New Results
Large-Scale Uniform Analysis of Cancer Whole Genomes in Multiple Computing Environments
View ORCID ProfileChristina K. Yung, Brian D. O’Connor, Sergei Yakneen, Junjun Zhang, Kyle Ellrott, Kortine Kleinheinz, Naoki Miyoshi, Keiran M. Raine, Romina Royo, Gordon B. Saksena, Matthias Schlesner, Solomon I. Shorser, Miguel Vazquez, Joachim Weischenfeldt, Denis Yuen, Adam P. Butler, Brandi N. Davis-Dusenbery, Roland Eils, Vincent Ferretti, Robert L. Grossman, Olivier Harismendy, Youngwook Kim, Hidewaki Nakagawa, Steven J. Newhouse, David Torrents, Lincoln D. Stein, on behalf of the PCAWG Technical Working Group, Javier Bartolomé Rodriguez, Keith A. Boroevich, Rich Boyce, Angela N. Brooks, Alex Buchanan, Ivo Buchhalter, Niall J. Byrne, Andy Cafferkey, Peter J. Campbell, Zhaohong Chen, Sunghoon Cho, Wan Choi, Peter Clapham, Francisco M. De La Vega, Jonas Demeulemeester, Michelle T. Dow, Lewis J. Dursi, Juergen Eils, Claudiu Farcas, Francesco Favero, Nodirjon Fayzullaev, Paul Flicek, Nuno A. Fonseca, Josep L.l. Gelpi, Gad Getz, Bob Gibson, Michael C. Heinold, Julian M. Hess, Oliver Hofmann, Jongwhi H. Hong, Thomas J. Hudson, Daniel Huebschmann, Barbara Hutter, Carolyn M. Hutter, Seiya Imoto, Sinisa Ivkovic, Seung-Hyup Jeon, Wei Jiao, Jongsun Jung, Rolf Kabbe, Andre Kahles, Jules Kerssemakers, Hyunghwan Kim, Hyung-Lae Kim, Jihoon Kim, Jan O. Korbel, Michael Koscher, Antonios Koures, Milena Kovacevic, Chris Lawerenz, Ignaty Leshchiner, Dimitri G. Livitz, George L. Mihaiescu, Sanja Mijalkovic, Ana Mijalkovic Lazic, Satoru Miyano, Hardeep K. Nahal, Mia Nastic, Jonathan Nicholson, David Ocana, Kazuhiro Ohi, Lucila Ohno-Machado, Larsson Omberg, B.F. Francis Ouellette, Nagarajan Paramasivam, Marc D. Perry, Todd D. Pihl, Manuel Prinz, Montserrat Puiggròs, Petar Radovic, Esther Rheinbay, Mara W. Rosenberg, Charles Short, Heidi J. Sofia, Jonathan Spring, Adam J. Struck, Grace Tiao, Nebojsa Tijanic, Peter Van Loo, David Vicente, Jeremiah A. Wala, Zhining Wang, Johannes Werner, Ashley Williams, Youngchoon Woo, Adam J. Wright, Qian Xiang, the PCAWG Network
doi: https://doi.org/10.1101/161638
Christina K. Yung
1Informatics and Biocomputing Program, Ontario Institute for Cancer Research, Toronto, Ontario, M5G 0A3, Canada.
Brian D. O’Connor
1Informatics and Biocomputing Program, Ontario Institute for Cancer Research, Toronto, Ontario, M5G 0A3, Canada.
2UC Santa Cruz Genomics Institute, University of California Santa Cruz, Santa Cruz, California, 95065, USA.
Sergei Yakneen
1Informatics and Biocomputing Program, Ontario Institute for Cancer Research, Toronto, Ontario, M5G 0A3, Canada.
3Genome Biology Unit, European Molecular Biology Laboratory, Heidelberg, Baden-Württemberg, 69120, Germany.
Junjun Zhang
1Informatics and Biocomputing Program, Ontario Institute for Cancer Research, Toronto, Ontario, M5G 0A3, Canada.
Kyle Ellrott
4Department of Computational Biology, Oregon Health and Science University, Portland, Oregon, 97239, USA.
