E
Eve Shinbrot
Researcher at Baylor College of Medicine
Publications - 35
Citations - 22253
Eve Shinbrot is an academic researcher from Baylor College of Medicine. The author has contributed to research in topics: Microsatellite instability & Gene. The author has an hindex of 23, co-authored 35 publications receiving 17384 citations. Previous affiliations of Eve Shinbrot include University of California, San Francisco.
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Journal ArticleDOI
Comprehensive molecular characterization of human colon and rectal cancer
Donna M. Muzny,Matthew N. Bainbridge,Kyle Chang,Huyen Dinh,Jennifer Drummond,Gerald R. Fowler,Christie Kovar,Lora Lewis,Margaret Morgan,Irene Newsham,Jeffrey G. Reid,Jireh Santibanez,Eve Shinbrot,Lisa R. Trevino,Yuan Qing Wu,Min Wang,Preethi H. Gunaratne,Preethi H. Gunaratne,Lawrence A. Donehower,Chad J. Creighton,David A. Wheeler,Richard A. Gibbs,Michael S. Lawrence,Douglas Voet,Rui Jing,Kristian Cibulskis,Andrey Sivachenko,Andrey Sivachenko,Petar Stojanov,Aaron McKenna,Eric S. Lander,Eric S. Lander,Stacey Gabriel,Li Ding,Robert S. Fulton,Daniel C. Koboldt,Todd Wylie,Jason Walker,David J. Dooling,Lucinda Fulton,Kim D. Delehaunty,Catrina Fronick,Ryan Demeter,Elaine R. Mardis,Richard K. Wilson,Andy Chu,Hye Jung E. Chun,Andrew J. Mungall,Erin Pleasance,A. Gordon Robertson,Dominik Stoll,Miruna Balasundaram,Inanc Birol,Yaron S.N. Butterfield,Eric Chuah,Robin J.N. Coope,Noreen Dhalla,Ranabir Guin,Carrie Hirst,Martin Hirst,Robert A. Holt,Darlene Lee,Haiyan I. Li,Michael Mayo,Richard A. Moore,Jacqueline E. Schein,Jared R. Slobodan,Angela Tam,Nina Thiessen,Richard Varhol,Thomas Zeng,Yongjun Zhao,Steven J.M. Jones,Marco A. Marra,Adam J. Bass,Alex H. Ramos,Gordon Saksena,Andrew D. Cherniack,Stephen E. Schumacher,Barbara Tabak,Scott L. Carter,Nam Pho,Huy V. Nguyen,Robert C. Onofrio,Andrew Crenshaw,Kristin G. Ardlie,Rameen Beroukhim,Wendy Winckler,Matthew Meyerson,Alexei Protopopov,Angela Hadjipanayis,Eunjung Lee,Ruibin Xi,Lixing Yang,Xiaojia Ren,Narayanan Sathiamoorthy,Peng Chieh Chen,Psalm Haseley,Yonghong Xiao,Semin Lee,Jonathan G. Seidman,Lynda Chin,Peter J. Park,Raju Kucherlapati,J. Todd Auman,Katherine A. Hoadley,Ying Du,Matthew D. Wilkerson,Yan Shi,Christina Liquori,Shaowu Meng,Ling Li,Yidi J. Turman,Michael D. Topal,Donghui Tan,Scot Waring,Elizabeth Buda,Jesse Walsh,Corbin D. Jones,Piotr A. Mieczkowski,Darshan Singh,Junyuan Wu,Anisha Gulabani,Peter Dolina,Tom Bodenheimer,Alan P. Hoyle,Janae V. Simons,Matthew G. Soloway,Lisle E. Mose,Stuart R. Jefferys,Saianand Balu,Brian O'Connor,Jan F. Prins,Derek Y. Chiang,D. Neil Hayes,Charles M. Perou,Toshinori Hinoue,Daniel J. Weisenberger,Dennis T. Maglinte,Fei Pan,Benjamin P. Berman,David Van Den Berg,Hui Shen,Timothy J. Triche,Stephen B. Baylin,Peter W. Laird,Gad Getz,Michael