Hi,
i am doing some SNP calling and i would like to know if the called SNPs are present in the dbSNP and / or in the Cosmic databases. Therefore i have to look at the positions of the called SNPs and then at the positions given in the databases.
But i don't understand exactly how to interprete the database columns. In both, there are two given positions of the variation: here we have for example the first 5 columns of two different dbSNP entries:
585 chr1 10326 10327 rs112750067
585 chr1 10433 10433 rs56289060
and here, the positions of two different Cosmic database entries:
Mutation GRCh37 genome position: 17:7578276-7578277
Mutation GRCh37 genome position: 17:7578433-7578433
When only one position is given then its clear for me (like 10433 10433 or 17:7578433-7578433). But i don't know which position corresponds to the exact position of the SNP in entries with positions like 10326 10327 (the first dbSNP example) or 17:7578276-7578277 (the first cosmic example). Which one of the two positions corresponds to the exact position of the given SNP?
Thank you for any help,
best regards, Karin
i am doing some SNP calling and i would like to know if the called SNPs are present in the dbSNP and / or in the Cosmic databases. Therefore i have to look at the positions of the called SNPs and then at the positions given in the databases.
But i don't understand exactly how to interprete the database columns. In both, there are two given positions of the variation: here we have for example the first 5 columns of two different dbSNP entries:
585 chr1 10326 10327 rs112750067
585 chr1 10433 10433 rs56289060
and here, the positions of two different Cosmic database entries:
Mutation GRCh37 genome position: 17:7578276-7578277
Mutation GRCh37 genome position: 17:7578433-7578433
When only one position is given then its clear for me (like 10433 10433 or 17:7578433-7578433). But i don't know which position corresponds to the exact position of the SNP in entries with positions like 10326 10327 (the first dbSNP example) or 17:7578276-7578277 (the first cosmic example). Which one of the two positions corresponds to the exact position of the given SNP?
Thank you for any help,
best regards, Karin
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