Kortine Kleinheinz
5Division of Theoretical Bioinformatics, German Cancer Research Center (DKFZ), Heidelberg, Baden-Württemberg, 69120, Germany.
6Department for Bioinformatics and Functional Genomics, Institutefor Pharmacy and Molecular Biotechnology and BioQuant, Heidelberg University, Heidelberg, Baden-Württemberg, 69120, Germany.
Naoki Miyoshi
7Human Genome Center, Institute of Medical Science, University of Tokyo, Tokyo,108-8639, Japan.
Keiran M. Raine
8Cancer Ageing and Somatic Mutation Programme, Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, CB10 1SA,United Kingdom.
Romina Royo
9Department of Life Sciences, Barcelona Supercomputing Center, Barcelona, Catalunya, 8034, Spain.
Gordon B. Saksena
10Cancer Program, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, 02142, USA.
Matthias Schlesner
5Division of Theoretical Bioinformatics, German Cancer Research Center (DKFZ), Heidelberg, Baden-Württemberg, 69120, Germany.
Solomon I. Shorser
1Informatics and Biocomputing Program, Ontario Institute for Cancer Research, Toronto, Ontario, M5G 0A3, Canada.
Miguel Vazquez
11Structural Computational Biology Group, Centro Nacional de Investigaciones Oncologicas, Madrid, Madrid, 28029, Spain.
Joachim Weischenfeldt
3Genome Biology Unit, European Molecular Biology Laboratory, Heidelberg, Baden-Württemberg, 69120, Germany.
12BRIC/Finsen Laboratory, Rigshospitalet, Copenhagen, 2200, Denmark.
Denis Yuen
1Informatics and Biocomputing Program, Ontario Institute for Cancer Research, Toronto, Ontario, M5G 0A3, Canada.
Adam P. Butler
8Cancer Ageing and Somatic Mutation Programme, Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, CB10 1SA,United Kingdom.
Brandi N. Davis-Dusenbery
13Seven Bridges, Cambridge, Massachusetts, 02142, USA.
Roland Eils
14Theoretical Bioinformatics, German Cancer Research Center (DKFZ), Heidelberg, Baden-Württemberg, 69120, Germany.
6Department for Bioinformatics and Functional Genomics, Institutefor Pharmacy and Molecular Biotechnology and BioQuant, Heidelberg University, Heidelberg, Baden-Württemberg, 69120, Germany.
Vincent Ferretti
1Informatics and Biocomputing Program, Ontario Institute for Cancer Research, Toronto, Ontario, M5G 0A3, Canada.
Robert L. Grossman
15Center for Data Intensive Science, University of Chicago, Chicago, Illinois,60637, USA.
Olivier Harismendy
16Department of Medicine, University of California San Diego, San Diego, California, 92093, USA.
17Moores Cancer Center, Department of Medicine, Division of Biomedical Informatics, University of California San Diego, San Diego, California, 92093, USA.
Youngwook Kim
18Samsung Advanced Institute of Health Science and Technology, Sungkyunkwan University, School of Medicine, Seoul, 135-710, South Korea.
Hidewaki Nakagawa
19Laboratory for Genome Sequencing Analysis, RIKEN Center for Integrative Medical Sciences, Tokyo, 108-8639, Japan.
Steven J. Newhouse
20Technical Services Cluster, European Molecular Biology Laboratory, European Bioinforamtics Institute, Hinxton, Cambridge, CB10 1SD,United Kingdom.
David Torrents
9Department of Life Sciences, Barcelona Supercomputing Center, Barcelona, Catalunya, 8034, Spain.
21Institució Catalana de Recerca i Estudis Avançats, Barcelona, Catalunya, 8010, Spain.
Lincoln D. Stein
1Informatics and Biocomputing Program, Ontario Institute for Cancer Research, Toronto, Ontario, M5G 0A3, Canada.
22Department of Molecular Genetics, University of Toronto, Toronto, Ontario, M5S 1A1, Canada.
Javier Bartolomé Rodriguez
1Department of Operations, Barcelona Supercomputing Center, Barcelona, Catalunya, 8034, Spain.
Keith A. Boroevich
2Laboratory for Medical Science Mathematics, RIKEN Center for Integrative Medical Sciences, Yokohama, Kanagawa, 230-0045, Japan.
