Yu, We don't have a table showing this information, but one thing you could do would be to look through the Gene Ontology data to glean something useful. One of our developers has suggested the following strategy:
If you know the location already, such as your example, nucleus, you could do a query like this: mysql> select * from term where term_type = 'cellular_component' and name like "nucleus"; +------+---------+--------------------+------------+-------------+---------+ | id | name | term_type | acc | is_obsolete | is_root | +------+---------+--------------------+------------+-------------+---------+ | 3814 | nucleus | cellular_component | GO:0005634 | 0 | 0 | +------+---------+--------------------+------------+-------------+---------+ Then, with the GO Id in hand, you could see which genes it connects to. This is addressed in a previously answered mailing list question here: http://lists.soe.ucsc.edu/pipermail/genome/2008-June/016605.html I hope this information is helpful to you. Please don't hesitate to contact us again if you require further assistance. Kayla Smith UCSC Genome Bioinformatics Group ----- "Yuan Jian" <[email protected]> wrote: > Hello, > > In USCS genome, is there a table showing physical positions for all > proteins? > for example, histone proteins are located in nucleus. > > thanks > > Yu > > > > Need a Holiday? Win a $10,000 Holiday of your choice. Enter > now.http://us.lrd.yahoo.com/_ylc=X3oDMTJxN2x2ZmNpBF9zAzIwMjM2MTY2MTMEdG1fZG1lY2gDVGV4dCBMaW5rBHRtX2xuawNVMTEwMzk3NwR0bV9uZXQDWWFob28hBHRtX3BvcwN0YWdsaW5lBHRtX3BwdHkDYXVueg--/SIG=14600t3ni/**http%3A//au.rd.yahoo.com/mail/tagline/creativeholidays/*http%3A//au.docs.yahoo.com/homepageset/%3Fp1=other%26p2=au%26p3=mailtagline > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
