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TranscriptomicsEpstein-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
TranscriptomicsSingle cell RNA-seq of isolated human foetal L/M-opsin cone photoreceptor populations labelled using the AAV2/9.pR2.1.GFP reporter
Human cone photoreceptors represent a rare cell population of the human retina and are largely outnumbered by other retinal cell types. Despite their rarity, cone photoreceptors are critical for optimal daylight vision and their loss has the greatest impact on sight during the progression of retinal...
ORGANISM(S): Homo sapiens 
2018-04-20 | E-MTAB-6058 | biostudies-arrayexpress
TranscriptomicsmicroRNA Targetome Analysis of Latently KSHV-infected Primary Effusion Lymphoma Cell lines Using PAR-CLIP [Illumina]
Primary effusion lymphoma (PEL) is caused by Kaposi's sarcoma-associated herpesvirus (KSHV) and frequently also harbors Epstein-Barr virus (EBV). The expression of KSHV- and, often, EBV-encoded microRNAs (miRNAs) in PELs suggests a role for these miRNAs in viral latency and lymphomagenesis. Here we ...
ORGANISM(S): Homo sapiens 
2011-11-16 | E-GEOD-32109 | biostudies-arrayexpress
TranscriptomicsMYC activation and BCL2L11 silencing by a tumor virus through the large-scale reconfiguration of enhancer-promoter hubs [EREB]
Lymphomagenesis in the presence of deregulated MYC expression requires suppression of MYC-driven apoptosis, often through downregulation of the pro-apoptotic BCL2L11 gene (Bim). Transcription factors (EBNAs) encoded by the lymphoma-associated Epstein-Barr virus (EBV) activate MYC and silence BCL2L11...
ORGANISM(S): Homo sapiens 
2016-08-04 | E-GEOD-82149 | biostudies-arrayexpress
TranscriptomicsMYC activation and BCL2L11 silencing by a tumor virus through the large-scale reconfiguration of enhancer-promoter hubs [Bcell]
Lymphomagenesis in the presence of deregulated MYC expression requires suppression of MYC-driven apoptosis, often through downregulation of the pro-apoptotic BCL2L11 gene (Bim). Transcription factors (EBNAs) encoded by the lymphoma-associated Epstein-Barr virus (EBV) activate MYC and silence BCL2L11...
ORGANISM(S): Homo sapiens 
2016-08-04 | E-GEOD-82148 | biostudies-arrayexpress
TranscriptomicsBudding yeast RNA polymerase II CTD phosphorylation and transcription termination factor localization
Whole genome analysis of total RNA pol II, Ser2-, Ser5- and Ser7-phosphorylated RNA pol II, in WT and mutants of the C-terminal domain (CTD) kinases Ctk1 and Kin28, and localization of the termination factors Pcf11, Nrd1 and Rat1. ChIP-chip using ligation-mediated PCR-amplified material hybridized t...
ORGANISM(S): Saccharomyces cerevisiae 
2010-09-15 | E-GEOD-23960 | biostudies-arrayexpress
TranscriptomicsHMGA1: A master regulator of tumor progression in triple-negative breast cancer cells
Emerging evidence suggests that tumor cells metastasize by co-opting stem cell transcriptional networks, although the molecular underpinnings of this process are poorly understood. Here, we show for the first time that the high mobility group A1 (HMGA1) gene drives metastatic progression in triple ...
ORGANISM(S): Homo sapiens 
2015-02-18 | E-GEOD-45483 | biostudies-arrayexpress
TranscriptomicsChanges in Gene expression mediated by Cyclic Mechanical Stress in Trabecular Meshwork Cells
Purpose: To investigate the changes in gene expression induced by cyclic mechanical stress (CMS) in trabecular meshwork (TM) cells. Methods: HTM cultures from three donors were plated on type I collagen-coated flexible silicone bottom plates and subjected to 15% stretching, 1 cycle per second for 6...
ORGANISM(S): Homo sapiens 
2009-03-04 | E-GEOD-14768 | biostudies-arrayexpress
TranscriptomicsCoprinopsis cinerea transcriptome in response to hyphal damage, nematode predation or bacterial co-cultivation
We have recently shown that the coprophilous model mushroom Coprinopsis cinerea transcribes a broad array of genes encoding defense proteins in the vegetative mycelium and fruiting bodies that target bacterial competitors and animal predators challenging the respective tissues of this fungus. In add...
ORGANISM(S): Coprinopsis cinerea 
2015-09-01 | E-MTAB-2763 | biostudies-arrayexpress
TranscriptomicsGene expression profile of glycolaldehdye-treated yeast cells vs glycolaldehdye-nontreated cells
Gene expression profile of yeast under the glycolaldehdye stress (newly discovered fermentation inhibitor) was evaluated in the experiment Two-condition design, 10 mM glycolaldehdye-treated and nontreated yeast cells, three replicates were run for each condition
ORGANISM(S): Saccharomyces cerevisiae 
2014-07-29 | E-GEOD-59812 | biostudies-arrayexpress
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