Rich Boyce
3European Molecular Biology Laboratory, European Bioinformatics Institute, Hinxton, Cambridge, CB10 1SD, United Kingdom.
Angela N. Brooks
4Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, California, 95065, USA.
Alex Buchanan
5Department of Computational Biology, Oregon Health and Science University, Portland, Oregon,97239, USA.
Ivo Buchhalter
6Division of Theoretical Bioinformatics, German Cancer Research Center (DKFZ), Heidelberg, Baden-Württemberg, 69120, Germany.
7Department for Bioinformatics and Functional Genomics, Institute for Pharmacy and Molecular Biotechnology and BioQuant, Heidelberg University, Heidelberg, Baden-Württemberg, 69120, Germany.
Niall J. Byrne
8Informatics and Biocomputing Program, Ontario Institute for Cancer Research, Toronto, Ontario, M5G 0A3, Canada.
Andy Cafferkey
9Technical Services Cluster, European Molecular Biology Laboratory, European Bioinformatics Institute, Hinxton, Cambridge, CB10 1SD, United Kingdom.
Peter J. Campbell
10Cancer Genome Project, Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, CB10 1SA, United Kingdom.
Zhaohong Chen
11Department of Medicine, University of California San Diego, San Diego, California, 92093, USA.
Sunghoon Cho
12PDXen Biosystems Inc., Seoul, 4900, South Korea.
Wan Choi
13Electronics and Telecommunications Research Institute, Daejon, 34129, South Korea.
Peter Clapham
14Informatics Support Group, Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, CB10 1SA, United Kingdom.
Francisco M. De La Vega
15Department of Biomedical Data Science, Stanford University School of Medicine, Stanford, California, 94305, USA.
16Annai Systems, Inc., Carlsbad, California, 92011, USA.
Jonas Demeulemeester
17The Francis Crick Institute, London, NW1 1AT, United Kingdom.
18Department of Human Genetics, University of Leuven, B-3000 Leuven, Belgium.
Michelle T. Dow
19Biomedical Informatics, University of California San Diego, San Diego, California, 92093, USA.
Lewis J. Dursi
8Informatics and Biocomputing Program, Ontario Institute for Cancer Research, Toronto, Ontario, M5G 0A3, Canada.
20The Centre for Computational Medicine, The Hospital for Sick Children, Toronto, Ontario, M5G 0A4, Canada.
Juergen Eils
21Theoretical Bioinformatics, German Cancer Research Center (DKFZ), Heidelberg, Baden-Württemberg, 69120, Germany.
Claudiu Farcas
22Health System Department of Biomedical Informatics, University of California San Diego, La Jolla, California, 92093, USA.
Francesco Favero
23BRIC/Finsen Laboratory, Rigshospitalet, Copenhagen, 2200, Denmark.
Nodirjon Fayzullaev
8Informatics and Biocomputing Program, Ontario Institute for Cancer Research, Toronto, Ontario, M5G 0A3, Canada.
Paul Flicek
3European Molecular Biology Laboratory, European Bioinformatics Institute, Hinxton, Cambridge, CB10 1SD, United Kingdom.
Nuno A. Fonseca
3European Molecular Biology Laboratory, European Bioinformatics Institute, Hinxton, Cambridge, CB10 1SD, United Kingdom.
Josep L.l. Gelpi
24Department of Life 528 Sciences, Barcelona Supercomputing Center, Barcelona, Catalunya, 8034, Spain.
25Department of Biochemistry and Molecular Biomedicine, University of Barcelona, Barcelona, Catalunya, 8028, Spain.
Gad Getz
26Cancer Program, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, 02142, USA.
27Cancer Center and Department of Pathology, Massachusetts General Hospital, Boston, Massachusetts, 02114, USA.
Bob Gibson
8Informatics and Biocomputing Program, Ontario Institute for Cancer Research, Toronto, Ontario, M5G 0A3, Canada.
Michael C. Heinold
6Division of Theoretical Bioinformatics, German Cancer Research Center (DKFZ), Heidelberg, Baden-Württemberg, 69120, Germany.
7Department for Bioinformatics and Functional Genomics, Institute for Pharmacy and Molecular Biotechnology and BioQuant, Heidelberg University, Heidelberg, Baden-Württemberg, 69120, Germany.