S. Noble,Doug Voat,Nils Gehlenborg,Daniel DiCara,Juinhua Zhang,Hailei Zhang,Chang-Jiun Wu,Spring Yingchun Liu,Sachet A. Shukla,Lihua Zhou,Pei Lin,Richard W. Park,Marc Danie Nazaire,James A. Robinson,Helga Thorvaldsdottir,Jill P. Mesirov,Vesteinn Thorsson,Sheila Reynolds,Brady Bernard,Richard Kreisberg,Jake Lin,Lisa Iype,Ryan Bressler,Timo Erkkilä,Madhumati Gundapuneni,Yuexin Liu,Adam Norberg,Thomas Robinson,Da Yang,Wei Zhang,Ilya Shmulevich,Jorma J. de Ronde,Jorma J. de Ronde,Nikolaus Schultz,Ethan Cerami,Giovanni Ciriello,Arthur P. Goldberg,Benjamin Gross,Anders Jacobsen,Jianjiong Gao,Bogumil Kaczkowski,Rileen Sinha,B. Arman Aksoy,Yevgeniy Antipin,Boris Reva,Ronglai Shen,Barry S. Taylor,Marc Ladanyi,Chris Sander,Rehan Akbani,Nianxiang Zhang,Bradley M. Broom,Tod D. Casasent,Anna K. Unruh,Chris Wakefield,Stanley R. Hamilton,R. Craig Cason,Keith A. Baggerly,John N. Weinstein,David Haussler,Christopher C. Benz,Joshua M. Stuart,Stephen C. Benz,J. Zachary Sanborn,Charles J. Vaske,Jingchun Zhu,Christopher Szeto,Gary K. Scott,Christina Yau,Sam Ng,Theodore C. Goldstein,Kyle Ellrott,Eric A. Collisson,Aaron E. Cozen,Daniel R. Zerbino,Christopher Wilks,Brian Craft,Paul T. Spellman,Robert Penny,Troy Shelton,Martha Hatfield,Scott Morris,Peggy Yena,Candace Shelton,Mark Sherman,Joseph Paulauskis,Julie M. Gastier-Foster,Julie M. Gastier-Foster,Jay Bowen,Nilsa C. Ramirez,Nilsa C. Ramirez,Aaron D. Black,Robert E. Pyatt,Robert E. Pyatt,Lisa Wise,Peter White,Peter White,Monica M. Bertagnolli,Jen Brown,Timothy A. Chan,Gerald C. Chu,Christine Czerwinski,Fred Denstman,Rajiv Dhir,Arnulf Dörner,Charles S. Fuchs,Jose G. Guillem,Mary Iacocca,Hartmut Juhl,Andrew Kaufman,Bernard Kohl,Xuan Van Le,Maria C. Mariano,Elizabeth N. Medina,Michael Meyers,Garrett M. Nash,P. Paty,Nicholas J. Petrelli,Brenda Rabeno,William G. Richards,David B. Solit,Pat Swanson,Larissa K. Temple,Joel E. Tepper,Richard Thorp,Efsevia Vakiani,Martin R. Weiser,Joseph Willis,Gary Witkin,Zhaoshi Zeng,Michael J. Zinner,Carsten Zornig,Mark A. Jensen,Robert Sfeir,Ari B. Kahn,Anna L. Chu,Prachi Kothiyal,Zhining Wang,Eric E. Snyder,Joan Pontius,Todd Pihl,Brenda Ayala,Mark Backus,Jessica Walton,Jon Whitmore,Julien Baboud,Dominique L. Berton,Matthew C. Nicholls,Deepak Srinivasan,Rohini Raman,Stanley Girshik,Peter A. Kigonya,Shelley Alonso,Rashmi N. Sanbhadti,Sean P. Barletta,John M. Greene,David Pot,Kenna R. Mills Shaw,Laura A.L. Dillon,Kenneth H. Buetow,Tanja Davidsen,John A. Demchok,Greg Eley,Martin L. Ferguson,Peter Fielding,Carl F. Schaefer,Margi Sheth,Liming Yang,Mark S. Guyer,Bradley A. Ozenberger,Jacqueline D. Palchik,Jane Peterson,Heidi J. Sofia,Elizabeth J. Thomson +320 more
TL;DR: Integrative analyses suggest new markers for aggressive colorectal carcinoma and an important role for MYC-directed transcriptional activation and repression.
