I have a list of 40,000 SNPs (scattered throughout the human genome). I would like to attribute conservation scores to each variant. I would like to use GERP scores.
However, looking at your DB schema, I understand that using MySQL will not be an option to interrogate specific base-pair coordinates/SNPs and obtain GERP. Furthermore, I have tried to locate the GEPR scores file on you ftp, but this data does not appear to be available (or at least I cannot find it). Can you suggest a way I can locate GERP information for either i) SNPs 'on the fly' (MySQL or API), or ii) download genome-wide GERP data. Best wishes Chris This message and any attachment are intended solely for the addressee and may contain confidential information. If you have received this message in error, please send it back to me, and immediately delete it. Please do not use, copy or disclose the information contained in this message or in any attachment. Any views or opinions expressed by the author of this email do not necessarily reflect the views of the University of Nottingham. This message has been checked for viruses but the contents of an attachment may still contain software viruses which could damage your computer system: you are advised to perform your own checks. Email communications with the University of Nottingham may be monitored as permitted by UK legislation. _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
