hi All,
I am looking at dbSNP135 data and I have a question. In cases where dbsnp records have GMAF(Global Minor Allele Frequency), G5 and G5A values reported, it is safe to assume that the alternate/observed allele is always the minor allele? The allele frequencies reported in dbsnp135 use the 1000G phase 1 population
It is slighly confusing as there are some examples on the web where reference allele is a minor allele and used for reporting minor allele frequency
Example can be found at this link:
[URL="http://biostar.stackexchange.com/questions/15272/list-of-dbsnp-variants-where-reference-genome-has-minor-allele"]
I have searched the dbsnp website, but there is no explicit info on if "ref/alt" is the minor allele
Thanks,
Nriti
I am looking at dbSNP135 data and I have a question. In cases where dbsnp records have GMAF(Global Minor Allele Frequency), G5 and G5A values reported, it is safe to assume that the alternate/observed allele is always the minor allele? The allele frequencies reported in dbsnp135 use the 1000G phase 1 population
It is slighly confusing as there are some examples on the web where reference allele is a minor allele and used for reporting minor allele frequency
Example can be found at this link:
[URL="http://biostar.stackexchange.com/questions/15272/list-of-dbsnp-variants-where-reference-genome-has-minor-allele"]
I have searched the dbsnp website, but there is no explicit info on if "ref/alt" is the minor allele
Thanks,
Nriti