Journal ArticleDOI
Integrated genomic characterization of endometrial carcinoma
Gad Getz,Stacey Gabriel,Kristian Cibulskis,Eric S. Lander,Andrey Sivachenko,Carrie Sougnez,Michael S. Lawrence,Cyriac Kandoth,David J. Dooling,Robert S. Fulton,Lucinda Fulton,Joelle Kalicki-Veizer,Michael D. McLellan,Michelle O'Laughlin,Heather Schmidt,Richard K. Wilson,Kai Ye,Ding Li,Adrian Ally,Miruna Balasundaram,Inanc Birol,Yaron S.N. Butterfield,Rebecca Carlsen,Candace Carter,Andy Chu,Eric Chuah,Hye Jung E. Chun,Noreen Dhalla,Ranabir Guin,Carrie Hirst,Robert A. Holt,Steven J.M. Jones,Darlene Lee,Haiyan I. Li,Marco A. Marra,Michael Mayo,Richard A. Moore,Andrew J. Mungall,Patrick Plettner,Jacqueline E. Schein,Payal Sipahimalani,Angela Tam,Richard Varhol,A. Gordon Robertson,Andrew D. Cherniack,Itai Pashtan,Gordon Saksena,Robert C. Onofrio,Steven E. Schumacher,Barbara Tabak,Scott L. Carter,Bryan Hernandez,Jeff Gentry,Helga B. Salvesen,Helga B. Salvesen,Kristin G. Ardlie,Wendy Winckler,Rameen Beroukhim,Rameen Beroukhim,Matthew Meyerson,Angela Hadjipanayis,Semin Lee,Harshad S. Mahadeshwar,Peter J. Park,Alexei Protopopov,Xiaojia Ren,Sahil Seth,Xingzhi Song,Jiabin Tang,Ruibin Xi,Lixing Yang,Zeng Dong,Raju Kucherlapati,Lynda Chin,Lynda Chin,Jianhua Zhang,Jianhua Zhang,J. Todd Auman,Saianand Balu,Tom Bodenheimer,Elizabeth Buda,D. Neil Hayes,Alan P. Hoyle,Stuart R. Jefferys,Corbin D. Jones,Shaowu Meng,Piotr A. Mieczkowski,Lisle E. Mose,Joel S. Parker,Charles M. Perou,Jeff Roach,Shi Yan,Janae V. Simons,Mathew G. Soloway,Donghui Tan,Michael D. Topal,Scot Waring,Junyuan Wu,Katherine A. Hoadley,Stephen B. Baylin,Moiz S. Bootwalla,Phillip H. Lai,Timothy J. Triche,David Van Den Berg,Daniel J. Weisenberger,Peter W. Laird,Hui Shen,Hui Shen,Hui Shen,Juok Cho,Daniel DiCara,Scott Frazer,David I. Heiman,Rui Jing,Pei Lin,Will Mallard,Petar Stojanov,Doug Voet,Hailei Zhang,Lihua Zou,Michael S. Noble,Sheila Reynolds,Ilya Shmulevich,B. Arman Aksoy,Yevgeniy Antipin,Giovanni Ciriello,Gideon Dresdner,Jianjiong Gao,Benjamin Gross,Anders Jacobsen,Marc Ladanyi,Boris Reva,Chris Sander,Rileen Sinha,S. Onur Sumer,Barry S. Taylor,Ethan Cerami,Nils Weinhold,Nikolaus Schultz,Ronglai Shen,Stephen C. Benz,Theodore C. Goldstein,David Haussler,Sam Ng,Christopher Szeto,Joshua M. Stuart,Christopher C. Benz,Christina Yau,Wei Zhang,Matti Annala,Matti Annala,Bradley M. Broom,Tod