Is there a mart for aceview available for GenomeGraphs? I'm looking to be able to query using aceview varient names. And when installing a local version of the ensembl_mart_50, where would I find the .sql file and the tables meta_conf__dataset__main.txt.table meta_conf__xml__dm.txt.table.? Thank you. Amanda Miotto a.miotto at griffith.edu.au Software Engineer. Research Computing Services INFORMATION SERVICES Griffith University, NATHAN 4111, AUSTRALIA Phone: +61 7 37354419 Fax: +61 7 37356650 Web: http://eResearch.griffith.edu.au/ PRIVILEGED - PRIVATE AND CONFIDENTIAL: This email and any files transmitted with it are intended solely for the use of the addressee(s) and may contain information which is confidential or privileged. If you receive this email and you are not the addressee(s) [or responsible for delivery of the email to the addressee(s)], please disregard the contents of the email, delete the email and notify the author immediately.

Hi Amanda, To know if the aceview information is available in Ensembl I would contact the Ensembl helpdesk at helpdesk at ensembl.org For a local Ensembl installation and queries with biomaRt: You can find the tables for a local Mart installation here: ftp://ftp.ensembl.org/pub/current_mysql/ensembl_mart_50/ You can create the ensembl_mart_50 tables with the sql script from: ensembl_mart_50.sql.gz For the human dataset you'll definitely need the data from the files below to fill the tables with the same table names (omitting .txt.gz): hsapiens_gene_ensembl__gene__main.txt.gz meta_conf__dataset__main.txt.gz meta_conf__xml__dm.txt.gz Depending on which queries you want to make, you'll need additional hsapiens tables. Cheers, Steffen > > Is there a mart for aceview available for GenomeGraphs? I'm looking to be > able to query using aceview varient names. And when installing a local > version of the ensembl_mart_50, where would I find the .sql file and the > tables meta_conf__dataset__main.txt.table > meta_conf__xml__dm.txt.table.? > > Thank you. > > > > Amanda Miotto > a.miotto at griffith.edu.au > > Software Engineer. > Research Computing Services > INFORMATION SERVICES > Griffith University, NATHAN 4111, AUSTRALIA > Phone: +61 7 37354419 Fax: +61 7 37356650 > Web: http://eResearch.griffith.edu.au/ > > PRIVILEGED - PRIVATE AND CONFIDENTIAL: > This email and any files transmitted with it are intended solely for > the use of the addressee(s) and may contain information which is > confidential or privileged. If you receive this email and you are > not the addressee(s) [or responsible for delivery of the email to the > addressee(s)], please disregard the contents of the email, delete the > email and notify the author immediately. > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor >