Hi Katie, The GRCh37 assembly on our site is the same GRCh37 as NCBI. From our assembly gateway page (http://genome.ucsc.edu/cgi-bin/hgGateway) we link to this page on NCBI: http://www.ncbi.nlm.nih.gov/projects/genome/assembly/grc/human/data/?build=37 which is the version we used on our site.
NCBI has been patching the data since it was originally released which is why you are seeing differences between our data and the GRCh37 p2 version. Here is the information on the patches: http://www.ncbi.nlm.nih.gov/projects/genome/assembly/grc/human/index.shtml# On our site, there is no way to compare our data with the patched versions. I hope that this helps clarify things for you. Vanessa Kirkup Swing UCSC Genome Bioinformatics Group ---------- Forwarded message ---------- From: Katie Doan <[email protected]> Date: Thu, Jun 30, 2011 at 11:27 AM Subject: [Genome] UCSC and NCBI assembly To: [email protected] Cc: Angelica Omaiye <[email protected]> Hi, I am Katie Doan, currently working for Sound Choice Pharmaceutical company. I have some questions related to assemblies and coordinates between UCSC and NCBI. I realized that NCBI is using GRCh37 p2 and UCSC is GRCh37/hg19. Are these two assemblies the same? However, the coordinates of a gene between UCSC and NCBI are different. Is there a way to convert coordinates between NCBI to UCSC and vice versa? Thanks, Doan _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