D. Casasent,Zhenlin Ju,Han Liang,Guoyan Liu,Yiling Lu,Anna K. Unruh,Chris Wakefield,John N. Weinstein,Nianxiang Zhang,Yuexin Liu,Russell Broaddus,Rehan Akbani,Gordon B. Mills,Christopher Adams,Thomas Barr,Aaron D. Black,Jay Bowen,John Deardurff,Jessica Frick,Julie M. Gastier-Foster,Julie M. Gastier-Foster,Thomas Grossman,Hollie A. Harper,Melissa Hart-Kothari,Carmen Helsel,Aaron Hobensack,Harkness Kuck,Kelley Kneile,Kristen M. Leraas,Tara M. Lichtenberg,Cynthia McAllister,Robert E. Pyatt,Nilsa C. Ramirez,Nilsa C. Ramirez,Teresa R. Tabler,Nathan Vanhoose,Peter White,Lisa Wise,Erik Zmuda,Nandita Barnabas,Charlenia Berry-Green,Victoria Blanc,Lori Boice,Michael Button,Adam M. Farkas,Alexander A. Green,Jean MacKenzie,Dana Nicholson,Steve E. Kalloger,C. Blake Gilks,Beth Y. Karlan,Jenny Lester,Sandra Orsulic,Mark E. Borowsky,Mark G. Cadungog,Christine Czerwinski,Lori Huelsenbeck-Dill,Mary Iacocca,Nicholas J. Petrelli,Brenda Rabeno,Gary Witkin,Elena Nemirovich-Danchenko,Olga Potapova,D L Rotin,Andrew Berchuck,Michael J. Birrer,P.J. DiSaia,Laura Monovich,Erin Curley,Johanna Gardner,David Mallery,Robert Penny,Sean C. Dowdy,Boris Winterhoff,Linda Dao,Bobbie S. Gostout,Alexandra Meuter,Attila Teoman,Fanny Dao,Narciso Olvera,Faina Bogomolniy,Karuna Garg,Robert A. Soslow,Mikhail Abramov,John M. S. Bartlett,Sugy Kodeeswaran,Jeremy Parfitt,Fedor Moiseenko,Blaise A. Clarke,Marc T. Goodman,Michael E. Carney,Rayna K. Matsuno,Jennifer O. Fisher,Mei Huang,W. Kimryn Rathmell,Leigh B. Thorne,Linda Van Le,Rajiv Dhir,Robert Edwards,Esther Elishaev,Kristin K. Zorn,Paul J. Goodfellow,Paul J. Goodfellow,Paul J. Goodfellow,David G. Mutch,Ari B. Kahn,Daphne W. Bell,Pamela M. Pollock,Chen Wang,David A. Wheeler,Eve Shinbrot,Li Ding,Elaine R. Mardis,Brenda Ayala,Anna L. Chu,Mark A. Jensen,Prachi Kothiyal,Todd Pihl,Joan Pontius,David Pot,Eric E. Snyder,Deepak Srinivasan,Kenna R. Mills Shaw,Margi Sheth,Tanja Davidsen,Greg Eley,Martin L. Ferguson,Liming Yang,Mark S. Guyer,Bradley A. Ozenberger,Heidi J. Sofia,Douglas A. Levine +283 more
TL;DR: In this paper, the authors performed an integrated genomic, transcriptomic and proteomic characterization of 373 endometrial carcinomas using array-and-sequencing-based technologies, and classified them into four categories: POLE ultramutated, microsatellite instability hypermutated, copy-number low, and copy number high.
