miQC: Micro Array Reporter Quality Control and Annotation

The miQC is an Internet tool designed to check and validate the physical reporters (cDNA or oligos) deposited on microarrays and chips. The rational is to project these reporters onto the genome and compare their locations with known gene structures. For cDNA reporters, we use available ESTs to position the clone on the genome, for oligomers the user is currently requested to provide a start-end mapping. The output is both tab delimited text for the analysis of large reporter sets and deriving overall statistics, as well as graphical for individual evaluation of reporters.

Using miQC

Please feel free to submit your reporter lists to our online miQC portal

Screen Shot

CLONE IMAGE:773330:2 EST found: AA425450 (3', polyA=-297): 1 hits on genome AA425587 (5', polyA=-452): 2 hits on genome ==.==> CLONE mapped to genome (2 x) ENSG00000136235(chr 7) GPNMB"Putative transmembrane protein NMB precursor (Tran..."[UG:Hs.389964 ] ENST00000258733 (known, 2654 bp, e!3'UTR: 880 bp, e!5'UTR: 91 bp extending short 5'UTR to: 200 bp!) transcript detected [ 0 bp from end, 1134 bp overlap!] ===> All ENSG00000136235 transcripts are detected! OTTHUMG00000022811(chr 7)GPNMB"glycoprotein (transmembrane) nmb..."[UG:] OTTHUMT00000059132 (known, 2658 bp, e!3'UTR: 884 bp, e!5'UTR: 91 bp extending short 5'UTR to: 200 bp!) transcript detected [ 0 bp from end, 1138 bp overlap!] ===> All OTTHUMG00000022811 transcripts are detected! Multiple genes detected (2)!

Financial Support

This software project was funded in whole by the European Commission, contract-no. QLRI-CT-2001-00015 (TEMBLOR) under the RTD programme "Quality of Life and Management of Living Resources"