About the Authors

John R. Lamb

john.lamb@pfizer.com (JL); eschadt@pacificbiosciences.com (EES); jmluk@nus.edu.sg (JML)

Affiliation Rosetta Inpharmatics, LLC, a wholly owned subsidiary of Merck & Co., Inc., Seattle, Washington, United States of America

Chunsheng Zhang

Affiliation Rosetta Inpharmatics, LLC, a wholly owned subsidiary of Merck & Co., Inc., Seattle, Washington, United States of America

Tao Xie

Affiliation Rosetta Inpharmatics, LLC, a wholly owned subsidiary of Merck & Co., Inc., Seattle, Washington, United States of America

Kai Wang

Affiliation Rosetta Inpharmatics, LLC, a wholly owned subsidiary of Merck & Co., Inc., Seattle, Washington, United States of America

Bin Zhang

Affiliation Rosetta Inpharmatics, LLC, a wholly owned subsidiary of Merck & Co., Inc., Seattle, Washington, United States of America

Ke Hao

Affiliation Rosetta Inpharmatics, LLC, a wholly owned subsidiary of Merck & Co., Inc., Seattle, Washington, United States of America

Eugene Chudin

Affiliation Rosetta Inpharmatics, LLC, a wholly owned subsidiary of Merck & Co., Inc., Seattle, Washington, United States of America

Hunter B. Fraser

Affiliation Rosetta Inpharmatics, LLC, a wholly owned subsidiary of Merck & Co., Inc., Seattle, Washington, United States of America

Joshua Millstein

Affiliation Rosetta Inpharmatics, LLC, a wholly owned subsidiary of Merck & Co., Inc., Seattle, Washington, United States of America

Mark Ferguson

Affiliation Rosetta Inpharmatics, LLC, a wholly owned subsidiary of Merck & Co., Inc., Seattle, Washington, United States of America

Christine Suver

Affiliation Rosetta Inpharmatics, LLC, a wholly owned subsidiary of Merck & Co., Inc., Seattle, Washington, United States of America

Irena Ivanovska

Affiliation Rosetta Inpharmatics, LLC, a wholly owned subsidiary of Merck & Co., Inc., Seattle, Washington, United States of America

Martin Scott

Affiliation Merck & Co., Boston, Massachusetts, United States of America

Ulrike Philippar

Affiliation Merck & Co., Boston, Massachusetts, United States of America

Dimple Bansal

Affiliation Merck & Co., Boston, Massachusetts, United States of America

Zhan Zhang

Affiliation Rosetta Inpharmatics, LLC, a wholly owned subsidiary of Merck & Co., Inc., Seattle, Washington, United States of America

Julja Burchard

Affiliation Rosetta Inpharmatics, LLC, a wholly owned subsidiary of Merck & Co., Inc., Seattle, Washington, United States of America

Ryan Smith

Affiliation Rosetta Inpharmatics, LLC, a wholly owned subsidiary of Merck & Co., Inc., Seattle, Washington, United States of America

Danielle Greenawalt

Affiliation Rosetta Inpharmatics, LLC, a wholly owned subsidiary of Merck & Co., Inc., Seattle, Washington, United States of America

Michele Cleary

Affiliation Merck & Co., Upper Gwynedd, Pennsylvania, United States of America

Jonathan Derry

Affiliation Rosetta Inpharmatics, LLC, a wholly owned subsidiary of Merck & Co., Inc., Seattle, Washington, United States of America

Andrey Loboda

Affiliation Merck & Co., Upper Gwynedd, Pennsylvania, United States of America

James Watters

Affiliation Merck & Co., Upper Gwynedd, Pennsylvania, United States of America

Ronnie T. P. Poon

Affiliation Department of Surgery, The University of Hong Kong, Queen Mary Hospital, Hong Kong, China

Sheung T. Fan

Affiliation Department of Surgery, The University of Hong Kong, Queen Mary Hospital, Hong Kong, China

Chun Yeung

Affiliation Department of Surgery, The University of Hong Kong, Queen Mary Hospital, Hong Kong, China

Nikki P. Y. Lee

Affiliation Department of Surgery, The University of Hong Kong, Queen Mary Hospital, Hong Kong, China

Justin Guinney

Affiliation Sage Bionetworks, Fred Hutchinson Cancer Research Center, Seattle, Washington, United States of America

Cliona Molony

Affiliation Rosetta Inpharmatics, LLC, a wholly owned subsidiary of Merck & Co., Inc., Seattle, Washington, United States of America

Valur Emilsson

Affiliation Rosetta Inpharmatics, LLC, a wholly owned subsidiary of Merck & Co., Inc., Seattle, Washington, United States of America

Carolyn Buser-Doepner

Affiliation Merck & Co., Upper Gwynedd, Pennsylvania, United States of America

Jun Zhu

Affiliation Rosetta Inpharmatics, LLC, a wholly owned subsidiary of Merck & Co., Inc., Seattle, Washington, United States of America

Stephen Friend

Affiliation Merck & Co., Upper Gwynedd, Pennsylvania, United States of America

Mao Mao

Affiliation Rosetta Inpharmatics, LLC, a wholly owned subsidiary of Merck & Co., Inc., Seattle, Washington, United States of America

Peter M. Shaw

Affiliation Merck & Co., Upper Gwynedd, Pennsylvania, United States of America

Hongyue Dai

Affiliation Rosetta Inpharmatics, LLC, a wholly owned subsidiary of Merck & Co., Inc., Seattle, Washington, United States of America

John M. Luk

john.lamb@pfizer.com (JL); eschadt@pacificbiosciences.com (EES); jmluk@nus.edu.sg (JML)

Affiliation Department of Surgery, The University of Hong Kong, Queen Mary Hospital, Hong Kong, China

Eric E. Schadt

john.lamb@pfizer.com (JL); eschadt@pacificbiosciences.com (EES); jmluk@nus.edu.sg (JML)

Affiliation Rosetta Inpharmatics, LLC, a wholly owned subsidiary of Merck & Co., Inc., Seattle, Washington, United States of America

Competing Interests

JRL, CZ, TX, KW, BZ, KH, EC, HF, JM, MF, CS, II, ZZ, JB, RS, DG, MC, JD, CM, VE, JZ, MM, HD and ES were all Merck employees at the Rosetta site; MS, UP, DB, AL, JW, CB-D, SF and PS were Merck employees at other sites; RP, CY, NL and JML were employed by Hong Kong University. Other than funding this study and employment of authors as described above, there are no other competing financial or other interests to be declared. The above affiliations do not alter the authors' adherence to all the PLoS ONE policies on sharing data and materials.

Author Contributions

Led analysis team, conceived the modified field-effect hypothesis and biological interpretation of results: JRL. Conducted the pairwise comparisons of the CNV, expression and clinical data: CZ TX EC KH JM JB DG. Conducted the differential gene-gene correlation analyses: KW JZ. Constructed the co-expression networks: BZ JZ. Constructed Figure 8: JG. Generated the DNA and RNA microarray experiments: MF CS RS. Conducted the experiments with MET oncogene expression in mouse: II MS UP ZZ DB. Collected the clinical samples and clinical evaluations: RTPP STF CY NPYL JML. Contributed to experimental design: MM CBD JD JW HBF MC SF PMS. Provided critical evaluation of the results and interpretation: ES HD VE HBF CM JD SF AL JW. Wrote the manuscript: JRL HD ES.