How To Select Snp Based On Their Physical Position, Genetic Position And Chromosome Number

Question

[blacktomato27]

Hi to all, I am new to this work, i have to select some SNPs from a group of SNPs on specific chromosome. Here i am giving my sample data

Assay    Physical position    Genetic position    Chr    #Poly    %Poly    Selected
1723    408068    0.3             0.3                  1             0          0%    
1727    463360    0.3         0.3                      1                 0                    0%    
486    657891                                          1                  6                   55%    
1708    880744    25.7        25.7                  1                  5                   45%    
1709    900596    25.8        25.8                  1                   3                   27%    
487    1174585                                          1                 0                    0%    
1641    1239146    27.3        27.3                              1                0        0%    
488    2276961                                          1               8                     73%    
489    2899077                                          1               11                    100%    
1714    3057570    34.2        34.2                              1               0          0%    
1721    3522443    34.2        34.2                              1               0          0%    
490    3528691                                          1               11                    100%    
491    4259452                                          1                0                    0%    
632    5481178                                          1             11                      100%             yes

Here i have to select some Assays for genotyping, can anyone help me to learn how to select assays for my problem. Any help in the form of information like articles or other form would be appreciated. Thanks

Answer 1

[Sasha Fokin]

You can try SNPper -- Retrieve known SNPs by position or by association with a gene; save, filter, analyze, display or export SNP sets; explore known genes using names or chromosome positions.