Integrated genomic characterization of endometrial carcinoma
Gad Getz,Stacey Gabriel,Kristian Cibulskis,Eric S. Lander,Andrey Sivachenko,Carrie Sougnez,Michael S. Lawrence,Cyriac Kandoth,David J. Dooling,Robert S. Fulton,Lucinda Fulton,Joelle Kalicki-Veizer,Michael D. McLellan,Michelle O'Laughlin,Heather Schmidt,Richard K. Wilson,Kai Ye,Li Ding,Elaine R. Mardis,Adrian Ally,Miruna Balasundaram,Inanc Birol,Yaron S. Butterfield,Rebecca Carlsen,Candace D. Carter,Andy Chu,Eric Chuah,Hye Jung E. Chun,Noreen Dhalla,Ranabir Guin,Carrie Hirst,Robert A. Holt,Steven J.M. Jones,Darlene Lee,Haiyan I. Li,Marco A. Marra,Michael Mayo,Richard A. Moore,Andrew J. Mungall,Patrick Plettner,Jacqueline E. Schein,Payal Sipahimalani,Angela Tam,Richard Varhol,A. Gordon Robertson,Andrew D. Cherniack,Itai Pashtan,Gordon Saksena,Robert C. Onofrio,Steven E. Schumacher,Barbara Tabak,Scott L. Carter,Bryan Hernandez,Jeff Gentry,Helga B. Salvesen,Kristin Ardlie,Wendy Winckler,Rameen Beroukhim,Matthew Meyerson,Angela Hadjipanayis,Semin Lee,Harshad S. Mahadeshwar,Peter J. Park,Alexei Protopopov,Xiaojia Ren,Sahil Seth,Xingzhi Song,Jiabin Tang,Ruibin Xi,Lixing Yang,Dong Zeng,Raju Kucherlapati,Lynda Chin,Jianhua Zhang,J. Todd Auman,Saianand Balu,Tom Bodenheimer,Elizabeth Buda,D. Neil Hayes,Alan P. Hoyle,Stuart R. Jefferys,Corbin D. Jones,Shaowu Meng,Piotr A. Mieczkowski,Lisle E. Mose,Joel S. Parker,Charles M. Perou,Jeff Roach,Yan Shi,Janae V. Simons,Mathew G. Soloway,Donghui Tan,Michael D. Topal,Scot Waring,Junyuan Wu,Katherine A. Hoadley,Stephen B. Baylin,Moiz S. Bootwalla,Phillip H. Lai,Timothy J. Triche,David Van Den Berg,Daniel J. Weisenberger,Peter W. Laird,Hui Shen,Juok Cho,Daniel DiCara,Scott Frazer,David I. Heiman,Rui Jing,Pei Lin,Will Mallard,Petar Stojanov,Doug Voet,Hailei Zhang,Lihua Zou,Michael S. Noble,Sheila M. Reynolds,Ilya Shmulevich,B. Arman Aksoy,Yevgeniy Antipin,Giovanni Ciriello,Gideon Dresdner,Jianjiong Gao,Benjamin Gross,Anders Jacobsen,Marc Ladanyi,Boris Reva,Chris Sander,Rileen Sinha,S. Onur Sumer,Barry S. Taylor,Ethan Cerami,Nils Weinhold,Nikolaus Schultz,Ronglai Shen,Stephen C. Benz,Theodore C. Goldstein,David Haussler,Sam Ng,Christopher Szeto,Joshua M. Stuart,Christopher C. Benz,Christina Yau,Wei Zhang,Matti Annala,Bradley M. Broom,Tod D. Casasent,Zhenlin Ju,Han Liang,Guoyan Liu,Yiling Lu,Anna K. Unruh,Chris Wakefield,John N. Weinstein,Nianxiang Zhang,Yuexin Liu,Russell Broaddus,Rehan Akbani,Gordon B. Mills,Christopher Adams,Thomas Barr,Aaron D. Black,Jay Bowen,John Deardurff,Jessica Frick,Julie M. Gastier-Foster,Thomas Grossman,Hollie A. Harper,Melissa Hart-Kothari,Carmen Helsel,Aaron Hobensack,Harkness Kuck,Kelley Kneile,Kristen M. Leraas,Tara M. Lichtenberg,Cynthia McAllister,Robert E. Pyatt,Nilsa C. Ramirez,Teresa R. Tabler,Nathan Vanhoose,Peter White,Lisa Wise,Erik Zmuda,Nandita