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CIViC: A knowledgebase for expert-crowdsourcing the clinical interpretation of variants in cancer

View ORCID ProfileMalachi Griffith, View ORCID ProfileNicholas C Spies, View ORCID ProfileKilannin Krysiak, Adam C Coffman, Joshua F McMichael, Benjamin J Ainscough, Damian T Rieke, Arpad M Danos, Lynzey Kujan, Cody A Ramirez, Alex H Wagner, Zachary L Skidmore, Connor J Liu, Martin R Jones, Rachel L Bilski, Robert Lesurf, Erica K Barnell, Nakul M Shah, Melika Bonakdar, Lee Trani, Matthew Matlock, Avinash Ramu, Katie M Campbell, Gregory C Spies, Aaron P Graubert, Karthik Gangavarapu, James M Eldred, David E Larson, Jason R Walker, Benjamin M Good, Chunlei Wu, Andrew I Su, Rodrigo Dienstmann, Steven JM Jones, Ron Bose, David H Spencer, Lukas D Wartman, Richard K Wilson, Elaine R Mardis, View ORCID ProfileObi L Griffith
doi: https://doi.org/10.1101/072892
Malachi Griffith
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
2Siteman Cancer Center, Washington University School of Medicine, St. Louis, MO, USA
3Department of Genetics, Washington University School of Medicine, St. Louis, MO, USA
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  • For correspondence: mgriffit@wustl.edu obigriffith@wustl.edu
Nicholas C Spies
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
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Kilannin Krysiak
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
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Adam C Coffman
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
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Joshua F McMichael
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
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Benjamin J Ainscough
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
2Siteman Cancer Center, Washington University School of Medicine, St. Louis, MO, USA
3Department of Genetics, Washington University School of Medicine, St. Louis, MO, USA
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Damian T Rieke
4Charité Comprehensive Cancer Center, Charité – Universitätsmedizin Berlin, Berlin, Germany
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Arpad M Danos
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
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Lynzey Kujan
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
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Cody A Ramirez
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
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Alex H Wagner
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
2Siteman Cancer Center, Washington University School of Medicine, St. Louis, MO, USA
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Zachary L Skidmore
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
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Connor J Liu
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
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Martin R Jones
5Michael Smith Genome Sciences Centre, BC Cancer Agency, Vancouver, Canada
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Rachel L Bilski
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
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Robert Lesurf
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
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Erica K Barnell
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
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Nakul M Shah
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
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Melika Bonakdar
5Michael Smith Genome Sciences Centre, BC Cancer Agency, Vancouver, Canada
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Lee Trani
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
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Matthew Matlock
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
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Avinash Ramu
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
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Katie M Campbell
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
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Gregory C Spies
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
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Aaron P Graubert
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
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Karthik Gangavarapu
6Department of Molecular and Experimental Medicine, The Scripps Research Institute, La Jolla, CA, USA
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James M Eldred
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
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David E Larson
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
3Department of Genetics, Washington University School of Medicine, St. Louis, MO, USA
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Jason R Walker
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
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Benjamin M Good
6Department of Molecular and Experimental Medicine, The Scripps Research Institute, La Jolla, CA, USA
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Chunlei Wu
6Department of Molecular and Experimental Medicine, The Scripps Research Institute, La Jolla, CA, USA
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Andrew I Su
6Department of Molecular and Experimental Medicine, The Scripps Research Institute, La Jolla, CA, USA
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Rodrigo Dienstmann
7Oncology Data Science Group, Vall d’Hebron Institute of Oncology, Barcelona, Spain
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Steven JM Jones
5Michael Smith Genome Sciences Centre, BC Cancer Agency, Vancouver, Canada
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Ron Bose
8Department of Medicine, Washington University School of Medicine, St. Louis, MO, USA
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David H Spencer
8Department of Medicine, Washington University School of Medicine, St. Louis, MO, USA
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Lukas D Wartman
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
2Siteman Cancer Center, Washington University School of Medicine, St. Louis, MO, USA
8Department of Medicine, Washington University School of Medicine, St. Louis, MO, USA
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Richard K Wilson
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
2Siteman Cancer Center, Washington University School of Medicine, St. Louis, MO, USA
3Department of Genetics, Washington University School of Medicine, St. Louis, MO, USA
8Department of Medicine, Washington University School of Medicine, St. Louis, MO, USA
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Elaine R Mardis
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
2Siteman Cancer Center, Washington University School of Medicine, St. Louis, MO, USA
3Department of Genetics, Washington University School of Medicine, St. Louis, MO, USA
8Department of Medicine, Washington University School of Medicine, St. Louis, MO, USA
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Obi L Griffith
1McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
2Siteman Cancer Center, Washington University School of Medicine, St. Louis, MO, USA
3Department of Genetics, Washington University School of Medicine, St. Louis, MO, USA
8Department of Medicine, Washington University School of Medicine, St. Louis, MO, USA
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  • ORCID record for Obi L Griffith
  • For correspondence: mgriffit@wustl.edu obigriffith@wustl.edu
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Abstract

CIViC is an expert crowdsourced knowledgebase for Clinical Interpretation of Variants in Cancer (www.civicdb.org) describing the therapeutic, prognostic, and diagnostic relevance of inherited and somatic variants of all types. CIViC is committed to open source code, open access content, public application programming interfaces (APIs), and provenance of supporting evidence to allow for the transparent creation of current and accurate variant interpretations for use in cancer precision medicine.

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license.
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Posted September 01, 2016.
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CIViC: A knowledgebase for expert-crowdsourcing the clinical interpretation of variants in cancer
Malachi Griffith, Nicholas C Spies, Kilannin Krysiak, Adam C Coffman, Joshua F McMichael, Benjamin J Ainscough, Damian T Rieke, Arpad M Danos, Lynzey Kujan, Cody A Ramirez, Alex H Wagner, Zachary L Skidmore, Connor J Liu, Martin R Jones, Rachel L Bilski, Robert Lesurf, Erica K Barnell, Nakul M Shah, Melika Bonakdar, Lee Trani, Matthew Matlock, Avinash Ramu, Katie M Campbell, Gregory C Spies, Aaron P Graubert, Karthik Gangavarapu, James M Eldred, David E Larson, Jason R Walker, Benjamin M Good, Chunlei Wu, Andrew I Su, Rodrigo Dienstmann, Steven JM Jones, Ron Bose, David H Spencer, Lukas D Wartman, Richard K Wilson, Elaine R Mardis, Obi L Griffith
bioRxiv 072892; doi: https://doi.org/10.1101/072892
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CIViC: A knowledgebase for expert-crowdsourcing the clinical interpretation of variants in cancer
Malachi Griffith, Nicholas C Spies, Kilannin Krysiak, Adam C Coffman, Joshua F McMichael, Benjamin J Ainscough, Damian T Rieke, Arpad M Danos, Lynzey Kujan, Cody A Ramirez, Alex H Wagner, Zachary L Skidmore, Connor J Liu, Martin R Jones, Rachel L Bilski, Robert Lesurf, Erica K Barnell, Nakul M Shah, Melika Bonakdar, Lee Trani, Matthew Matlock, Avinash Ramu, Katie M Campbell, Gregory C Spies, Aaron P Graubert, Karthik Gangavarapu, James M Eldred, David E Larson, Jason R Walker, Benjamin M Good, Chunlei Wu, Andrew I Su, Rodrigo Dienstmann, Steven JM Jones, Ron Bose, David H Spencer, Lukas D Wartman, Richard K Wilson, Elaine R Mardis, Obi L Griffith
bioRxiv 072892; doi: https://doi.org/10.1101/072892

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