How is Mutation.Count derived in TCGA?
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5.9 years ago
biostar • 0

Hi!

TCGA provides a Mutation.Count value per patient. I couldn't find out how it was derived. It ranges from 8-158 for the different patients. Any suggestions where I can find clarification?

tcga mutations • 2.4k views
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Hi,

Of course, for example in this HGSOC patient:

SAMPLE.ID TCGA-04-1331-01

AGE 78

CLINICAL.STAGE Stage IIIC

CNA 0.437

DFS.MONTHS 15.1

DFS.STATUS Recurred/Progressed

ECOG.SCORE NA

ETHNICITY NOT HISPANIC OR LATINO

GENDER FEMALE

IS.FFPE NO

KARNOFSKY.PERFORMANCE.SCORE NA

LONGEST.DIMENSION 0.5

LYMPHOVASCULAR.INVASION.INDICATOR YES

METHOD.OF.INITIAL.SAMPLE.PROCUREMENT Tumor resection

Mutation.Count 78

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that's the total # of mutations in the patient. you can easily check it on cBioportal http://www.cbioportal.org/case.do?cancer_study_id=ov_tcga&case_id=TCGA-04-1331

ps. as genomax2 mentioned, if you could move this below my answer that would help keeping this tidy and in logical order :)

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Please use ADD REPLY/ADD COMMENT when responding to existing posts to keep threads logically organized.

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I also ask my self this question.. what is the meaning of mutation.count? are we talking about all mutations or only non-synonymous? does this relate only to gene regions or whole genome mutations?

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5.9 years ago
TriS ★ 4.6k

can you show us where you found it, which context? which tumor?

it sounds to me that that's simply the count of mutations per patient

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