To UCSC genome browser team, I've recently encountered duplicated records in DARNED track (Human RNA editing track) of version hg19. In hg18 version there were 42055 records, all of them unique. However, when I used hg19 version, I've noticed that there are 42045 records with 42039 unique records (wc -l Darned.hg19.bed => 42045 but cat Darned.hg19.bed | sort| uniq | wc -l => 42039). When I visualized these regions in the genome browser they are shown as 2 elements with the same genomic position and the same name. Is this problem a result of liftover between genome versions and non-updated track?
The non-unique records are: #The record in Darned.hg19.bed > number of times in the file chr16 22517492 22517493 chr16.22517493 1000 + 22517492 22517493 > 2 chr17 36333356 36333357 chr17.36333357 1000 - 36333356 36333357 > 2 chr17 36332281 36332282 chr17.36332282 1000 - 36332281 36332282 > 2 chr17 36333402 36333403 chr17.36333403 1000 - 36333402 36333403 > 2 chr17 36333367 36333368 chr17.36333368 1000 - 36333367 36333368 > 2 chr17 36333372 36333373 chr17.36333373 1000 - 36333372 36333373 > 2 I know it sounds petty but I just note this for better curation of this track. Thanks in advance, Oz Solomon, Ph.D. student Cancer Research Center, Sheba hospital, Israel _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
