title: GE Healthcare/Amersham Biosciences CodeLink™   Rat Whole Genome Bioarray
status: Public on Sep 29 2005
contact.city: Tempe
contact.first: Randall
contact.last: Lockner
contact.email: randall.lockner@ge.com
contact.state: AZ
contact.address: 7700 S River Parkway
contact.department: Bioinformatics
contact.country: USA
contact.web_link: http://www.codelinkbioarrays.com
contact.institute: GE Healthcare Life Sciences
contact.phone: 480-722-2311
organism: Rattus norvegicus
description: Well-annotated mRNA or coding sequences were chosen to ensure usefulness for a large range of applications in basic research, biotechnology, and drug development. Each sequence was carefully screened to ensure high-quality, specific probe design, and to reduce redundancy of gene targets. All of the probes designed to these sequences were functionally tested, and over 95% were functionally validated against 10 rat tissues to ensure best representation of the gene and biologically relevant results.
  
  For flexibility and data preservation, CodeLink Rat Whole Genome Bioarrays are compatible with lower density CodeLink rat bioarrays. This means that existing data from CodeLink UniSet™ Rat 10K Bioarrays can be continuously used in future studies along with newly generated data from CodeLink Rat Whole Genome Bioarrays.
  
  CodeLink users can submit data to GEO by exporting tab-delimited text files from the CodeLink software. The "Feature_id" header will need to be renamed to "ID_REF", and the "Normalized_intensity" header to "VALUE" before uploading the exported tables.
  
  In addition, users are encouraged to include additional raw data columns in their data uploads. These additional columns do not need to be renamed.
manufacture_protocol: CodeLink Rat Whole Genome Bioarray is designed to interrogate approximately 34,000 transcripts representing most of the known and predictive genes of the rat genome, as it is described today in the public domain. Each transcript is represented by a 30-mer probe which is designed to conserved exons across the transcripts of targeted genes. The probe sequences, representing well annotated, full length and partial rat gene sequences, were designed based on sequences selected from the NCBI UniGene build #129, RefSeq database (April 1, 2004 release) and dbEST database (March 20, 2004 release).