Glioblastoma Multiforme (TCGA, Firehose Legacy) Mutation Data

[Nathan Pfau]

Hello,

 

I used the API to get the mutation data for all the sample from the Glioblastoma Multiforme data and was trying to figure out what filters were used on the mutation data and was wondering if there is somewhere in cBioPortal that I can get this information.

 

Also, after getting the mutation data from the API there is value “keyword”, “variantAllele”, and “variantType” for each mutation and I was wondering what file this information is being pulled from.

 

Thank you,

Nathan Pfau

[Sowmiyaa Kumar]

Hi Nathan, 

Thank you for reaching out to us. You can check out our datahub at https://github.com/cBioPortal/datahub to view the files for all of the public datasets being hosted on cBioPortal. Most of the data being shown to you for the mutation file will be from the "data_mutations.txt" file within the study (which in this case would be here: https://github.com/cBioPortal/datahub/tree/master/public/gbm_tcga) you're looking at and the rest from the associated files in the same study. 

You can find information about the filters being used on the mutations data here: https://docs.cbioportal.org/file-formats/#mutation-data.

I hope this helps and do remember to 'Reply All' when responding to this thread. 

Thanks and regards, 

Sowmiyaa

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Sowmiyaa Senthil Kumar

Data Engineer

E sowmiyaa@thehyve.nl

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