Associating somatic mutations to clinical outcomes: a pan-cancer study of survival time

Associating somatic mutations to clinical outcomes: a pan-cancer study of survival time

Abstract We developed subclone multiplicity allocation and somatic heterogeneity (SMASH), a new statistical method for intra-tumor heterogeneity (ITH) inference. SMASH is tailored to the purpose of large-scale association studies with one tumor sample per patient. In a pan-cancer study of 14 cancer...

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Bibliographic Details
Main Authors: Paul Little, Dan-Yu Lin, Wei Sun
Format: Article
Language:English
Published: BMC 2019-05-01
Series:Genome Medicine
Subjects:
Copy number alteration
Intra-tumor heterogeneity
Somatic mutations
Subclone
Tumor mutation burden
Online Access:http://link.springer.com/article/10.1186/s13073-019-0643-9
Description
Summary:Abstract We developed subclone multiplicity allocation and somatic heterogeneity (SMASH), a new statistical method for intra-tumor heterogeneity (ITH) inference. SMASH is tailored to the purpose of large-scale association studies with one tumor sample per patient. In a pan-cancer study of 14 cancer types, we studied the associations between survival time and ITH quantified by SMASH, together with other features of somatic mutations. Our results show that ITH is associated with survival time in several cancer types and its effect can be modified by other covariates, such as mutation burden. SMASH is available at https://github.com/Sun-lab/SMASH.
ISSN:1756-994X

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