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TranscriptomicsMG1655 Flagellar Regulators RNA-seq
This experiment contains RNA-seq data for a motile derivative of MG1655 and isogenic strains with deletions of each flagellar regulator: flhD, flhC, and fliA. All strains were grown at 37 degrees C in LB. After RNA purification, ribosomal RNA was removed using RiboZero and a library was made of rema...
ORGANISM(S): Escherichia coli str. K-12 substr. MG1655 
2014-08-01 | E-MTAB-2802 | biostudies-arrayexpress
GenomicsKLF5 ChIP-seq in CP-A and OE19 cells
To identify DNA binding sites of KLF5 in CP-A and OE19 cells, we carried out ChIP-seq.
ORGANISM(S): Homo sapiens 
2020-09-30 | E-MTAB-8568 | biostudies-arrayexpress
TranscriptomicsIntegrated analysis of genome-wide copy number and matched expression data reveals novel genes in esophageal adenocarcinoma
The incidence of esophageal and junctional adenocarcinoma has increased 6-fold in the west in the last 30 years and 5 year survival remains <14%. We aimed to characterize genome-wide aberrations in esophageal adenocarcinoma to further understand disease pathogenesis and ultimately identify groups wi...
ORGANISM(S): Homo sapiens 
2011-05-09 | E-GEOD-25201 | biostudies-arrayexpress
TranscriptomicsStromal gene expression in human esophageal cancer
The incidence of esophageal and junctional adenocarcinoma has increased 6 fold in the last 30 years and 5 year survival remains less than 14%. Once considered an inert scaffold, the stromal compartment is now recognized to play a central role in invasive cancer. However, whether the stroma plays a r...
ORGANISM(S): Homo sapiens 
2010-06-24 | E-GEOD-19632 | biostudies-arrayexpress
TranscriptomicsUsing DNA methylation to detect dysplasia/early neoplasia in Barrett's carcinogenesis
Dysplasia and early cancer are hard to detect in endoscopic biopsies and hence this study was carried out to evaluate the biomarker potential of DNA methylation to detect dyspasia and early cancer in Barrett's esophaghus patients. Bisulfite converted genomic DNA was hybridized onto Illumina 27k meth...
ORGANISM(S): Homo sapiens 
2013-01-28 | E-GEOD-32925 | biostudies-arrayexpress
TranscriptomicsHuman esophageal adenocarcinomas
The incidence of esophageal and junctional adenocarcinoma has increased 6 fold in the last 30 years and 5 year survival remains less than 14%. Most patients present with advanced disease and current staging is limited in its ability to predict survival. We aimed to generate and validate a molecular ...
ORGANISM(S): Homo sapiens 
2010-06-01 | E-GEOD-19417 | biostudies-arrayexpress
TranscriptomicsHigh resolution Hi-C analysis in S. pombe reveals fundamental elements of genome architecture [microarray CGH]
Eukaryotic genomes are folded into three-dimensional structures that govern diverse hromosomal procsses. Studeis in Drosophila and mammals have revealed large self-associating tomological domains whose borders are enriched in cohesin/CTCF factors that are required for long-range intrations. Howeve...
ORGANISM(S): Schizosaccharomyces pombe 
2014-10-22 | E-GEOD-56847 | biostudies-arrayexpress
TranscriptomicsHigh resolution Hi-C analysis in S. pombe reveals fundamental elements of genome architecture
This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
ORGANISM(S): Schizosaccharomyces pombe 
2014-10-22 | E-GEOD-56849 | biostudies-arrayexpress
TranscriptomicsRNA-seq of MG1655 wt and MG1655 delta-phoB strains grown in MOPS media with low phosphate (0.2 mM)
We used RNA-seq to determine differences in RNA levels between wild-type E. coli K-12 and a ΔphoB mutant, each grown in MOPS media with low phosphate (0.2 mM).
ORGANISM(S): Escherichia coli str. K-12 substr. MG1655 
2020-07-12 | E-MTAB-9292 | biostudies-arrayexpress
TranscriptomicsRNA-seq of MG1655 wt and MG1655 delta-phoB strains grown in MOPS media with low phosphate (0.2 mM)
We used RNA-seq to determine differences in RNA levels between wild-type E. coli K-12 and a ΔphoB mutant, each grown in MOPS media with low phosphate (0.2 mM).
ORGANISM(S): Escherichia coli O17 
2020-10-03 | E-MTAB-9591 | biostudies-arrayexpress
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