E-GEOD-6106 - Transcription profiling of mouse brain and kidney Sense-antisense transcript comparison

Status
Released on 14 June 2008, last updated on 27 March 2012
Organism
Mus musculus
Samples (7)
Arrays (5)
Protocols (7)
Description
Comparison of sense (forward probes) and antisense (reverse probes on U74 v1 gene arrays) transcripts in mouse kidney and brain. Positive calls related to antisense transcripts were compared to the cognate signals on the 430 version of mouse genome arrays to obtain genes that co expressed sense and antisense transcripts. This had to be done manually because divergent probe IDs on the two chip generations. Experiment Overall Design: The first Affymetrix U74 mouse gene chips contains reversely oriented probe sets. These probes will hybridize to natural antisense transcripts that overlap with the sense transcript in the cognate area. Affymetrix provided a mask to identify the reverse probes. Positive calls with these reverse probes will give an estimate of the antisense transcriptome in that particular tissue. Comparison of the reversely oriented probes with correctly annotated probes will reveal the expression ratio of sense and antisense transcripts.
Experiment types
transcription profiling by array, unknown experiment type
Contact
Citation
Expression profiling of antisense transcripts on DNA arrays. Andreas Werner, Gabriele Schmutzler, Mark Carlile, Colin G Miles, Heiko Peters.
MIAME
PlatformsProtocolsFactorsProcessedRaw
Files
Links