E-SMDB-2651 - Transcription profiling of 10 individual human cell lines to identify unique genes contributed by individual cell lines to UHRR
Submitted on 1 November 2005, released on 1 November 2005, last updated on 4 June 2014
Total RNA isolated from 10 individual human cell lines were reverse-transcribed to cDNA, labeled with Cy5 and co-hybridized with Cy3-labeled UHRR onto 43,000-spot cDNA microarrays (Stanford University). The data was analyzed using GeneTraffic software. Approximately 6000-8000 spots out of 43,000 (14-18 %) were flagged on each microarray and excluded from further analysis. Spots with hybridization signals in Cy5 channel higher than 1000 and with Cy5/Cy3 ratio greater than 2 were collected and the number of spots with these characteristics in only one cell line was determined.
transcription profiling by array, reference
Universal Reference RNA as a standard for microarray experiments. Novoradovskaya N, Whitfield ML, Basehore LS, Novoradovsky A, Pesich R, Usary J, Karaca M, Wong WK, Aprelikova O, Fero M, Perou CM, Botstein D, Braman J. BMC Genomics 5(1):20 (2004), Europe PMC 15113400