Hi Hiram, What organism genome assembly are you using ? -- Human, mouse, zebrafish and medaka.
The item 'uc001acj.1' can be searched in http://genome.ucsc.edu/. We use a private genome browser, how to update our tables and /gbdb/ ? Thanks & Regards Wuqi -----Original Message----- From: Hiram Clawson [mailto:[email protected]] Sent: Tuesday, April 07, 2009 9:44 PM To: WANG Wuqi Cc: [email protected] Subject: Re: Search errors in GBrowser What genome browser WEB site are you using ? What organism genome assembly are you using ? Both of your example searches appear to work just fine at http://genome.ucsc.edu/ If this is your private genome browser, perhaps your tables and /gbdb/ files need an update ? --Hiram WANG Wuqi wrote: > > > Hi Hiram, > > > > In Gbrowser, to encounter below errors when search 'uc001acj.1': > > > > Sorry, couldn't locate uc001acj.1 in genome database > > > > But when try to search 'uc001aab.1', it is ok. > > > > i.e. some search can be done, some can not. > > > > > > And, when I search 'uc001acj.1', in MYSQL trace log file to find below > > Mysql statements: > > ----------------------. > > 14553 Connect reado...@localhost on hg18 > > 14553 Quit > > 14552 Query select chrom,chromStart,chromEnd,name > > from DHP001fr_hg18_07032008_A_v1 where name like > '%uc001acj.1%' > > 14554 Connect reado...@localhost on hg18 > > 14554 Quit > > 14552 Query select name,chrom,txStart,txEnd from knownGene > > where name in ("uc001acj.2") > > 14552 Query select kgID,geneSymbol,description > > from kgXref where kgID in ("uc001acj.2") > > 14555 Connect reado...@localhost on hg18 > > 14555 Quit > > 14552 Query select chrom,chromStart,chromEnd,name from switchDbTss > > > where name like 'uc001acj.1%' > > ----------------------. > > > > It is strange, I search "uc001acj.1", but see "uc001acj.2" in sql. > > > > > > Please help > > > > > > Thanks & Regards > > > > Wuqi > > > > _______________________________________________ Genome maillist - [email protected] http://www.soe.ucsc.edu/mailman/listinfo/genome