Julian M. Hess
26Cancer Program, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, 02142, USA.
Oliver Hofmann
28Center for Cancer Research, University of Melbourne, Melbourne, VIC 3001, Australia.
Jongwhi H. Hong
29Genome Data Integration Center, Syntekabio Inc., Daejon, 34025, South Korea.
Thomas J. Hudson
30Genomics Program, Ontario Institute for Cancer Research, Toronto, Ontario, M5G 534 0A3, Canada.
31Oncology Discovery and Early Development, AbbVie, Redwood City, California, 94063, USA.
Daniel Huebschmann
6Division of Theoretical Bioinformatics, German Cancer Research Center (DKFZ), Heidelberg, Baden-Württemberg, 69120, Germany.
7Department for Bioinformatics and Functional Genomics, Institute for Pharmacy and Molecular Biotechnology and BioQuant, Heidelberg University, Heidelberg, Baden-Württemberg, 69120, Germany.
Barbara Hutter
32Division of Applied Bioinformatics, German Cancer Research Center (DKFZ), Heidelberg, Baden-Württemberg, 536 69120, Germany.
33Division of Applied Bioinformatics, National Center for Tumor Diseases, Heidelberg, Baden-Württemberg, 69120, Germany.
Carolyn M. Hutter
34Division of Genomic Medicine, National Human Genome Research Institute Bethesda, Maryland, 20852, USA.
Seiya Imoto
35Health Intelligence Center, Institute of Medical Science, University of Tokyo, Tokyo, 108-8639, Japan.
Sinisa Ivkovic
36Seven Bridges, Cambridge, Massachusetts, 02142, USA.
Seung-Hyup Jeon
13Electronics and Telecommunications Research Institute, Daejon, 34129, South Korea.
Wei Jiao
8Informatics and Biocomputing Program, Ontario Institute for Cancer Research, Toronto, Ontario, M5G 0A3, Canada.
Jongsun Jung
37Genome Data Integration Center, Syntekabio Inc., Daejon, 34025, South Korea.
Rolf Kabbe
6Division of Theoretical Bioinformatics, German Cancer Research Center (DKFZ), Heidelberg, Baden-Württemberg, 69120, Germany.
Andre Kahles
38Department of Computer Science, ETH Zurich, Zurich, Zurich, 8092, Switzerland.
39Computational Biology Center, Memorial Sloan Kettering Cancer Center, New York, New York, 10065, USA.
Jules Kerssemakers
40German Cancer Research Center (DKFZ), Heidelberg, Baden-Württemberg, 69120, Germany.
Hyunghwan Kim
13Electronics and Telecommunications Research Institute, Daejon, 34129, South Korea.
Hyung-Lae Kim
41Department of Biochemistry, Ewha Womans University, Seoul, O7985, South Korea.
42PGM21, Seoul, O7985, South Korea.
Jihoon Kim
11Department of Medicine, University of California San Diego, San Diego, California, 92093, USA.
Jan O. Korbel
3European Molecular Biology Laboratory, European Bioinformatics Institute, Hinxton, Cambridge, CB10 1SD, United Kingdom.
43Genome Biology Unit, European Molecular Biology Laboratory, Heidelberg, Baden-Württemberg, 69120, Germany.
Michael Koscher
40German Cancer Research Center (DKFZ), Heidelberg, Baden-Württemberg, 69120, Germany.
Antonios Koures
11Department of Medicine, University of California San Diego, San Diego, California, 92093, USA.
Milena Kovacevic
36Seven Bridges, Cambridge, Massachusetts, 02142, USA.
Chris Lawerenz
6Division of Theoretical Bioinformatics, German Cancer Research Center (DKFZ), Heidelberg, Baden-Württemberg, 69120, Germany.
Ignaty Leshchiner
26Cancer Program, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, 02142, USA.
Dimitri G. Livitz
26Cancer Program, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, 02142, USA.
George L. Mihaiescu
8Informatics and Biocomputing Program, Ontario Institute for Cancer Research, Toronto, Ontario, M5G 0A3, Canada.
Sanja Mijalkovic
36Seven Bridges, Cambridge, Massachusetts, 02142, USA.
