A general framework for optimization of probes for gene expression microarray and its application to the fungus Podospora anserina

ABSTRACT: A genome wide microarray, covering the 10546 presently known and predicted CDS, has been constructed with the Agilent in-situ synthesized 60-mers technology. 1) A library of 10 oligonucleotides per CDS has been design by the manufacturer. 2) A computational step has been performed to determine 3' position, intron position and cross-hybridization rate of all probes. These data have been compiled to attribute a score to each probe and thus, to select a first set of 4 oligonucleotides per CDS. 3) Microarray v.2 (GPL10115), manufactured with this design, have been used for a selection procedure based on the use of transcriptomic experimental data generated with diverse culture conditions. To maximize the number of expressed CDS, experimental data were generated with a large range of growth con

ORGANISM(S): Podospora anserina

SUBMITTER: Frederique Bidard 

PROVIDER: E-GEOD-20734 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress