Epstein M M - OmicsDI

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Transcriptomics (2551)
Unknown (2502)
Genomics (213)
Proteomics (54)
Metabolomics (7)
Other (6)
Genomic (1)
Methylation profiling (1)
Multiomics (1)

Organisms

Homo sapiens (1187)
Mus musculus (620)
Arabidopsis thaliana (89)
Rattus norvegicus (75)
Saccharomyces cerevisiae (47)
Zea mays (43)
Drosophila melanogaster (41)
Bos taurus (26)
Danio rerio (26)
Sus scrofa (25)
Gallus gallus (24)
Caenorhabditis elegans (20)
Medicago truncatula (17)
Oryza sativa (17)
Streptococcus pneumoniae D39 (16)
Escherichia coli (14)
Glycine max (12)
Schizosaccharomyces pombe (9)
Oryza sativa Japonica Group (9)
Triticum aestivum (9)
Solanum lycopersicum (8)
Macaca mulatta (7)
Streptomyces venezuelae (7)
Escherichia coli str. K-12 substr. MG1655 (7)
Salmo salar (6)
Mycobacterium tuberculosis H37Rv (6)
Canis lupus familiaris (6)
Colinus virginianus (5)
Vitis vinifera (5)
Hordeum vulgare (5)

Organisms

Homo sapiens (8)
human gammaherpesvirus 4 (2)
Mus musculus (2)
Caenorhabditis elegans (1)

Repository

biostudies-arrayexpress (2731)
pride (39)
EGA (19)
ENA (16)
geo (13)
MassIVE (7)
MetaboLights (7)
dbGaP (1)

Tissue

B cell (12)
Cell culture (10)
Blood (2)
Spleen (2)
Acute myeloid leukemia cell line (1)
B-lymphoblastoid cell line (1)
B-lymphoblastoma cell (1)
Blood serum (1)
Brain (1)
Burkitt lymphoma cell (1)
Burkitt lymphoma cell line (1)
Cerebrospinal fluid (1)
Diffuse large B-cell lymphoma cell line (1)
Embryo (1)
Epithelial cell (1)
Erythrocyte (1)
Fibroblast (1)
Liver (1)
Lymph node (1)
Lymphocyte (1)
Lymphocyte of B lineage (1)
Nasopharyngeal epithelial cell (1)
Peripheral blood mononuclear cell (1)
Plant cell (1)
Prostate gland (1)
RAJI cell (1)
Seed (1)
Small intestine (1)
Stomach (1)
Testis (1)

Disease

Breast cancer (3)
Lymphoma (3)
Normal (2)
HPV positive (1)
Osteosarcoma subtype fibroblastic (1)
High grade glioblastoma (1)
DNA damage (1)
Anaplastic large cell lymphoma has DiseaseStaging II (1)
Schizophrenia (1)
Primary tumor (1)
Not yet visible (1)
Symptom free (1)
Leukemia (1)
Not Applicable (1)
Renal cell carcinoma (1)
N/a (1)
Nodal peripheral T-cell Lymphoma (1)
Acute leukemia (1)
Amyotrophic lateral sclerosis (1)
Burkitt lymphoma (1)
Epstein-Barr virus hepatitis (1)
Epstein-Barr virus infectious disease (1)
Gastric adenocarcinoma (1)
Multiple sclerosis (1)
Peanut allergy (1)
Stomach cancer (1)

Technology Type

Mass Spectrometry (39)
Shotgun proteomics (21)
Bottom-up proteomics (12)
Data-independent acquisition (6)
Affinity purification coupled with mass spectrometry proteomics (5)
Mass spectrometry (3)
Mass spectrometry assay (3)
DiaPASEF (3)
Gel-based experiment (3)
AB SOLiD 4 System (1)
Illumina HiSeq 2500 (1)
Illumina HiSeq 2500, ILLUMINA (1)
Illumina HiSeq 2500, ILLUMINA, Affymetrix GeneChip Scanner 3000 7g (1)
NextSeq 500, Illumina HiSeq 2500, ILLUMINA (1)
NMR spectroscopy (1)
Data-dependent acquisition (1)
Immunopeptidomics (1)
MSE (1)
Proteogenomics (1)
SWATH MS (1)