Ana Mijalkovic Lazic
36Seven Bridges, Cambridge, Massachusetts, 02142, USA.
Satoru Miyano
44Human Genome Center, Institute of Medical Science, University of Tokyo, Tokyo, 108-8639, Japan.
Hardeep K. Nahal
8Informatics and Biocomputing Program, Ontario Institute for Cancer Research, Toronto, Ontario, M5G 0A3, Canada.
Mia Nastic
36Seven Bridges, Cambridge, Massachusetts, 02142, USA.
Jonathan Nicholson
14Informatics Support Group, Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, CB10 1SA, United Kingdom.
David Ocana
3European Molecular Biology Laboratory, European Bioinformatics Institute, Hinxton, Cambridge, CB10 1SD, United Kingdom.
Kazuhiro Ohi
44Human Genome Center, Institute of Medical Science, University of Tokyo, Tokyo, 108-8639, Japan.
Lucila Ohno-Machado
22Health System Department of Biomedical Informatics, University of California San Diego, La Jolla, California, 92093, USA.
Larsson Omberg
45Systems Biology, Sage Bionetworks, Seattle, Washington, 98112, USA.
B.F. Francis Ouellette
8Informatics and Biocomputing Program, Ontario Institute for Cancer Research, Toronto, Ontario, M5G 0A3, Canada.
46Department of Cell and Systems Biology, University of Toronto, Toronto, Ontario, M5S 3G5, Canada.
Nagarajan Paramasivam
6Division of Theoretical Bioinformatics, German Cancer Research Center (DKFZ), Heidelberg, Baden-Württemberg, 69120, Germany.
47Medical Faculty Heidelberg, Heidelberg University, Heidelberg, Baden-Württemberg, 69120, Germany.
Marc D. Perry
8Informatics and Biocomputing Program, Ontario Institute for Cancer Research, Toronto, Ontario, M5G 0A3, Canada.
Todd D. Pihl
48CSRA Incorporated, Fairfax, Virginia, 22042, USA.
Manuel Prinz
6Division of Theoretical Bioinformatics, German Cancer Research Center (DKFZ), Heidelberg, Baden-Württemberg, 69120, Germany.
Montserrat Puiggròs
24Department of Life 528 Sciences, Barcelona Supercomputing Center, Barcelona, Catalunya, 8034, Spain.
Petar Radovic
36Seven Bridges, Cambridge, Massachusetts, 02142, USA.
Esther Rheinbay
26Cancer Program, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, 02142, USA.
49Cancer Center, Massachusetts General Hospital, Boston, Massachusetts, 02114, USA.
Mara W. Rosenberg
26Cancer Program, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, 02142, USA.
49Cancer Center, Massachusetts General Hospital, Boston, Massachusetts, 02114, USA.
Charles Short
3European Molecular Biology Laboratory, European Bioinformatics Institute, Hinxton, Cambridge, CB10 1SD, United Kingdom.
Heidi J. Sofia
50National Human Genome Research Institute, National Institutes of Health, Bethesda, Maryland, 20892-551 9305, USA.
Jonathan Spring
51Center for Data Intensive Science, University of Chicago, Chicago, Illinois, 60637, USA.
Adam J. Struck
5Department of Computational Biology, Oregon Health and Science University, Portland, Oregon,97239, USA.
Grace Tiao
26Cancer Program, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, 02142, USA.
Nebojsa Tijanic
36Seven Bridges, Cambridge, Massachusetts, 02142, USA.
Peter Van Loo
17The Francis Crick Institute, London, NW1 1AT, United Kingdom.
18Department of Human Genetics, University of Leuven, B-3000 Leuven, Belgium.
David Vicente
1Department of Operations, Barcelona Supercomputing Center, Barcelona, Catalunya, 8034, Spain.
Jeremiah A. Wala
26Cancer Program, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, 02142, USA.
52Department of Cancer Biology, Dana-Farber Cancer Institute, Boston, Massachusetts, 02115, USA.
Zhining Wang
53TCGA 553 Program Office, National Cancer Institute, Bethesda, Maryland, 20892, USA.
Johannes Werner
6Division of Theoretical Bioinformatics, German Cancer Research Center (DKFZ), Heidelberg, Baden-Württemberg, 69120, Germany.
