Hello Pietro, Here's a quick update. What we have done, in lieu of creating a full Btau 4.2 browser, is to create a liftOver from the Btau 4.0 assembly (we call this bosTau4) to the newer Btau 4.2 sequence (we call this bosTau5).
You can use either the Convert tool or the liftOver tool to map between the two assemblies: http://genome.ucsc.edu/goldenPath/help/hgTracksHelp.html#Convert Regards, ---------- Ann Zweig UCSC Genome Bioinformatics Group http://genome.ucsc.edu On 03/05/10 10:20, Donna Karolchik wrote: > hi Pietro, > > When the 4.2 assembly was released, we reviewed the release notes and > decided that the changes were not significant enough to merit the > overhead of building a new cow Genome Browser, particularly since the > cow reference paper is based on the 4.0 assembly. We currently do not > have plans to upgrade to the 4.2 assembly. Sorry to not be of more help. > > -Donna > ---------------- > Donna Karolchik > UCSC Genome Browser Project Manager > http://genome.ucsc.edu > > > On 3/4/2010 6:51 AM, Pietro Parma wrote: >> Dear "UCSC Genome web browser", >> I work on cattle genetics and I would like to >> know when It will be possible to work on Btau_4.2 >> assembly (published on April 24, 2009), as in >> your genome browser the most recent assembly is Btau_4.0 >> >> For me it is very important to know if a "better" >> *version of cattle genome will be available soon >> as I'm involved on a physical mapping project by >> FISH, concerning several Unmapped DNA Fragments (CrhUn.004.1 to >> CrhUn.004.50). >> >> Best regards >> >> Pietro Parma >> >> * for "better" I intend a genome version with >> less UnMapped DNA Fragments and less errors in >> some mapped genes (several genes are assembled in >> the genome Btau_4 at a wrong place) >> >> >> >> >> ****************************************** >> <http://users.unimi.it/citozoo/>http://users.unimi.it/citozoo/ >> http://www.dsa.unimi.it/contatti#agraria >> ****************************************** >> Pietro Parma PhD >> Dipartimento di Scienze Animali >> Sezione di Zootecnica Agraria >> Università di Milano >> Via Celoria, 2 >> 20133 Milano - Italia >> >> Tel. 02 5031 6454 >> Fax. 02 5031 6434 >> Email. [email protected] >> Skype Username: pparma >> Email alternativa: [email protected] >> ****************************************** >> _______________________________________________ >> 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