Instrument Platform

Illumina HiSeq 2000 (172)
Illumina HiSeq 2500 (63)
Illumina HiSeq 4000 (32)
Illumina HiSeq 1500 (24)
Illumina NovaSeq 6000 (21)
NextSeq 500 (13)
Illumina Genome Analyzer IIx (10)
Illumina Genome Analyzer II (8)
Illumina HiSeq 1000 (6)
Illumina HiSeq 3000 (6)
Illumina MiSeq (4)
Illumina HiScanSQ (2)
Illumina NovaSeq X (2)
TruSeq RNA Sample Prep Kit (2)
10X Genomics Single Cell, V3.1 (1)
Agilent Surescan High Resolution DNA microarray Scanner (1)
Covaris S2 (1)
Covaris, NEBNext Ultra II DNA library prep kit (1)
Solexa 2G Genome Analyzer (1)
BD FACSAria III (1)
Intel Xeon E5-2660) HP ProLiant SL230s Gen8 (1)
BD FACSARIA III (1)
Fluidigm C1 (1)
Illumina HiSeq (1)
Illumina iScan (1)
GenePix 4000B [Axon Instruments] (1)
Illumina HiSeq X (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)

Publication Date

2015 (447)
2010 (374)
2013 (364)
2014 (321)
2011 (295)
2012 (271)
2016 (146)
2008 (110)
2009 (100)
2021 (60)
2007 (50)
2019 (41)
2018 (34)
2020 (32)
2022 (28)
2023 (21)
2017 (19)
2006 (17)
2005 (16)
2026 (15)
2025 (15)
2024 (10)
2004 (8)
2003 (2)
2002 (1)

CHEBI ID

CHEBI:18237 (3)
CHEBI:32816 (3)
CHEBI:15428 (2)
CHEBI:15682 (2)
CHEBI:15721 (2)
CHEBI:15741 (2)
CHEBI:15846 (2)
CHEBI:15859 (2)
CHEBI:16040 (2)
CHEBI:16235 (2)
CHEBI:16335 (2)
CHEBI:16449 (2)
CHEBI:16704 (2)
CHEBI:16708 (2)
CHEBI:16737 (2)
CHEBI:16742 (2)
CHEBI:16750 (2)
CHEBI:16811 (2)
CHEBI:16856 (2)
CHEBI:16919 (2)
CHEBI:16958 (2)
CHEBI:17154 (2)
CHEBI:17234 (2)
CHEBI:17239 (2)
CHEBI:17368 (2)
CHEBI:17533 (2)
CHEBI:17562 (2)
CHEBI:17568 (2)
CHEBI:17596 (2)
CHEBI:17822 (2)

Metabolite Name

CTP (3)
GTP (3)
Glucose (3)
Guanosine (3)
Uridine (3)
2-Aminoadipic acid (2)
ADP (2)
AMP (2)
ATP (2)
Adenine (2)
Adenosine (2)
Azelaic acid (2)
CDP (2)
Citrulline (2)
Creatine (2)
Creatinine (2)
Cytidine (2)
Deoxyuridine (2)
Folic acid (2)
GDP (2)
GMP (2)
Glutamic acid (2)
Guanine (2)
HEPES (2)
Hippuric acid (2)
Hypoxanthine (2)
Inosine (2)
LPE 20:4 (2)
N-Acetyl-aspartic acid (2)
N-Acetylneuraminic acid (2)

First Public Date

2014 (5)
2019 (3)
2017 (3)
2020 (2)
2026 (1)
2025 (1)
2024 (1)

Classification

viruses (2)

Study type

Transcription profiling by array (1514)
RNA-seq of coding RNA (528)
ChIP-seq (130)
RNA-seq of non coding RNA (121)
Unknown experiment type (83)
Comparative genomic hybridization by array (54)
Other (44)
Methylation profiling by array (41)
Methylation profiling by high throughput sequencing (33)
ChIP-chip by tiling array (26)
Cell line - High-throughput sequencing (20)
Transcription profiling by SAGE (18)
DNA-seq (15)
Transcription profiling by tiling array (12)
RNA-seq of coding RNA from single cells (12)
High-throughput sequencing (9)
Genotyping by array (8)
Proteomic profiling by array (7)
RNA-seq of total RNA (7)
Human - High-throughput sequencing (5)
Plant - High-throughput sequencing (5)
Animal - High-throughput sequencing (5)
ChIP-chip by array (5)
Bisulfite-seq (5)
Transcription profiling by RT-PCR (4)
4C (3)
MeDIP-seq (2)
MicroRNA profiling by high throughput sequencing (2)
ATAC-seq (2)
MicroRNA profiling by array (2)

Release Date

2015 (559)
2013 (434)
2010 (420)
2014 (417)
2011 (359)
2012 (334)
2021 (316)
2022 (276)
2023 (253)
2016 (251)
2025 (210)
2019 (210)
2020 (203)
2024 (195)
2018 (174)
2017 (156)
2008 (134)
2009 (121)
2007 (65)
2026 (39)
2005 (26)
2006 (25)
2004 (17)
2003 (10)
2001 (8)
2000 (6)
1999 (6)
2002 (5)
1998 (3)
1997 (1)

Lab affiliation

Department of Cell & Developmental Biology, University of California, San Diego, CA 92093, USA. (3)
Cambridge Institute for Medical Research, Hills Road, Cambridge, CB2 0XY (2)
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)
1Department of Hematology, Xiangya Hospital, Central South University, Changsha 410080, China 2NHC Key Laboratory of Carcinogenesis, Department of Microbiology, School of Basic Medical Science, Central South University, Changsha 410078, China (1)
Biochemistry and Proteomics Laboratories, Deparment of Chemistry and biomolecular Science, Clarkson University, Potsdam NY, USA (1)
Cambridge Institute for Medical Research, University of Cambridge (1)
Cambridge Institute for Medical Research, University of Cambridge, Hills Road, Cambridge, CB2 0XY (1)
Cancer Research Institute, Xiangya Basic Medical College, Central South University, No. 110 Xiangya Road, Kaifu District, Changsha City, Hunan Province (1)
Cancer Science Institute of Singapore, National University of Singapore (1)
Center for Alzheimer's and Related Dementias (CARD), NIA and NINDS, NIH, Bethesda, Maryland, USA. (1)
Center for Alzheimer's and Related Dementias (CARD), National Institute on Aging and National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD, USA. (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)
Department of Human Genetics, University of Chicago, Chicago, Illinois, USA; Department of Medicine, University of Chicago, Chicago, Illinois, USA (1)
Department of Medicine II, Hematology/Oncology, Theodor-Stern-Kai 7, D-60590 Frankfurt am Main, Germany (1)
Department of Pathology, The First Affiliated Hospital, Sun Yat-sen University (1)
EDyP lab (1)
Head Proteomics Group Leiden University Medical Center, Center for Proteomics and Metabolomics, The Netherlands (1)
Institut de Biotecnologia i Biomedicina, Universitat Autònoma de Barcelona, Cerdanyola del Vallés, Barcelona, Spain. (1)
Institute for Cell Biology Dept. Immunology Auf der Morgenstelle 15, 72076 Tübingen Germany Partner Site of the German Cancer Consortium (1)
Institute for Research in Immunology and Cancer, Department of Chemistry, Université de Montréal, Montréal, Québec, Canada H3T 1J4 (1)
Intercollegiate Faculty of Biotechnology, Laboratory of Mass Spectrometry, University of Gdańsk and Medical University of Gdańsk, Gdańsk, Poland (1)
Ludwig-Maximilians-Universität München Genzentrum Laboratory for Functional Genome Analysis Feodor-Lynen-Str. 25 D-81377 München (1)
Neuroimmunology and MS Research, Neurology Clinic, University Hospital Zurich, University of Zurich, 8091 Zurich, Switzerland (1)
Pediatric Infectious Diseases Molecular Genetics and Microbiology Stony Brook University Life Sciences Building, Rm. 158 Stony Brook, NY 11794-5222 U.S.A. (1)
Philips Institute for Oral Health Research, VCU School of Dentistry, Virginia Commonwealth University, Richmond, Virginia 23298, USA (1)
ProGenTomics, Laboratory of Pharmaceutical Biotechnology, Ghent University, B-9000 Ghent, Belgium (1)
Professor of Molecular Biology, University of Dundee (1)
Quantitative Biology Center (QBiC), University of Tübingen, Germany. (1)
Raymond H. Wittcoff Distinguished Professor and Head Department of Biochemistry and Molecular Biophysics Washington University School of Medicine St. Louis, MO 63110 United States of America (1)
School of Cellular and Molecular Medicine University of Bristol BS8 1TD UK (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

