Barr K K - OmicsDI

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Transcriptomics (3435)
Unknown (1912)
Genomics (76)
Proteomics (59)
Metabolomics (7)
Other (2)

Organisms

Homo sapiens (1461)
Mus musculus (944)
Rattus norvegicus (123)
Arabidopsis thaliana (86)
Drosophila melanogaster (61)
Saccharomyces cerevisiae (57)
Sus scrofa (37)
Bos taurus (36)
Danio rerio (36)
Gallus gallus (30)
Caenorhabditis elegans (24)
Zea mays (20)
Oryza sativa (19)
Streptococcus pneumoniae D39 (16)
Oryza sativa Japonica Group (13)
Escherichia coli (13)
Canis lupus familiaris (12)
Macaca mulatta (11)
Schizosaccharomyces pombe (9)
Oncorhynchus mykiss (9)
Medicago truncatula (8)
Ovis aries (8)
Staphylococcus aureus (7)
Carassius auratus (6)
Salmo salar (6)
Glycine max (6)
Colinus virginianus (5)
Equus caballus (5)
Mycobacterium tuberculosis H37Rv (5)
Boehmeria nivea (4)

Organisms

Homo sapiens (3)

Repository

biostudies-arrayexpress (3520)
pride (24)
MassIVE (12)
MetaboLights (7)
jPOST (5)
geo (3)
ENA (3)
EGA (2)
PAXDB (2)
EVA (1)

Tissue

B cell (5)
Utricle (2)
Vestibular hair cell (2)
Inner ear (2)
Epithelial cell (2)
Pancreatic duct (1)
B-lymphoblastoid cell line (1)
Acute myeloid leukemia cell line (1)
Diffuse large B-cell lymphoma cell line (1)
Lymphocyte of B lineage (1)
Stomach (1)
Ovarian serous carcinoma cell (1)
Cerebrospinal fluid (1)
Cardiac muscle cell (1)
Heart (1)
Brain (1)
Embryo (1)
Fibroblast (1)
Permanent cell line cell (1)
Burkitt lymphoma cell line (1)
Cell culture (1)

Disease

Normal (5)
Breast cancer (2)
Testicular seminoma (1)
CLL (1)
Arrhythmias and right ventricular dysfunction (1)
GIP-dependent Cushing's syndrome (1)
HPV positive (1)
Osteosarcoma subtype fibroblastic (1)
High grade glioblastoma (1)
Cocaine addiction (1)
Primary effusion lymphoma (PEL) (1)
DNA damage (1)
Anaplastic large cell lymphoma has DiseaseStaging II (1)
Extranodal NK/T-Cell Lymphoma derived cell line (1)
Uninfected (1)
Diseased (1)
Rett syndrome (1)
Schizophrenia (1)
Infected (1)
Primary tumor (1)
Leukemia (1)
Renal cell carcinoma (1)
Glioblastoma (1)
Prostate carcinoma (1)
Nodal peripheral T-cell Lymphoma (1)
Carcinoma (1)
Pediatric osteosarcoma (1)
Epstein-Barr virus infectious disease (1)
Adenocarcinoma (1)
Stomach cancer (1)

Technology Type

Mass Spectrometry (24)
Shotgun proteomics (13)
Mass spectrometry (5)
Bottom-up proteomics (5)
Data-dependent acquisition (3)
Gel-based experiment (2)
Affinity purification coupled with mass spectrometry proteomics (2)
NMR spectroscopy assay (1)
Mass spectrometry assay (1)
Proteogenomics (1)
Immunopeptidomics (1)
SWATH MS (1)
Data-independent acquisition (1)

Instrument Platform

Illumina NovaSeq 6000 (15)
Illumina HiSeq 2500 (11)
Illumina HiSeq 2000 (8)
NextSeq 500 (8)
NextSeq 550 (4)
Illumina HiSeq 4000 (4)
Illumina HiSeq 1500 (3)
Sony SH800 (2)
Illumina Genome Analyzer IIx (2)
Illumina Genome Analyzer II (2)
Illumina MiSeq (2)
NanoACQUITY UPLC (2)
Synapt G2 HDMS (2)
Orbitrap Fusion Lumos (2)
10X Genomics Single Cell, V3.1 (1)
Eppendorf EpMotion 5073m pipetting robot (1)
Agilent 2100 Bioanalyzer, Applied Biosystems 7900HT Sequence Detection System, Illumina TruSeq Small RNA Sample Preparation Kit (1)
RNeasy mini Kit, Ribo-Zero Human/Mouse/Rat kit (1)
10X Genomics Chromium (1)
Solexa 2G Genome Analyzer (1)
BD FACSAria III (1)
454 GS 20 (1)
Agilent 2100 Bioanalyzer (1)
GenePix 4000B [Axon Instruments] (1)
Illumina NovaSeq X (1)
Illumina MiniSeq (1)
TruSeq (Illumina, Novogene, Genomic Centre Cambridge, CB4 0FW, UK.) (1)
NanoDrop spectrophotometer and the Agilent 2100 Bioanalyzer (1)
Histopaque-1077,FACSAria Fusion Sorter,Flow Cytometer (1)
MinION (1)

