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TranscriptomicsIdentification of promoter sequence elements involved in specific recognition by the ?S subunit of bacterial RNA polymerase.
Promoter recognition by bacterial RNA polymerase is mediated by ? subunits, which assemble transiently to RNA polymerase core enzyme (E) during transcription initiation. ? subunits drive transcription of specific sets of genes by allowing RNA polymerase to interact with different promoter sequences....
ORGANISM(S): Escherichia coli str. K-12 substr. MG1655 
2011-05-31 | E-GEOD-22207 | biostudies-arrayexpress
TranscriptomicsComparative Genomics Reveals New Molecular targets for Accelerated Improvement of Erythromycin-producing Strains
Information about molecular mechanisms underlying improvement of antibiotic-producing microorganisms with traditional mutation and screening approach is largely missing. This information is essential to develop rational approaches to strain improvement. In this study by using comparative genomic ana...
ORGANISM(S): Saccharopolyspora erythraea 
2012-05-23 | E-GEOD-30600 | biostudies-arrayexpress
GenomicsGenome-wide Definition of Promoter and Enhancer Usage During Neural Induction of Human Embryonic Stem Cells [ChIP-seq]
Genome-wide mapping of transcriptional regulatory elements are essential tools for the understanding of the molecular events orchestrating self-renewal, commitment and differentiation of stem cells. We combined high-throughput identification of nascent, Pol-II-transcribed RNAs by Cap Analysis of Gen...
ORGANISM(S): Homo sapiens 
2015-05-21 | E-GEOD-61265 | biostudies-arrayexpress
TranscriptomicsComparative genomics reveals new molecular targets for accelerated strain improvement of rifamycin B-producing strains
In the present study, we have used a genomic approach to understand how the classical mutate-and-screen method actually generated an improved rifamycin B producer. Compared with the reference strains Amycolatopsis mediterranei S699 (rifamycin B producer) and U32 (rifamycin SV producer), a total of 2...
ORGANISM(S): Amycolatopsis mediterranei S699 
2014-08-26 | E-GEOD-51015 | biostudies-arrayexpress
TranscriptomicsGenome-wide Definition of Promoter and Enhancer Usage During Neural Induction of Human Embryonic Stem Cells [CAGE-seq]
Genome-wide mapping of transcriptional regulatory elements are essential tools for the understanding of the molecular events orchestrating self-renewal, commitment and differentiation of stem cells. We combined high-throughput identification of nascent, Pol-II-transcribed RNAs by Cap Analysis of Gen...
ORGANISM(S): Homo sapiens 
2015-05-21 | E-GEOD-61264 | biostudies-arrayexpress
TranscriptomicsGenome-wide Definition of Promoter and Enhancer Usage During Neural Induction of Human Embryonic Stem Cells [gene expression profile]
Genome-wide mapping of transcriptional regulatory elements are essential tools for the understanding of the molecular events orchestrating self-renewal, commitment and differentiation of stem cells. We combined high-throughput identification of nascent, Pol-II-transcribed RNAs by Cap Analysis of Gen...
ORGANISM(S): Homo sapiens 
2015-05-21 | E-GEOD-61266 | biostudies-arrayexpress
TranscriptomicsGenotyping of human clear cell renal carcinoma tissue and matched normal blood samples using Affymetrix GeneChip Human Mapping 50K Array Hind 240 to identify copy number changes and regions of loss of heterozygosity
We performed a genome-wide assessment of copy number alterations and LOH regions in a collection of cleal cell renal carcinoma tissue samples as compared to matched normal blood samples. Affymetrix GeneChip Human Mapping 100K SNP arrays were used. This experiment includes GeneChip Human Mapping 50K ...
ORGANISM(S): Homo sapiens 
2008-01-16 | E-TABM-283 | biostudies-arrayexpress
TranscriptomicsGenotyping of human clear cell renal carcinoma tissue and matched normal blood samples using Affymetrix GeneChip Human Mapping 50K Array Xba 240 to identify copy number changes and regions of loss of heterozygosity
We performed a genome-wide assessment of copy number alterations and LOH regions in a collection of clear cell renal carcinoma tissue samples as compared to matched normal blood samples. Affymetrix GeneChip Human Mapping 100K SNP arrays were used. This experiment includes GeneChip Human Mapping 50K ...
ORGANISM(S): Homo sapiens 
2008-01-16 | E-TABM-284 | biostudies-arrayexpress
TranscriptomicsGrowth competition experiment on the Yeast Homozygous Diploid Deletion Pool to investigate which ORFs conferred an advantage/disadvantage when growing on both standard and high concentration of oleic acid
The combination of genetic analysis and genome-wide expression profiles make Saccharomyces cerevisiae the cradle of Systems Biology. The way S. cerevisiae uses carbon sources has long been a landmark for studies concerning cellular responses to environmental conditions. S. cerevisiae conserves the e...
ORGANISM(S): Saccharomyces cerevisiae 
2012-04-25 | E-GEOD-21620 | biostudies-arrayexpress
TranscriptomicsEvaluation of different responses of the intestinal microbiota to a TNF-M-NM-1 mediated pro-inflammatory stimulus by the HTF-Microbi.Array
We developed a non-invasive ex vivo HT29 cell-based minimal model to fingerprint the mucosa-associated microbiota fraction in humans. HT29 cell-associated fractions were characterized by the universal phylogenetic array platform HTF-Microbi.Array, both in presence or in absence of a TNF-M-NM-1-media...
ORGANISM(S): human gut metagenome 
2013-09-26 | E-GEOD-51177 | biostudies-arrayexpress
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