of the N-tail did not affect Cnp1 loading at centromeres, outer kinetochore formation, or spindle checkpoint signaling, but nevertheless elevated chromosome loss. N-Ta...

ORGANISM(S): Schizosaccharomyces pombe

2015-04-16 | E-GEOD-63350 | biostudies-arrayexpress

Differential expression associated with GB virus C in HCV/HIV co-infection

The aim of this study was to identify differential gene and protein expression associated with GBV-C that may be of importance in reduction of HCV-related liver disease. GB virus C (GBV-C) infection leads to improved outcomes in human immunodeficiency virus (HIV) infection. Furthermore, GBV-C has be...

ORGANISM(S): Homo sapiens

2011-05-10 | E-GEOD-16593 | biostudies-arrayexpress

Hepatitis C Antiviral Long-term Treatment Against Cirrhosis (HALT-C)

Reprinted from http://www.haltctrial.org/

Purpose

The Hepatitis C Antiviral Long-term Treatment against Cirrhosis (HALT-C) Trial is a randomized controlled trial designed to evaluate the safety and efficacy of long-term use of pegylated inte...

phs000430 | dbGaP

Identification of New Branch Points and Unconventional Introns in Saccharomyces cerevisiae

Spliced messages constitute one-fourth of expressed mRNAs in the yeast Saccharomyces cerevisiae, and most mRNAs in metazoans. Splicing requires 5' splice site (5'SS), branch point (BP), and 3' splice site (3'SS) elements, but the role of the BP in splicing control is poorly understood because BP id...

ORGANISM(S): Saccharomyces cerevisiae S288c

2016-08-01 | E-GEOD-68022 | biostudies-arrayexpress

DEN-induced HCC in c-Met knockout mice

HGF has been reported to have both positive and negative effects on carcinogenesis. Here we show that the loss of c-Met signaling in hepatocytes enhanced rather than suppressed the early stages of chemical hepatocarcinogenesis. c-Met conditional knockout mice (c-metfl/fl, AlbCre+/-; MetLivKO) treate...

ORGANISM(S): Mus musculus

2008-08-09 | E-GEOD-8747 | biostudies-arrayexpress

Transcription profiling of Leymus cinereus and Leymus triticoides negatively orthogeotropic and diageotropic meristems using a wheat gene chip

A comparison of overall gene expression profiles of Leymus negatively orthogeotropic (NOGT) and diageotropic (DGT) meristems in a similar genetic background to identify gene expression polymorphisms specifically associated with the Leymus LG3a rhizome QTL by bulk segregate analysis, and identify oth...

ORGANISM(S): Leymus cinereus

2008-03-01 | E-MEXP-1265 | biostudies-arrayexpress

The MLL3/MLL4 branch of the COMPASS family regulates H3K4 monomethylation at enhancers

Histone H3 lysine 4 (H3K4) can be mono-, di-, and trimethylated by members of the COMPASS (COMplex of Proteins ASsociated with Set1) family from yeast to human and these modifications can be found at distinct regions of the genome. Monomethylation of histone H3K4 (H3K4me1) is relatively more enriche...

ORGANISM(S): Homo sapiens

2013-09-30 | E-GEOD-51176 | biostudies-arrayexpress

LaSSO, a strategy for genome-wide mapping of intronic lariats and branch-points using RNA-seq

Both canonical and alternative splicing of RNAs is governed by intronic sequence elements and produces transient lariat structures fastened by branch-points within introns. To map precisely the location of branch-points on a genomic scale, we developed LaSSO (Lariat Sequence Site Origin), a data-dri...

ORGANISM(S): Schizosaccharomyces pombe

2014-03-18 | E-GEOD-50246 | biostudies-arrayexpress

EucalyptWood

* In response to gravitational stresses, angiosperm trees form tension wood in the upper sides of branches and leaning stems in which cellulose content is higher, microfibrils are typically aligned closely with the fibre axis and the fibres often have a thick inner gelatinous cell wall layer (G-laye...

ORGANISM(S): Eucalyptus nitens

2011-05-19 | E-GEOD-8816 | biostudies-arrayexpress

Tropical Tree Branch-Leaf Nutrient Scaling Relationships Vary With Sampling Location.

Not available

S-EPMC6625373 | biostudies-literature

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2927 Results

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