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TranscriptomicsSmall RNA expression and strain specificity in the rat
Background Digital gene expression (DGE) profiling has become an established tool to study RNA expression. Here, we provide an in-depth analysis of small RNA DGE profiles from two different rat strains (BN-Lx and SHR) from six different rat tissues (spleen, liver, brain, testis, heart, kidney). We ...
ORGANISM(S): Rattus norvegicus 
2010-02-17 | E-GEOD-19054 | biostudies-arrayexpress
GenomicsE2F7 represses a transcriptional network of oscillating cell cycle genes to control S-phase progression.
E2F transcription factors are known to be important for timely activation of G1/S and G2/M genes required for cell cycle progression, but transcriptional mechanisms for deactivation of cell cycle regulated genes are unknown. Here, we show that E2F7 is highly expressed during mid to late S-phase, occ...
ORGANISM(S): Homo sapiens 
2012-01-04 | E-GEOD-32673 | biostudies-arrayexpress
TranscriptomicsLimitations and possibilities of small RNA digital gene expression profiling: spleen and liver comparison (SOLiD)
Analysis of RNA samples by massive parallel sequencing holds the promise to assay gene expression in both a quantitative and qualitative fashion and therefore allows for digital gene expression (DGE) profiling. We assessed the effect of different experimental approaches by generating small RNA libra...
ORGANISM(S): Rattus norvegicus 
2009-07-28 | E-GEOD-16371 | biostudies-arrayexpress
TranscriptomicsLimitations and possibilities of small RNA digital gene expression profiling: synthetic miRNAs replicates (SOLiD)
Analysis of RNA samples by massive parallel sequencing holds the promise to assay gene expression in both a quantitative and qualitative fashion and therefore allows for digital gene expression (DGE) profiling. We assessed the effect of different experimental approaches by generating small RNA libra...
ORGANISM(S): Homo sapiens 
2009-07-28 | E-GEOD-16372 | biostudies-arrayexpress
TranscriptomicsLimitations and possibilities of small RNA digital gene expression profiling: library preparation comparison (SOLiD)
Analysis of RNA samples by massive parallel sequencing holds the promise to assay gene expression in both a quantitative and qualitative fashion and therefore allows for digital gene expression (DGE) profiling. We assessed the effect of different experimental approaches by generating small RNA libra...
ORGANISM(S): Rattus norvegicus 
2009-07-28 | E-GEOD-16370 | biostudies-arrayexpress
TranscriptomicsLimitations and possibilities of small RNA digital gene expression profiling
Analysis of RNA samples by massive parallel sequencing holds the promise to assay gene expression in both a quantitative and qualitative fashion and therefore allows for digital gene expression (DGE) profiling. We assessed the effect of different experimental approaches by generating small RNA libra...
ORGANISM(S): Rattus norvegicus 
2009-07-28 | E-GEOD-16374 | biostudies-arrayexpress
TranscriptomicsLimitations and possibilities of small RNA digital gene expression profiling: synthetic miRNA replicates (Illumina)
Analysis of RNA samples by massive parallel sequencing holds the promise to assay gene expression in both a quantitative and qualitative fashion and therefore allows for digital gene expression (DGE) profiling. We assessed the effect of different experimental approaches by generating small RNA libra...
ORGANISM(S): Homo sapiens 
2009-07-28 | E-GEOD-16373 | biostudies-arrayexpress
TranscriptomicsLimitations and possibilities of small RNA digital gene expression profiling: library preparation comparison (454)
Analysis of RNA samples by massive parallel sequencing holds the promise to assay gene expression in both a quantitative and qualitative fashion and therefore allows for digital gene expression (DGE) profiling. We assessed the effect of different experimental approaches by generating small RNA libra...
ORGANISM(S): Rattus norvegicus 
2009-07-28 | E-GEOD-16369 | biostudies-arrayexpress
GenomicsIntegrated genome-wide analysis of transcription factor occupancy, RNA polymerase II binding and steady-state RNA levels identify differentially regulated functional gene classes
Routine methods for assaying steady-state mRNA levels such as RNA-seq and micro-arrays are commonly used as readouts to study the role of transcription factors (TFs) in gene expression regulation. However, cellular RNA levels do not solely depend on activity of TFs and subsequent transcription by RN...
ORGANISM(S): Homo sapiens 
2012-03-09 | E-GEOD-36349 | biostudies-arrayexpress
TranscriptomicsDeciphering the Wnt-dependent gene signature in colorectal cancer cells
Microarray-based gene expression data were generated from RNA from Ls174T colorectal carcinoma cell lines in which Wnt-dependent transcriptional activity can be abrogated by inducible overexpression of a dominant-negative form of Tcf4 or siRNA against M-NM-2-catenin. shRNA against M-NM-2-catenin, or...
ORGANISM(S): Homo sapiens 
2011-11-29 | E-GEOD-18560 | biostudies-arrayexpress
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