Hello, A file containing this information exists. You can extract it from the Table browser or use ftp to our Downloads area.
Table browser: http://genome.ucsc.edu/cgi-bin/hgTables (help links are in top paragraph) 1. Set clade, genome, assembly, group = Gene and Gene Pred., track = UCSC Genes 2. Scroll to table = knownToU133Plus2 (click on "describe table schema" to understand format) 3. Output complete table by naming and downloading You may also want to explore other related tables, merge/filter, and download To directly ftp from Downloads http://hgdownload.cse.ucsc.edu/downloads.html use these instructions: http://genome.ucsc.edu/FAQ/FAQdownloads#download1 ftp path: goldenPath/hg18/database/knownToU133Plus2.txt.gz Thanks, Jennifer Jackson UCSC Genome Bioinformatics Group Rodriguez, Benjamin wrote: > > > I am working with data identified by UCSC known gene IDs (hg18) and would > like to request a table with all U133Plus2 probeset IDs for each knownGene. > >From what I gather, it would be most straightforward to obtain those probeset > IDs whose sequences met the criteria for used for BLAT alignments to UCSC > known genes. > > > > Searching the archives, I found that in May 2007 Rachel Harte had offered to > generate a similar table for someone asking about the knownToU133Plus2 file. > > I tried to extract this data from the Affy U133Plus2 annotation file, but it > is beyond my level of skill. Your help would be most appreciated. > > > > Regards, > > Ben Rodriguez > > _______________________________________________ > Genome maillist - [email protected] > http://www.soe.ucsc.edu/mailman/listinfo/genome > _______________________________________________ Genome maillist - [email protected] http://www.soe.ucsc.edu/mailman/listinfo/genome
