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                    5.5 years ago
        Gene_MMP8
        
    
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    I have a list of oncogenic mutations from the OncoKB database. The data looks someting like this
Gene    Alteration    Oncogenicity
CBL      P417A        likely oncogenic
CBL      N454D        likely neutral
I want to convert the above data set into the following format
Gene    Alteration   Location  Pathogenicity
CBL      P417A       chrX:Y-Z   likely oncogenic
CBL      N454D       chrA:B-C   likely neutral
Where X,A are chromosome numbers and B,C,Y,Z are genomic positions. Is there a straightforward way to do this? I have 1000s of such mutations.
see Amino Acid Change To Genomic Location ; Amino acid location to nucleotide location conversion tools ; Convert Amino Acid Change To Chromosomal Snp Coordinate ; ...