Publication Date

2015 (616)
2010 (571)
2013 (494)
2014 (400)
2011 (398)
2012 (378)
2008 (175)
2016 (155)
2009 (139)
2007 (83)
2022 (31)
2006 (24)
2005 (19)
2021 (14)
2026 (10)
2019 (10)
2023 (9)
2018 (9)
2025 (8)
2004 (8)
2020 (6)
2003 (6)
2024 (5)
2017 (4)
2002 (2)

UNIPROT ID/AC

OTOGL_MOUSE (2)
ZRAN1_MOUSE (2)
F6QRE9_MOUSE (2)
TTL11_MOUSE (2)
SAXO2_MOUSE (2)
GRCR1_MOUSE (2)
DIAP3_MOUSE (2)
OC90_MOUSE (2)
Q8BFW6_MOUSE (2)
CRIP3_MOUSE (2)
AGR3_MOUSE (2)
OTOL1_MOUSE (2)
TT21A_MOUSE (2)
OTOAN_MOUSE (2)
NKX32_MOUSE (2)
TEKT3_MOUSE (2)
KNCN_MOUSE (2)
ACBD7_MOUSE (2)
A0A087WQ89_MOUSE (2)
TRFM_MOUSE (2)
NHSL2_MOUSE (2)
PP16A_MOUSE (2)
CAH7_MOUSE (2)
ADA11_MOUSE (2)
KCA10_MOUSE (2)
NAC2_MOUSE (2)
ABCA5_MOUSE (2)
CC151_MOUSE (2)
RSH4A_MOUSE (2)
CC114_MOUSE (2)

CHEBI ID

CHEBI:17824 (2)
CHEBI:60631 (2)
CHEBI:11805 (2)
CHEBI:27596 (2)
CHEBI:16135 (2)
CHEBI:17790 (2)
CHEBI:17170 (2)
CHEBI:67119 (2)
CHEBI:33984 (2)
CHEBI:16997 (2)
CHEBI:15996 (2)
CHEBI:30794 (2)
CHEBI:16000 (2)
CHEBI:1148 (2)
CHEBI:18066 (2)
CHEBI:30751 (2)
CHEBI:17202 (2)
CHEBI:15366 (2)
CHEBI:16870 (2)
CHEBI:22652 (2)
CHEBI:9349 (2)
CHEBI:17754 (2)
CHEBI:18132 (2)
CHEBI:78320 (2)
CHEBI:16010 (2)
CHEBI:27266 (2)
CHEBI:25017 (2)
CHEBI:37084 (2)
CHEBI:24898 (2)
CHEBI:28300 (2)

Metabolite Name

Ethanolamine (3)
Isoleucine (3)
3-Hydroxyisobutyrate (2)
4-Aminobutyrate (2)
Pi-Methylhistidine (2)
Isopropanol (2)
Malonate (2)
Fucose (2)
O-Phosphocholine (2)
N-Acetylaspartate (2)
Isobutyrate (2)
3-Hydroxyisovalerate (2)
GTP (2)
Formate (2)
Methanol (2)
Acetate (2)
2-Hydroxyisovalerate (2)
3-Hydroxybutyrate (2)
2-Hydroxybutyrate (2)
UDP-glucose (2)
UDP-galactose (2)
Sn-Glycero-3-phosphocholine (2)
Dimethyl sulfone (2)
O-Acetylcarnitine (2)
Leucine (2)
IMP (2)
ATP (2)
Glycerol (2)
Dimethylamine (2)
Propylene glycol (2)

First Public Date

2026 (1)
2017 (1)
2013 (1)

