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  • Chasm

    I have a bunch of mutations with Ensembl annotations for gene name and I am trying to run CHASM:

    This website is for sale! chasmsoftware.org is your first and best source for all of the information you’re looking for. From general topics to more of what you would expect to find here, chasmsoftware.org has it all. We hope you find what you are searching for!


    It requires mutations defined as amino-acid residue substitutions, along with an accession identifier from NCBI RefSeq, CCDS, or Ensembl in the following format.

    NP_001135977 R641W
    NP_835455 R151C
    NP_055645 L590V
    NP_689808 D28H
    NP_005472 S372R

    Can somebody help me how to get this annotation (as amino-acid residue substitutions and accession identifier) for my Ensembl mutation list?

    Thanks
    -Kasthuri

  • #2
    You can use online version of Chasm. If you have annotated vcf file.

    If the file is of few mega bytes ~80-100 mbs, you would have your output in less than 30 mins.
    Bioinformaticscally calm

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