PurBayes: Estimating tumor cellularity and subclonality in next-generation sequencing data

Nicholas B. Larson; Brooke L. Fridley

doi:10.1093/bioinformatics/btt293

PurBayes: Estimating tumor cellularity and subclonality in next-generation sequencing data

Nicholas B. Larson, Brooke L. Fridley

Quantitative Health Sciences

Research output: Contribution to journal › Article › peer-review

54 Scopus citations

Abstract

We have developed a novel Bayesian method, PurBayes, to estimate tumor purity and detect intratumor heterogeneity based on next-generation sequencing data of paired tumor-normal tissue samples, which uses finite mixture modeling methods. We demonstrate our approach using simulated data and discuss its performance under varying conditions.Availability: PurBayes is implemented as an R package, and source code is available for download through CRAN at http://cran.r-project.org/package=PurBayes.Contact: Supplementary information: Supplementary data are available online at Bioinformatics online.

Original language	English (US)
Pages (from-to)	1888-1889
Number of pages	2
Journal	Bioinformatics
Volume	29
Issue number	15
DOIs	https://doi.org/10.1093/bioinformatics/btt293
State	Published - Aug 1 2013

ASJC Scopus subject areas

Statistics and Probability
Biochemistry
Molecular Biology
Computer Science Applications
Computational Theory and Mathematics
Computational Mathematics

Access to Document

10.1093/bioinformatics/btt293

Cite this

@article{3aa0453c0c514908a5971c8e95904b0e,

title = "PurBayes: Estimating tumor cellularity and subclonality in next-generation sequencing data",

abstract = "We have developed a novel Bayesian method, PurBayes, to estimate tumor purity and detect intratumor heterogeneity based on next-generation sequencing data of paired tumor-normal tissue samples, which uses finite mixture modeling methods. We demonstrate our approach using simulated data and discuss its performance under varying conditions.Availability: PurBayes is implemented as an R package, and source code is available for download through CRAN at http://cran.r-project.org/package=PurBayes.Contact: Supplementary information: Supplementary data are available online at Bioinformatics online.",

author = "Larson, {Nicholas B.} and Fridley, {Brooke L.}",

note = "Funding Information: Funding: This work is supported by the Mayo Foundation and the US National Institute of Health (R21 GM86689; P30 CA168524; P20 GM103418).",

year = "2013",

month = aug,

day = "1",

doi = "10.1093/bioinformatics/btt293",

language = "English (US)",

volume = "29",

pages = "1888--1889",

journal = "Bioinformatics",

issn = "1367-4803",

publisher = "Oxford University Press",

number = "15",

}

TY - JOUR

T1 - PurBayes

T2 - Estimating tumor cellularity and subclonality in next-generation sequencing data

AU - Larson, Nicholas B.

AU - Fridley, Brooke L.

N1 - Funding Information: Funding: This work is supported by the Mayo Foundation and the US National Institute of Health (R21 GM86689; P30 CA168524; P20 GM103418).

PY - 2013/8/1

Y1 - 2013/8/1

N2 - We have developed a novel Bayesian method, PurBayes, to estimate tumor purity and detect intratumor heterogeneity based on next-generation sequencing data of paired tumor-normal tissue samples, which uses finite mixture modeling methods. We demonstrate our approach using simulated data and discuss its performance under varying conditions.Availability: PurBayes is implemented as an R package, and source code is available for download through CRAN at http://cran.r-project.org/package=PurBayes.Contact: Supplementary information: Supplementary data are available online at Bioinformatics online.

AB - We have developed a novel Bayesian method, PurBayes, to estimate tumor purity and detect intratumor heterogeneity based on next-generation sequencing data of paired tumor-normal tissue samples, which uses finite mixture modeling methods. We demonstrate our approach using simulated data and discuss its performance under varying conditions.Availability: PurBayes is implemented as an R package, and source code is available for download through CRAN at http://cran.r-project.org/package=PurBayes.Contact: Supplementary information: Supplementary data are available online at Bioinformatics online.

UR - http://www.scopus.com/inward/record.url?scp=84880560760&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84880560760&partnerID=8YFLogxK

U2 - 10.1093/bioinformatics/btt293

DO - 10.1093/bioinformatics/btt293

M3 - Article

C2 - 23749958

AN - SCOPUS:84880560760

SN - 1367-4803

VL - 29

SP - 1888

EP - 1889

JO - Bioinformatics

JF - Bioinformatics

IS - 15

ER -

PurBayes: Estimating tumor cellularity and subclonality in next-generation sequencing data

Abstract

ASJC Scopus subject areas

Access to Document

Other files and links

Fingerprint

Cite this