Study type

Transcription profiling by array (2516)
RNA-seq of coding RNA (423)
Unknown experiment type (125)
RNA-seq of non coding RNA (91)
ChIP-seq (55)
Other (51)
Comparative genomic hybridization by array (44)
Methylation profiling by array (40)
ChIP-chip by tiling array (35)
Transcription profiling by SAGE (34)
Transcription profiling by tiling array (18)
Proteomic profiling by array (17)
Transcription profiling by RT-PCR (16)
Methylation profiling by high throughput sequencing (11)
RNA-seq of coding RNA from single cells (7)
Genotyping by array (6)
Cell line - High-throughput sequencing (3)
MicroRNA profiling by high throughput sequencing (3)
DNA-seq (3)
Differential (2)
High-throughput sequencing (2)
RNAi profiling by array (2)
ChIP-chip by array (2)
MicroRNA profiling by array (2)
ChIP-chip by SNP array (1)
Transcription profiling by MPSS (1)
Animal - Single-cell sequencing (1)
Human - High-throughput sequencing (1)
Human - One-color microarray (1)
Animal - High-throughput sequencing (1)

Release Date

2015 (701)
2010 (599)
2013 (545)
2014 (479)
2011 (441)
2012 (431)
2022 (232)
2016 (227)
2021 (200)
2008 (200)
2025 (189)
2023 (180)
2020 (162)
2009 (157)
2024 (139)
2019 (131)
2018 (107)
2007 (92)
2017 (87)
2026 (30)
2006 (30)
2005 (25)
2003 (16)
2004 (14)
2001 (5)
2002 (4)
2000 (3)
1999 (3)
1997 (2)
1998 (1)

Lab affiliation

Department of Chemical and Structural Biology, Weizmann Institute of Science, Rehovot 76100, Israel (2)
Professor of Molecular Biology, University of Dundee (1)
James McGill Professor of Neurology and Neurosurgery and Anatomy and Cell Biology Montreal Neurological Institute-Hospital McGill, Montreal CANADA (1)
Institute for Cell Biology Dept. Immunology Auf der Morgenstelle 15, 72076 Tübingen Germany Partner Site of the German Cancer Consortium (1)
Epigenetic Memory - London Institute of Medical Sciences (1)
Infection & Immunity Program, Biomedicine Discovery Institute and Department of Microbiology, Monash University, Clayton, Australia (1)
Chair of Proteomics and Bioanalytics, Technical University of Munich, Emil-Erlenmeyer-Forum 5, D-85354, Freising, Germany Bavarian Center for Biomolecular Mass Spectrometry, Technical University of Munich, Gregor-Mendel-Strasse 4, D-85354, Freising, Germany (1)
institute parasitology, University of veterinary medicine vienna, Veterinärplatz 1, 1210 vienna, austria (1)
Head of Proteomics & Metabolomics Facility (1)
Department of Biochemisty, The University of Western Ontario, London,Canada (1)
Intercollegiate Faculty of Biotechnology, Laboratory of Mass Spectrometry, University of Gdańsk and Medical University of Gdańsk, Gdańsk, Poland (1)
Weizmann Institute of Science, Department of Chemical and Structural Biology (1)
School of Dentistry, Virginia Commonwealth University, Richmond, Virginia 23298 USA (1)
School of Cellular and Molecular Medicine University of Bristol BS8 1TD UK (1)
Children's Hospital of Philadelphia (1)
Cancer Science Institute of Singapore, National University of Singapore (1)
Philips Institute for Oral Health Research, VCU School of Dentistry, Virginia Commonwealth University, Richmond, Virginia 23298, USA (1)
University of Southern California (1)
Oregon Hearing Research Center Oregon Health & Science University Portland OR 97239 USA (1)
University of Washington (1)
Oregon Hearing Research Center Oregon Health & Science University Portland OR 97239 (1)
ProGenTomics, Laboratory of Pharmaceutical Biotechnology, Ghent University, B-9000 Ghent, Belgium (1)
1 Department of Computer Science, Hanyang University, Seoul 04763, Republic of Korea 2 Institute for Artificial Intelligence Research, Hanyang University, Seoul 04763, Republic of Korea (1)

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Ceramide Promotes Lytic Reactivation of Epstein-Barr Virus in Gastric Carcinoma

Epstein-Barr virus (EBV) has a lifelong latency period after initial infection. Rarely, however, when the EBV immediate early gene BZLF1 is expressed by a specific stimulus, the virus switches to the lytic cycle to produce progeny viruses. We found that EBV infection reduced levels of various cerami...