Ashley Williams
11Department of Medicine, University of California San Diego, San Diego, California, 92093, USA.
Youngchoon Woo
13Electronics and Telecommunications Research Institute, Daejon, 34129, South Korea.
Adam J. Wright
8Informatics and Biocomputing Program, Ontario Institute for Cancer Research, Toronto, Ontario, M5G 0A3, Canada.
Qian Xiang
8Informatics and Biocomputing Program, Ontario Institute for Cancer Research, Toronto, Ontario, M5G 0A3, Canada.
Abstract
The International Cancer Genome Consortium (ICGC)’s Pan-Cancer Analysis of Whole Genomes (PCAWG) project aimed to categorize somatic and germline variations in both coding and non-coding regions in over 2,800 cancer patients. To provide this dataset to the research working groups for downstream analysis, the PCAWG Technical Working Group marshalled ~800TB of sequencing data from distributed geographical locations; developed portable software for uniform alignment, variant calling, artifact filtering and variant merging; performed the analysis in a geographically and technologically disparate collection of compute environments; and disseminated high-quality validated consensus variants to the working groups. The PCAWG dataset has been mirrored to multiple repositories and can be located using the ICGC Data Portal. The PCAWG workflows are also available as Docker images through Dockstore enabling researchers to replicate our analysis on their own data.
Copyright
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission.
Posted July 10, 2017.
Large-Scale Uniform Analysis of Cancer Whole Genomes in Multiple Computing Environments
Christina K. Yung, Brian D. O’Connor, Sergei Yakneen, Junjun Zhang, Kyle Ellrott, Kortine Kleinheinz, Naoki Miyoshi, Keiran M. Raine, Romina Royo, Gordon B. Saksena, Matthias Schlesner, Solomon I. Shorser, Miguel Vazquez, Joachim Weischenfeldt, Denis Yuen, Adam P. Butler, Brandi N. Davis-Dusenbery, Roland Eils, Vincent Ferretti, Robert L. Grossman, Olivier Harismendy, Youngwook Kim, Hidewaki Nakagawa, Steven J. Newhouse, David Torrents, Lincoln D. Stein, on behalf of the PCAWG Technical Working Group, Javier Bartolomé Rodriguez, Keith A. Boroevich, Rich Boyce, Angela N. Brooks, Alex Buchanan, Ivo Buchhalter, Niall J. Byrne, Andy Cafferkey, Peter J. Campbell, Zhaohong Chen, Sunghoon Cho, Wan Choi, Peter Clapham, Francisco M. De La Vega, Jonas Demeulemeester, Michelle T. Dow, Lewis J. Dursi, Juergen Eils, Claudiu Farcas, Francesco Favero, Nodirjon Fayzullaev, Paul Flicek, Nuno A. Fonseca, Josep L.l. Gelpi, Gad Getz, Bob Gibson, Michael C. Heinold, Julian M. Hess, Oliver Hofmann, Jongwhi H. Hong, Thomas J. Hudson, Daniel Huebschmann, Barbara Hutter, Carolyn M. Hutter, Seiya Imoto, Sinisa Ivkovic, Seung-Hyup Jeon, Wei Jiao, Jongsun Jung, Rolf Kabbe, Andre Kahles, Jules Kerssemakers, Hyunghwan Kim, Hyung-Lae Kim, Jihoon Kim, Jan O. Korbel, Michael Koscher, Antonios Koures, Milena Kovacevic, Chris Lawerenz, Ignaty Leshchiner, Dimitri G. Livitz, George L. Mihaiescu, Sanja Mijalkovic, Ana Mijalkovic Lazic, Satoru Miyano, Hardeep K. Nahal, Mia Nastic, Jonathan Nicholson, David Ocana, Kazuhiro Ohi, Lucila Ohno-Machado, Larsson Omberg, B.F. Francis Ouellette, Nagarajan Paramasivam, Marc D. Perry, Todd D. Pihl, Manuel Prinz, Montserrat Puiggròs, Petar Radovic, Esther Rheinbay, Mara W. Rosenberg, Charles Short, Heidi J. Sofia, Jonathan Spring, Adam J. Struck, Grace Tiao, Nebojsa Tijanic, Peter Van Loo, David Vicente, Jeremiah A. Wala, Zhining Wang, Johannes Werner, Ashley Williams, Youngchoon Woo, Adam J. Wright, Qian Xiang, the PCAWG Network