Barnabas,Charlenia Berry-Green,Victoria Blanc,Lori Boice,Michael Button,Adam M. Farkas,Alexander A. Green,Jean MacKenzie,Dana Nicholson,Steve E. Kalloger,C Blake Gilks,Beth Y. Karlan,Jenny Lester,Sandra Orsulic,Mark L. Borowsky,Mark G. Cadungog,Christine Czerwinski,Lori Huelsenbeck-Dill,Mary Iacocca,Nicholas J. Petrelli,Brenda Rabeno,Gary Witkin,Elena Nemirovich-Danchenko,Olga Potapova,D L Rotin,Andrew Berchuck,Michael J. Birrer,P.J. DiSaia,Laura Monovich,Erin Curley,Johanna Gardner,David Mallery,Robert Penny,Sean C. Dowdy,Boris Winterhoff,Linda Dao,Bobbie S. Gostout,Alexandra Meuter,Attila Teoman,Fanny Dao,Narciso Olvera,Faina Bogomolniy,Karuna Garg,Robert A. Soslow,Douglas A. Levine,Mikhail Abramov,John M. S. Bartlett,Sugy Kodeeswaran,Jeremy Parfitt,Fedor Moiseenko,Blaise A. Clarke,Marc T. Goodman,Michael E. Carney,Rayna K. Matsuno,Jennifer C. Fisher,Mei Huang,W. Kimryn Rathmell,Leigh B. Thorne,Linda Van Le,Rajiv Dhir,Robert R. Edwards,Esther Elishaev,Kristin K. Zorn,Paul J. Goodfellow,David G. Mutch,Ari B. Kahn,Daphne W. Bell,Pamela M. Pollock,Chen Wang,David A. Wheeler,Eve Shinbrot,Brenda Ayala,Anna L. Chu,Mark A. Jensen,Prachi Kothiyal,Todd Pihl,Joan Pontius,David A. Pot,Eric E. Snyder,Deepak Srinivasan,Kenna R. Mills Shaw,Margi Sheth,Tanja Davidsen,Greg Eley Martin L. Ferguson,John A. Demchok,Liming Yang,Mark S. Guyer,Bradley A. Ozenberger,Heidi J. Sofia +271 more
TL;DR: The genomic features of endometrial carcinomas permit a reclassification that may affect post-surgical adjuvant treatment for women with aggressive tumours, and these features are classified into four categories: POLE ultramutated, microsatellite instability hypermutated, copy- number low, and copy-number high.
Journal ArticleDOI
Comprehensive and Integrative Genomic Characterization of Hepatocellular Carcinoma
Adrian Ally,Miruna Balasundaram,Rebecca Carlsen,Eric Chuah,Amanda Clarke,Noreen Dhalla,Robert A. Holt,Steven J.M. Jones,Darlene Lee,Yussanne Ma,Marco A. Marra,Michael Mayo,Richard A. Moore,Andrew J. Mungall,Jacqueline E. Schein,Payal Sipahimalani,Angela Tam,Nina Thiessen,Dorothy Cheung,Tina Wong,Denise Brooks,A. Gordon Robertson,Reanne Bowlby,Karen Mungall,Sara Sadeghi,Liu Xi,Kyle R. Covington,Eve Shinbrot,David A. Wheeler,Richard A. Gibbs,Lawrence A. Donehower,Linghua Wang,Jay Bowen,Julie M. Gastier-Foster,Mark Gerken,Carmen Helsel,Kristen M. Leraas,Tara M. Lichtenberg,Nilsa C. Ramirez,Lisa Wise,Erik Zmuda,Stacey Gabriel,Matthew Meyerson,Carrie Cibulskis,Bradley A. Murray,Juliann Shih,Rameen Beroukhim,Andrew D. Cherniack,Steven E. Schumacher,Gordon Saksena,Chandra Sekhar Pedamallu,Lynda Chin,Gad Getz,Michael S. Noble,Hailei Zhang,David I. Heiman,Juok Cho,Nils Gehlenborg,Douglas Voet,Pei Lin,Scott Frazer,Timothy Defreitas,Sam Meier,Michael S. Lawrence,Jaegil Kim,Chad J. Creighton,Donna M. Muzny,Harshavardhan