2023-12-20 | MTBLS7649 | MetaboLights

Comparative analysis of regulatory elements between Escherichia coli and Klebsiella pneumoniae by genome-wide transcription start site profiling [TSS-Seq]

We report the application of single-molecule-based sequencing technology for high-throughput profiling of transcription start sites for two enterobacteria: Escherichia coli and Klebsiella pneumoniae.By obtaining over fourteen billion bases of sequence from 5' RACE (rapid amplification of cDNA ends) ...

ORGANISM(S): Escherichia coli K-12

2012-07-30 | E-GEOD-35821 | biostudies-arrayexpress

Gene expression profiles of spontaneous metastasis in a K-ras/p53 mutant mouse model

The biologic basis for NSCLC metastasis is not well understood. Here we addressed this deficiency by transcriptionally profiling tumors from a genetic mouse model of human lung adenocarcinoma that develops metastatic disease owing to the expression of K-rasG12D and p53R172H. We identified 2,209 gene...

ORGANISM(S): Mus musculus

2009-04-14 | E-GEOD-14449 | biostudies-arrayexpress

Epstein-Barr Virus Exploits Intrinsic B-Lymphocyte Transcription Programs to Achieve Immortal Cell Growth

Epstein-Barr Virus Nuclear Antigen 2 (EBNA2) gene regulation through the cell RBPJ transcription factor (TF) is essential for conversion of resting B-lymphocytes (RBLs) into Lymphoblastoid Cell Lines (LCLs). ChIP-seq investigation of EBNA2 and RBPJ sites in LCL DNA found EBNA2 at 5151 and RBPJ at 10...

ORGANISM(S): Homo sapiens

2011-07-01 | E-GEOD-29498 | biostudies-arrayexpress

DNA methylation epigenotype expanding to non-polycomb target genes, induced by Epstein-Barr virus infection in human gastric cancer

This SuperSeries is composed of the following subset Series: GSE31787: Aberrant DNA methylation epigenotype expanding to non-polycomb target genes, induced by Epstein-Barr virus infection in human gastric cancer [Affymetrix Expression] GSE31788: Aberrant DNA methylation epigenotype expanding to non-...

ORGANISM(S): Homo sapiens

2012-01-04 | E-GEOD-31789 | biostudies-arrayexpress

Binding of the heterogeneous ribonucleoprotein K (hnRNP K) to the Epstein-Barr virus nuclear antigen 2 (EBNA2) enhances viral LMP2A expression.

Not available

S-EPMC3411732 | biostudies-literature

Temporal Analysis of Cell Protein Ubiquitination during Epstein-Barr Virus Reactivation by BCR Cross-linking

Epstein-Barr virus (EBV) reactivation in latently infected B cells is essential for persistent infection and B cell receptor (BCR) activation is a physiologically relevant stimulus for EBV reactivation. Post-translational modifications, such as phosphorylation and ubiquitination, are known to be reg...

ORGANISM(S): Homo sapiens (Human)

2017-02-02 | PXD004562 | Pride

Genome-Wide Analysis of Host-Chromosome Binding Sites for Epstein-Barr Virus Nuclear Antigen 1 (EBNA1)

The Epstein-Barr Virus (EBV) Nuclear Antigen 1 (EBNA1) protein is required for the establishment of EBV latent infection in proliferating B-lymphocytes. EBNA1 is a multifunctional DNA-binding protein that stimulates DNA replication at the viral origin of plasmid replication (OriP), regulates transc...

ORGANISM(S): Homo sapiens

2011-07-16 | E-GEOD-30709 | biostudies-arrayexpress

Identification of novel Epstein-Barr Virus miRNA genes from Nasopharyngeal Carcinomas

MicroRNAs (miRNAs) represent a conserved class of small non-coding RNAs that are found in all higher eukaryotes as well as some DNA viruses. MiRNAs are 20-25 nucleotides (nt) in length and have important regulatory functions in biological processes such as embryonic development, cell differentiation...

ORGANISM(S): Homo sapiens

2009-02-07 | E-GEOD-14738 | biostudies-arrayexpress

Gene expression profiling of age-related EBV-positive B-cell lymphoproliferative disorders uncovers alterations in characteristic oncogenetic pathways: possible implications for pathogenesis

Comprehensive gene expression profiles of Epstein-Barr virus (EBV)-associated B cell neoplasm (clinical samples + cell lines)

ORGANISM(S): Homo sapiens

2014-04-11 | E-MTAB-973 | biostudies-arrayexpress

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5491 Results

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