bioRxiv 161638; doi: https://doi.org/10.1101/161638
Large-Scale Uniform Analysis of Cancer Whole Genomes in Multiple Computing Environments
Christina K. Yung, Brian D. O’Connor, Sergei Yakneen, Junjun Zhang, Kyle Ellrott, Kortine Kleinheinz, Naoki Miyoshi, Keiran M. Raine, Romina Royo, Gordon B. Saksena, Matthias Schlesner, Solomon I. Shorser, Miguel Vazquez, Joachim Weischenfeldt, Denis Yuen, Adam P. Butler, Brandi N. Davis-Dusenbery, Roland Eils, Vincent Ferretti, Robert L. Grossman, Olivier Harismendy, Youngwook Kim, Hidewaki Nakagawa, Steven J. Newhouse, David Torrents, Lincoln D. Stein, on behalf of the PCAWG Technical Working Group, Javier Bartolomé Rodriguez, Keith A. Boroevich, Rich Boyce, Angela N. Brooks, Alex Buchanan, Ivo Buchhalter, Niall J. Byrne, Andy Cafferkey, Peter J. Campbell, Zhaohong Chen, Sunghoon Cho, Wan Choi, Peter Clapham, Francisco M. De La Vega, Jonas Demeulemeester, Michelle T. Dow, Lewis J. Dursi, Juergen Eils, Claudiu Farcas, Francesco Favero, Nodirjon Fayzullaev, Paul Flicek, Nuno A. Fonseca, Josep L.l. Gelpi, Gad Getz, Bob Gibson, Michael C. Heinold, Julian M. Hess, Oliver Hofmann, Jongwhi H. Hong, Thomas J. Hudson, Daniel Huebschmann, Barbara Hutter, Carolyn M. Hutter, Seiya Imoto, Sinisa Ivkovic, Seung-Hyup Jeon, Wei Jiao, Jongsun Jung, Rolf Kabbe, Andre Kahles, Jules Kerssemakers, Hyunghwan Kim, Hyung-Lae Kim, Jihoon Kim, Jan O. Korbel, Michael Koscher, Antonios Koures, Milena Kovacevic, Chris Lawerenz, Ignaty Leshchiner, Dimitri G. Livitz, George L. Mihaiescu, Sanja Mijalkovic, Ana Mijalkovic Lazic, Satoru Miyano, Hardeep K. Nahal, Mia Nastic, Jonathan Nicholson, David Ocana, Kazuhiro Ohi, Lucila Ohno-Machado, Larsson Omberg, B.F. Francis Ouellette, Nagarajan Paramasivam, Marc D. Perry, Todd D. Pihl, Manuel Prinz, Montserrat Puiggròs, Petar Radovic, Esther Rheinbay, Mara W. Rosenberg, Charles Short, Heidi J. Sofia, Jonathan Spring, Adam J. Struck, Grace Tiao, Nebojsa Tijanic, Peter Van Loo, David Vicente, Jeremiah A. Wala, Zhining Wang, Johannes Werner, Ashley Williams, Youngchoon Woo, Adam J. Wright, Qian Xiang, the PCAWG Network
bioRxiv 161638; doi: https://doi.org/10.1101/161638
Subject Area
Subject Areas
- Biochemistry (8828)
- Bioengineering (6532)
- Bioinformatics (23484)
- Biophysics (11805)
- Cancer Biology (9223)
- Cell Biology (13336)
- Clinical Trials (138)
- Developmental Biology (7442)
- Ecology (11425)
- Epidemiology (2066)
- Evolutionary Biology (15173)
- Genetics (10453)
- Genomics (14056)
- Immunology (9187)
- Microbiology (22199)
- Molecular Biology (8823)
- Neuroscience (47626)
- Paleontology (351)
- Pathology (1431)
- Pharmacology and Toxicology (2493)
- Physiology (3736)
- Plant Biology (8090)
- Synthetic Biology (2224)
- Systems Biology (6042)
- Zoology (1254)