BreakPoint Surveyor: A pipeline for structural variant visualization

Matthew A. Wyczalkowski; Kristine M. Wylie; Song Cao; Michael D. Mclellan; Jennifer Flynn; Mo Huang; Kai Ye; Xian Fan; Ken Chen; Michael C. Wendl; Li Ding

doi:10.1093/bioinformatics/btx362

BreakPoint Surveyor: A pipeline for structural variant visualization

Matthew A. Wyczalkowski, Kristine M. Wylie, Song Cao, Michael D. Mclellan, Jennifer Flynn, Mo Huang, Kai Ye, Xian Fan, Ken Chen, Michael C. Wendl, Li Ding

Bioinformatics & Computational Biology

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

3 Scopus citations

Abstract

Summary BreakPoint Surveyor (BPS) is a computational pipeline for the discovery, characterization, and visualization of complex genomic rearrangements, such as viral genome integration, in paired-end sequence data. BPS facilitates interpretation of structural variants by merging structural variant breakpoint predictions, gene exon structure, read depth, and RNA-sequencing expression into a single comprehensive figure.

Original language	English (US)
Pages (from-to)	3121-3122
Number of pages	2
Journal	Bioinformatics
Volume	33
Issue number	19
DOIs	https://doi.org/10.1093/bioinformatics/btx362
State	Published - Oct 1 2017

ASJC Scopus subject areas

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

MD Anderson CCSG core facilities

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10.1093/bioinformatics/btx362

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title = "BreakPoint Surveyor: A pipeline for structural variant visualization",

abstract = "Summary BreakPoint Surveyor (BPS) is a computational pipeline for the discovery, characterization, and visualization of complex genomic rearrangements, such as viral genome integration, in paired-end sequence data. BPS facilitates interpretation of structural variants by merging structural variant breakpoint predictions, gene exon structure, read depth, and RNA-sequencing expression into a single comprehensive figure.",

author = "Wyczalkowski, {Matthew A.} and Wylie, {Kristine M.} and Song Cao and Mclellan, {Michael D.} and Jennifer Flynn and Mo Huang and Kai Ye and Xian Fan and Ken Chen and Wendl, {Michael C.} and Li Ding",

note = "Funding Information: This work was supported by the National Cancer Institute [R01CA178383, R01CA180006, 1U24CA211006-01, and 1U24CA210972-01 to L.D., R01CA172652 to K.C.]; and National Human Genome Research Institute [U01HG006517 to L.D.].",

year = "2017",

month = oct,

day = "1",

doi = "10.1093/bioinformatics/btx362",

language = "English (US)",

volume = "33",

pages = "3121--3122",

journal = "Bioinformatics",

issn = "1367-4803",

publisher = "Oxford University Press",

number = "19",

}

TY - JOUR

T1 - BreakPoint Surveyor

T2 - A pipeline for structural variant visualization

AU - Wyczalkowski, Matthew A.

AU - Wylie, Kristine M.

AU - Cao, Song

AU - Mclellan, Michael D.

AU - Flynn, Jennifer

AU - Huang, Mo

AU - Ye, Kai

AU - Fan, Xian

AU - Chen, Ken

AU - Wendl, Michael C.

AU - Ding, Li

N1 - Funding Information: This work was supported by the National Cancer Institute [R01CA178383, R01CA180006, 1U24CA211006-01, and 1U24CA210972-01 to L.D., R01CA172652 to K.C.]; and National Human Genome Research Institute [U01HG006517 to L.D.].

PY - 2017/10/1

Y1 - 2017/10/1

N2 - Summary BreakPoint Surveyor (BPS) is a computational pipeline for the discovery, characterization, and visualization of complex genomic rearrangements, such as viral genome integration, in paired-end sequence data. BPS facilitates interpretation of structural variants by merging structural variant breakpoint predictions, gene exon structure, read depth, and RNA-sequencing expression into a single comprehensive figure.

AB - Summary BreakPoint Surveyor (BPS) is a computational pipeline for the discovery, characterization, and visualization of complex genomic rearrangements, such as viral genome integration, in paired-end sequence data. BPS facilitates interpretation of structural variants by merging structural variant breakpoint predictions, gene exon structure, read depth, and RNA-sequencing expression into a single comprehensive figure.

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U2 - 10.1093/bioinformatics/btx362

DO - 10.1093/bioinformatics/btx362

M3 - Article

C2 - 28582538

AN - SCOPUS:85030711372

SN - 1367-4803

VL - 33

SP - 3121

EP - 3122

JO - Bioinformatics

JF - Bioinformatics

IS - 19

ER -

BreakPoint Surveyor: A pipeline for structural variant visualization

Abstract

ASJC Scopus subject areas

MD Anderson CCSG core facilities

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