E-GEOD-7860 - Non-coding antisense transcription detected by conventional and single-stranded cDNA microarray

Status
Released on 1 September 2007, last updated on 2 May 2014
Organism
Homo sapiens
Samples (18)
Array (1)
Protocols (8)
Description
Recent bioinformatic studies revealed that many mammalian protein-coding genes also transcribe their complementary strands. This phenomenon raises questions regarding the validity of data obtained from double-stranded cDNA microarrays since hybridization to both strands may occur. To analyze experimentally the incidence of antisense transcription in human cells and to estimate their influence on protein coding expression patterns obtained by double-stranded microarrays, we profiled transcription with sense and antisense independently by using strand-specific cDNA microarrays. We modeled an experimental design typically used for tumor classification studies. We performed hybridizations using direct-labeled randomly primed total RNA extracted from eight breast-cancer cell lines and one derived from normal breast epithelium against Universal Human Reference RNA as a common reference following standard protocols.
Experiment type
unknown experiment type 
Contacts
Ake Borg, Anders Kvist, Carlos Rovira, Johan Staaf, Johan Vallon-Christersson, Patrik Medstrand
Citation
Non-coding antisense transcription detected by conventional and single-stranded cDNA microarray. Vallon-Christersson J, Staaf J, Kvist A, Medstrand P, Borg A, Rovira C. , Europe PMC 17727707
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-7860.idf.txt
Sample and data relationshipE-GEOD-7860.sdrf.txt
Processed data (1)E-GEOD-7860.processed.1.zip
Array designA-GEOD-4862.adf.txt
Links