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TranscriptomicsDifferential 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
ProteomicsLys-C/Arg-C, a New Enzyme Combination for Next-Generation Proteomics
Today, the most widely used bottom-up proteomics studies necessitate a proteolysis step prior to MS analysis. Trypsin is often the best protease in choice due to its high specificity and MS-favored proteolytic products. Trypsin has been challenged for its low cleavage efficiency at Lys-X bonds, and ...
ORGANISM(S): Homo sapiens (Human) 
2018-07-24 | PXD009797 | Pride
Lys-c / arg-c / trypsin / dia / mass spectrometry 
TranscriptomicsInterferon alfa regulated gene expression in patients initiating interferon treatment for chronic hepatitis C
Interferon alfa (IFN-alpha) is an approved therapeutic agent for chronic hepatitis C. To directly characterize the effects of IFN-alpha in humans, we used microarrays to profile gene expression in peripheral blood mononuclear cells (PBMCs) from hepatitis C patients treated with IFN-alpha. Seven pati...
ORGANISM(S): Homo sapiens 
2006-01-31 | E-GEOD-4134 | biostudies-arrayexpress
GenomicsPromoter proximal pausing and its regulation by c-Myc in embryonic stem cells: ChIP-Seq
Recruitment of the RNA Polymerase II (Pol II) transcription initiation apparatus to promoters by specific DNA binding transcription factors is well recognized as a key regulatory step in gene expression. We describe here evidence that promoter-proximal pausing is a general feature of transcription ...
ORGANISM(S): Mus musculus 
2010-04-02 | E-GEOD-20530 | biostudies-arrayexpress
ProteomicsData for: A practical guide for analysis of histone post-translational modifications by mass spectrometry: best practices and pitfalls
Histone proteomics from 5 human cell lines, discussed in publication: "A practical guide for analysis of histone post-translational modifications by mass spectrometry: best practices and pitfalls". Further explanation of data types, methods, and analysis are available in Data Explanation document in...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
MSV000084298 | MassIVE
Transcriptomicsc-Met confers protection against chronic liver tissue damage and fibrosis progression after bile-duct-ligation in mice
The HGF/c-Met system is an essential inducer of hepatocyte growth and proliferation. Although a fundamental role for the HGF receptor c-Met has been demonstrated in acute liver regeneration its cell specific role in hepatocytes during chronic liver injury and fibrosis progression has not been determ...
ORGANISM(S): Mus musculus 
2009-02-18 | E-GEOD-13992 | biostudies-arrayexpress
TranscriptomicsC-peptide regulates early transcription in rat proximal tubular cells
C-peptide exerts beneficial effects on glomerular hyperfiltration in type I diabetic patients. As C-peptide localizes to the nucleus, we investigated the transcriptional activities of C-peptide in proximal tubular cells isolated from diabetic rats. Two groups of proximal tubular cells isolated from ...
ORGANISM(S): Rattus norvegicus 
2011-07-26 | E-GEOD-24687 | biostudies-arrayexpress
TranscriptomicsPromoter proximal pausing and its regulation by c-Myc in embryonic stem cells: ChIP-chip
Recruitment of the RNA Polymerase II (Pol II) transcription initiation apparatus to promoters by specific DNA binding transcription factors is well recognized as a key regulatory step in gene expression. We describe here evidence that promoter-proximal pausing is a general feature of transcription ...
ORGANISM(S): Mus musculus 
2010-04-02 | E-GEOD-20529 | biostudies-arrayexpress
GenomicsTribbles-1 regulates hepatic lipogenesis through post-transcriptional regulation of C/EBP? [ChIP-Seq]
We report ChIP-Seq data for C/EBPa in livers of mice with liver-specific KO (LSKO) of Trib1 as compared to WT controls, or in livers of mice overexpressing C/EBPa via adeno-associated virus (AAV) as compared to controls. 8-10 week old Trib1 flox/flox mice treated with AAV_Null (WT) or AAV_Cre (LSKO)...
ORGANISM(S): Mus musculus 
2015-07-14 | E-GEOD-70716 | biostudies-arrayexpress
TranscriptomicsComparative Hi-C reveals that CTCF underlies evolution of chromosomal domain architecture.
Topological domains are key architectural building blocks of chromosomes in complex genomes. Their functional importance and evolutionary dynamics are however not well defined. Here we performed comparative Hi-C in liver cells from four mammalian species, and characterized the conservation and dive...
ORGANISM(S): Canis lupus familiaris 
2015-02-26 | E-GEOD-65126 | biostudies-arrayexpress
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