Where to find a list of hypermutated regions for hg19 assembly?
Hi!
I am performing a variant calling analysis on a set of samples, and I find a lot of mutations located on hypermutated regions of hg assembly, such as HLA regions. These variants have pass the filters related to mapping quality, allele frequency, etc. So, I would like to obtain a track with the coordinates for hypermutated regions in hg19 assembly, with the aim of removing the variants located in there.
I have been looking for it in the genome browser, but I don't find them. Is there any available data that I could use?
Thanks!
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Downloading promoter sequences from UCSC in bed format
written by Jamie Watson •
-
Is it pretty common to have "reverse complemented alleles" when lifting over a vcf from hg19 to hg3…
written by curious
-
How to deal with SNPs and INDELs called in hypermutated regions?
written by jeni •
-
Best practice to find regulatory motifs in a set of sequences
written by jeni •
-
filter_vep not properly filtering
written by jeni •
-
How to get derived allele count for a list of SNPs
written by seta
-
Where can I get hg19.omimAvSnp and hg19.omimAv tables?
written by o3964fn4n •
-
Enhancers in Introns
written by kyeemon7 •
-
Allele Frequency Thershold
written by 786
-
Obtaining information from UCSC genome table browser
written by christylynn002 •
