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TranscriptomicsGenome-wide expression erofiling of an in vitro model for studying esophageal epithelial differentiation
We used RNA sequencing to identify differentially expressed genes during esophageal epithelial differentiation and in the presence of interleukin 13 using an air-liquid interface culture system. RNA sequencing was performed on a human esophageal epithelial cell line (EPC2-hTERT) grown submerged (day...
ORGANISM(S): Homo sapiens 
2015-02-01 | E-GEOD-65335 | biostudies-arrayexpress
TranscriptomicsA high throughput in vivo protein-DNA mapping approach reveals principles of dynamic gene regulation in mammals (RNA-Seq)
Dynamic binding of transcription factors to DNA elements specifies gene expression and cell fate, in both normal physiology and disease. To date, our understanding of mammalian gene regulation has been hampered by the difficulty of directly measuring in vivo binding of large numbers of transcription...
ORGANISM(S): Mus musculus 
2012-09-11 | E-GEOD-36103 | biostudies-arrayexpress
TranscriptomicsNovel Observations from Next Generation RNA Sequencing of Highly Purified Human Adult and Fetal Islet Cell Subsets
Understanding distinct gene expression patterns of normal adult and developing fetal human pancreatic a and b cells is crucial for developing stem cell therapies, islet regeneration strategies, and therapies designed to increase b cell function in patients with diabetes (type 1 or 2). Toward that en...
ORGANISM(S): Homo sapiens 
2015-06-08 | E-GEOD-67543 | biostudies-arrayexpress
TranscriptomicsDistribution of elongating and total RNA polymerase II in xrn1 mutants using GRO and RPCC
This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
ORGANISM(S): Saccharomyces cerevisiae 
2013-05-22 | E-GEOD-43605 | biostudies-arrayexpress
UnknownMultimodal assessment of protein functional deficiency supports pathogenicity of BRCA1 p.V1688del.
Not available
S-EPMC2748232 | biostudies-literature
TranscriptomicsGenomic Run-On (GRO): determination of the nascent transcriptional rate and mRNA amount in Xrn1 mutants
Maintaining the proper mRNA levels is a key aspect in the regulation of gene expression. The balance between mRNA synthesis and decay determines these levels. Using a whole-genome analysis, we demonstrate that most yeast mRNAs are degraded by the 5'-to-3' pathway (the "decaysome"), as prop...
ORGANISM(S): Saccharomyces cerevisiae 
2013-05-22 | E-GEOD-29519 | biostudies-arrayexpress
GenomicsSIRT6 suppresses pancreatic cancer through control of Lin28b [ChIP-seq]
Chromatin remodeling proteins are frequently dysregulated in human cancer, yet little is known about how they control tumorigenesis. Here, we uncover an epigenetic program mediated by the NAD+-dependent histone deacetylase Sirtuin 6 (SIRT6) that is critical for suppression of pancreatic ductal adeno...
ORGANISM(S): Mus musculus 
2016-04-01 | E-GEOD-79503 | biostudies-arrayexpress
TranscriptomicsRheumatoid arthritis and anti-TNF treatment
In 15 patients with rheumatoid arthritis the baseline expression (t=0) of type I IFN-regulated genes was determined in peripheral blood cells (PAXgene) using cDNA-microarrays and compared to levels one month after (t=1) anti-TNF treatment (infliximab). Therefore, we used 43K cDNA microarrays from th...
ORGANISM(S): Homo sapiens 
2010-06-24 | E-GEOD-19821 | biostudies-arrayexpress
TranscriptomicsDistribution of total RNA polymerase II along the 5'/3' regions in xrn1 mutants
Determination of 3' or 5' intragenic RNA pol II occupancy. Maintaining the proper mRNA levels is a key aspect in the regulation of gene expression. The balance between mRNA synthesis and decay determines these levels. Using a whole-genome analysis, we demonstrate that most yeast mRNAs are degraded ...
ORGANISM(S): Saccharomyces cerevisiae 
2013-05-22 | E-GEOD-43604 | biostudies-arrayexpress
TranscriptomicsDistribution of elongating RNA polymerase II along the 5'/3' regions in xrn1 mutants
Determination of the 3' or 5' intragenic nascent transcriptional rate. Maintaining the proper mRNA levels is a key aspect in the regulation of gene expression. The balance between mRNA synthesis and decay determines these levels. Using a whole-genome analysis, we demonstrate that most yeast mRNAs a...
ORGANISM(S): Saccharomyces cerevisiae 
2013-05-22 | E-GEOD-43602 | biostudies-arrayexpress
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