Characterization Epstein-Barr Virus-Associated Encephalitis via Identification of Metabolomic Biomarkers

Objective: Fulminant Epstein-Barr Virus (EBV) infection may lead to fatal outcomes in patients with EBV-associated encephalitis (EBVAE). To investigate potential biomarkers in EBVAE, we utilized an untargeted metabolomic methodology to identify disease-associated biomarkers in patients ...

2026-03-23 | MTBLS14111 | MetaboLights

Comparative transcriptomics of the model entomopathogenic fungi Metarhizium anisopliae and M. acridum during infection on different insects

We used RNA-Seq to compare transcriptional responses of M. anisopliae and M. acridum to infection of the optically clear hind wings of adult locusts and cockroaches. It was calculated that >82% of predicted M. anisopliae genes and >88% of predicted M. acridum genes were expressed during pre-penetrat...

ORGANISM(S): Metarhizium acridum

2011-01-31 | E-GEOD-24938 | biostudies-arrayexpress

Epstein-Barr virus maintains lymphomas via its miRNAs

EpsteinM-bM-^@M-^PBarr virus (EBV) has evolved exquisite controls over its host cells, human B lymphocytes, not only directing these cells during latency to proliferate and thereby expand the pool of infected cells, but also to survive and thereby persist for the lifetime of the infected individual....

ORGANISM(S): Homo sapiens

2013-04-30 | E-GEOD-44769 | biostudies-arrayexpress

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

High salt primes a specific activation state of macrophages, M(Na)

Purpose: Investigate effects of high salt on human macrophage activation Methods: Human monocytes-derived macrophages were treated by additional 51mM NaCl for 24 hours (NaCl groups) or not (Control groups). mRNA profiles were generated by RNA-Seq, in triplicate, using Ion proton（Life tech). qRT–PCR ...

ORGANISM(S): Homo sapiens

2015-09-23 | E-GEOD-68482 | biostudies-arrayexpress

Identifying Sites Bound by Epstein Barr Nuclear Antigen 1 (EBNA1) in the Human Genome

Epstein-Barr virus (EBV) is a ubiquitous gammaherpes virus that establishes a life-long latency in over 90% of the world's population. Epstein Barr Nuclear Antigen 1, EBNA1, is the only viral protein consistently detected in all viral latency programs, as well as in all forms of EBV-associated malig...

ORGANISM(S): Homo sapiens

2010-05-14 | E-GEOD-13315 | biostudies-arrayexpress

THOC5, a member of the mRNA export complex, is essential for hematopoiesis in vivo and is required for CSF-1 induced macrophage differentiation

THOC5, a member of the mRNA export complex, is essential for hematopoiesis in vivo and is required for CSF-1 induced macrophage differentiation, thereby playing a key role in the mRNA export of immediate early genes induced by CSF-1 stimulation. Hematopoiesis, growth, differentiation, and commitment...

ORGANISM(S): Mus musculus

2013-12-24 | E-GEOD-41170 | biostudies-arrayexpress

A metabolic dependency of EBV can be targeted to hinder B cell transformation

Following infection of B cells, Epstein Barr virus (EBV) engages host pathways that mediate cell proliferation and transformation, contributing to the propensity of the virus to drive immune dysregulation and lymphomagenesis. We found that the EBV protein EBNA2 initiates NAD de novo bios...

2024-04-29 | MTBLS2243 | MetaboLights

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

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