Hello, Tanvir. For an explanation of the chromosome names, please see the hg19 gateway page at http://genome.ucsc.edu/cgi-bin/hgGateway?org=Human&db=hg19. Scroll down to "Chromosome naming scheme" in the "Assembly Details" section. You may also want to read the FAQ at http://genome.ucsc.edu/FAQ/FAQdownloads.html#download10.
Please contact us again at [email protected] if you have any further questions. --- Steve Heitner UCSC Genome Bioinformatics Group -----Original Message----- From: [email protected] [mailto:[email protected]] On Behalf Of Tanvir Alam Sent: Wednesday, February 22, 2012 1:11 AM To: [email protected]; [email protected] Subject: [Genome] Meaning of Chromosome name in refGene table Dear UCSC admin, I am using following refseq gene table(*Database:* hg19 *Primary Table:* refGene *Row Count:* 41,748 ) of human genome 19 for my research analysis . But some of the chromosome names are confusing. *Can you please inform from where i can get the meaning of those chromosome names. *The name of those chromosomes are followings: CHR6_APD_HAP1 CHR6_COX_HAP2 CHR6_DBB_HAP3 CHR6_MCF_HAP5 CHR6_QBL_HAP6 CHR4_CTG9_HAP1 CHR6_MANN_HAP4 CHR6_SSTO_HAP7 CHRUN_GL000211 CHRUN_GL000212 CHRUN_GL000218 CHRUN_GL000219 CHRUN_GL000220 CHRUN_GL000222 CHRUN_GL000223 CHRUN_GL000228 CHR17_CTG5_HAP1 CHR1_GL000191_RANDOM CHR4_GL000193_RANDOM CHR4_GL000194_RANDOM CHR7_GL000195_RANDOM CHR17_GL000205_RANDOM CHR19_GL000209_RANDOM *For you convenience , I am using the following table * http://genome.ucsc.edu/cgi-bin/hgTables?hgsid=244668971&clade=mammal&org=Hum an&db=hg19&hgta_group=allTracks&hgta_track=refGene&hgta_table=0&hgta_regionT ype=genome&position=chr21%3A33031597-33041570&hgta_outputType=primaryTable&h gta_outFileName= *And the name of those chromosomes will be available here* http://genome.ucsc.edu/cgi-bin/hgTables?hgsid=244668971&hgta_database=hg19&h gta_histoTable=refGene&hgta_doValueHistogram=chrom * * -- Regards Tanvir <http://tanvir.alam.bd/> _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
