Hi Sim, This table, ccdsKgMap, maps between CCDS ids and Known Genes by similarity:
http://hgdownload.cse.ucsc.edu/goldenPath/hg19/database/ccdsKgMap.txt.gz Here is the schema: http://genome.ucsc.edu/cgi-bin/hgTables?hgta_doSchemaDb=hg19&hgta_doSchemaTable=ccdsKgMap Unfortunately, we don't have a table that has all 4. If you have further questions, please contact the mailing list: [email protected]. Vanessa Kirkup Swing UCSC Genome Bioinformatics Group ---------- Forwarded message ---------- From: SIM Ngak Leng <[email protected]> Date: Wed, Jun 15, 2011 at 7:21 PM Subject: [Genome] Matching between gene annotation sources To: "[email protected]" <[email protected]> Greetings, I'm interested in matching between 4 gene annotation sources, namely CCDS, UCSC Known, Ensembl and RefSeq. I understand that the UCSC provides mappings between UCSC Known and Ensembl, and between Known and RefSeq. knownToEnsembl.txt.gz knownToRefSeq.txt.gz However, I can't seem to find the mapping for CCDS and known. Is there a file for this? Also, is there a table that maps all 4 annotation sources instead of one to one? Thanks in advance. Regards, Sim Ngak Leng Computational and Mathematical Biology 8 Genome Institute of Singapore _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
