Question about Common dbsnp147 database

[lee_ji...@sjtu.edu.cn]

Hi,

I try to download the common dbsnp147 database from ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b147_GRCh37p13/VCF/GATK/common_all_20160601.vcf.gz, and  found a very few variation are < 0.01 frequency,  e.g.  chr12 11905469 11905469 C T (1000g2015aug_all: 0.000599042, 1000g2015aug_sas: 0.0031),  I need to filter these position (frequency<0.01)  as the final common dbsnp database? Moreover, why the variations with  < frequency lower  0.01 can be founded in this file, and are all >= 0.01 frequency in 1000g are present in this file?

Best wishes

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lee_ji...@sjtu.edu.cn

[Christopher Lee]

Hi Lee,

Thank you for your question about the dbSNP 147 Common SNPs file.
Since your question is about dbSNP data, can you please submit it to
dbSNP: snp-...@ncbi.nlm.nih.gov

This mailing list is for questions about the data or software produced
here at UCSC.

Thanks,

Christopher Lee
UCSC Genomics Institute

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