Question: convert SNP calls to amino acid change
0
gravatar for Ming Tang
3.2 years ago by
Ming Tang2.4k
Houston/MD Anderson Cancer Center
Ming Tang2.4k wrote:

I am wondering if I have a maf file describing the snps, how can I easily convert it to amino acid changes.

 " Missense_Mutation    23    66937331    66937331    T    A" ---------->  L729I  

I know I can grab the sequences around the mutation point (also needs to know where is the start codon),

and use the triplets table to find it out the changes.

I just want to know if there is an existing tool for that.

Thanks,

Ming 

 

 

snp amino acid • 2.2k views
ADD COMMENTlink modified 3 months ago by Biostar ♦♦ 20 • written 3.2 years ago by Ming Tang2.4k
4
gravatar for cpad0112
3.2 years ago by
cpad011210k
India
cpad011210k wrote:

Round about way is to

ADD COMMENTlink written 3.2 years ago by cpad011210k

Thanks for the link!

ADD REPLYlink written 3.2 years ago by Ming Tang2.4k
1
gravatar for Ming Tang
3.2 years ago by
Ming Tang2.4k
Houston/MD Anderson Cancer Center
Ming Tang2.4k wrote:

It looks like VEP can do this job... http://useast.ensembl.org/info/docs/tools/vep/vep_formats.html?redirect=no

Ming

ADD COMMENTlink written 3.2 years ago by Ming Tang2.4k
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