Hi Stephan, One additional piece of information that I inadvertently neglected to mention is that the hg18 refFlat.txt file is automatically updated nightly as part of our GenBank data updates and so it should be up-to-date with the NCBI Build 36.3 annotations.
Please see this FAQ on our web site for more information about the GenBank data updates: http://genome.ucsc.edu/FAQ/FAQreleases#release6 Thank you, Katrina Learned UCSC Genome Bioinformatics Group Katrina Learned wrote: > Hi Stephan, > > UCSC Genome Browser resources corresponding with NCBI Build 36.3 were > not developed because the underlying genomic assembly between NCBI Build > 36.3 and NCBI Build 36.1, which is the basis for our hg18 assembly, is > the same. > > The only changes between 36.1 and 36.3 were to NCBI's annotations. For > purposes of translating genome coordinates, 36.1 and 36.3 are identical. > Therefore, we suggest that you use the refFlat.txt file corresponding to > 36.1 (hg18) in your analysis. > > For more information about the NCBI Build 36.3 release, please see the > following link: > http://www.ncbi.nlm.nih.gov/genome/guide/human/release_notes.html#36.3assembly > > > > Please don't hesitate to contact the mail list again if you require > further assistance. > > Katrina Learned > UCSC Genome Bioinformatics Group > > > Stephan Nouwens wrote: > >> Dear Genome, >> >> I'm a student working at the Erasmus MC ( bioinformtics department ) and >> working on creating a casava build on eland_paired data based upon the >> 36.3 build of the genome to run Genome studie supplied by Illumina. >> However I can't find the matching refFlat.txt file corresponding to this >> build ( which means I'm missing the correct exon_coords file )? I only saw >> the 36.1 and 17 available on your website. Is there some way to obtain >> this file or create it by myself. >> >> cheers, >> >> stephan >> >> _______________________________________________ >> Genome maillist - [email protected] >> https://lists.soe.ucsc.edu/mailman/listinfo/genome >> >> > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
