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Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples
Matthew H Bailey
,
William U Meyerson
,
Lewis Jonathan Dursi
,
Liang-Bo Wang
,
Guanlan Dong
,
Wen-Wei Liang
,
Amila Weerasinghe
,
Shantao Li
,
Yize Li
,
Sean Kelso
,
others
Cite
Sex differences in oncogenic mutational processes
Stephenie D Prokopec
,
Ren X Sun
,
Fouad Yousif
,
Nathaniel Schmitz
,
Fatima Al-Shahrour
,
Gurnit Atwal
,
Peter J Bailey
,
Andrew V Biankin
,
Paul C Boutros
,
Peter J Campbell
,
others
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Creating standards for evaluating tumour subclonal reconstruction
Adriana Salcedo
,
Maxime Tarabichi
,
Shadrielle Melijah G Espiritu
,
Amit G Deshwar
,
Matei David
,
Nathan M Wilson
,
Stefan Dentro
,
Jeff A Wintersinger
,
Lydia Y Liu
,
Minjeong Ko
,
others
Cite
Reproducible biomedical benchmarking in the cloud: lessons from crowd-sourced data challenges
Kyle Ellrott
,
Alex Buchanan
,
Allison Creason
,
Michael Mason
,
Thomas Schaffter
,
Bruce Hoff
,
James Eddy
,
John M Chilton
,
Thomas Yu
,
Joshua M Stuart
,
others
Cite
A pan-cancer analysis reveals high-frequency genetic alterations in mediators of signaling by the TGF-$β$ superfamily
Anil Korkut
,
Sobia Zaidi
,
Rupa S Kanchi
,
Shuyun Rao
,
Nancy R Gough
,
Andre Schultz
,
Xubin Li
,
Philip L Lorenzi
,
Ashton C Berger
,
Gordon Robertson
,
others
Cite
Combining accurate tumor genome simulation with crowdsourcing to benchmark somatic structural variant detection
Anna Y Lee
,
Adam D Ewing
,
Kyle Ellrott
,
Yin Hu
,
Kathleen E Houlahan
,
J Christopher Bare
,
Shadrielle Melijah G Espiritu
,
Vincent Huang
,
Kristen Dang
,
Zechen Chong
,
others
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Germline contamination and leakage in whole genome somatic single nucleotide variant detection
Dorota H Sendorek
,
Cristian Caloian
,
Kyle Ellrott
,
J Christopher Bare
,
Takafumi N Yamaguchi
,
Adam D Ewing
,
Kathleen E Houlahan
,
Thea C Norman
,
Adam A Margolin
,
Joshua M Stuart
,
others
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Multi-center mutation calling in multiple cancers: the MC3 project
Kyle Ellrott
,
Mathew Bailey
,
Gordon Saksena
,
Kyle Covington
,
Cyriac Kandoth
,
Chip Stewart
,
Michael McLellan
,
Heidi Sofia
,
Carolyn Hutter
,
Gad Getz
,
others
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Population-level distribution and putative immunogenicity of cancer neoepitopes
Mary A Wood
,
Mayur Paralkar
,
Mihir P Paralkar
,
Austin Nguyen
,
Adam J Struck
,
Kyle Ellrott
,
Adam Margolin
,
Abhinav Nellore
,
Reid F Thompson
Cite
Scalable open science approach for mutation calling of tumor exomes using multiple genomic pipelines
Kyle Ellrott
,
Matthew H Bailey
,
Gordon Saksena
,
Kyle R Covington
,
Cyriac Kandoth
,
Chip Stewart
,
Julian Hess
,
Singer Ma
,
Kami E Chiotti
,
Michael McLellan
,
others
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