Doddapaneni,Jianhong Hu,Min Wang,Donna Morton,Viktoriya Korchina,Yi Han,Huyen Dinh,Lora Lewis,Michelle Bellair,Xiuping Liu,Jireh Santibanez,Robert Glenn,Sandra Lee,Walker Hale,Joel S. Parker,Matthew D. Wilkerson,D. Neil Hayes,Sheila Reynolds,Ilya Shmulevich,Wei Zhang,Yuexin Liu,Lisa Iype,Hala Makhlouf,Michael Torbenson,Sanjay Kakar,Matthew M. Yeh,Dhanpat Jain,David E. Kleiner,Renumathy Dhanasekaran,Hashem B. El-Serag,Sun Young Yim,John N. Weinstein,Lopa Mishra,Jianping Zhang,Rehan Akbani,Shiyun Ling,Zhenlin Ju,Xiaoping Su,Apurva M. Hegde,Gordon B. Mills,Yiling Lu,Jian Chen,Ju Seog Lee,Bo Hwa Sohn,Jae-Jun Shim,Pan Tong,Hiroyuki Aburatani,Shogo Yamamoto,Kenji Tatsuno,Wei Li,Zheng Xia,Nicolas Stransky,Eric Seiser,Federico Innocenti,Jianjiong Gao,Ritika Kundra,Hongxin Zhang,Zachary J. Heins,Angelica Ochoa,Chris Sander,Marc Ladanyi,Ronglai Shen,Arshi Arora,Francisco Sanchez-Vega,Nikolaus Schultz,Katayoon Kasaian,Amie Radenbaugh,Karl-Dimiter Bissig,David D. Moore,Yasushi Totoki,Hiromi Nakamura,Tatsuhiro Shibata,Christina Yau,Kiley Graim,Josh Stuart,David Haussler,Betty L. Slagle,Akinyemi I. Ojesina,Panagiotis Katsonis,Amanda Koire,Olivier Lichtarge,Teng-Kuei Hsu,Martin L. Ferguson,John A. Demchok,Ina Felau,Margi Sheth,Roy Tarnuzzer,Zhining Wang,Liming Yang,Jean C. Zenklusen,Jiashan Zhang,Carolyn M. Hutter,Heidi J. Sofia,Roel G.W. Verhaak,Siyuan Zheng,Frederick Lang,Sudha Chudamani,Jia Liu,Laxmi Lolla,Ye Wu,Rashi Naresh,Todd Pihl,Charlie Sun,Yunhu Wan,Christopher C. Benz,Amy H. Perou,Leigh B. Thorne,Lori Boice,Mei Huang,W. Kimryn Rathmell,Houtan Noushmehr,Fabiano Pinto Saggioro,Daniela Pretti da Cunha Tirapelli,Carlos Gilberto Carlotti Junior,Enio David Mente,Orlando de Castro Silva,Felipe Amstalden Trevisan,Koo Jeong Kang,Keun Soo Ahn,Nasra H. Giama,Catherine D. Moser,Thomas J. Giordano,Michelle Vinco,Theodore H. Welling,Daniel Crain,Erin Curley,Johanna Gardner,David Mallery,Scott Morris,Joseph Paulauskis,Robert Penny,Candace Shelton,Troy Shelton,Robin Kate Kelley,Joong-Won Park,Vishal S. Chandan,Lewis R. Roberts,Oliver F. Bathe,Curt H. Hagedorn,J. Todd Auman,Daniel R. O'Brien,Jean-Pierre A. Kocher,Corbin D. Jones,Piotr A. Mieczkowski,Charles M. Perou,Tara Skelly,Donghui Tan,Umadevi Veluvolu,Saianand Balu,Tom Bodenheimer,Alan P. Hoyle,Stuart R. Jefferys,Shaowu Meng,Lisle E. Mose,Yan Shi,Janae V. Simons,Matthew G. Soloway,Jeffrey Roach,Katherine A. Hoadley,Stephen B. Baylin,Hui Shen,Toshinori Hinoue,Moiz S. Bootwalla,David Van Den Berg,Daniel J. Weisenberger,Phillip H. Lai,Andrea Holbrook,Mario Berrios,Peter W. Laird +235 more
TL;DR: Integrative molecular HCC subtyping incorporating unsupervised clustering of five data platforms identified three subtypes, one of which was associated with poorer prognosis in three HCC cohorts and development of a p53 target gene expression signature correlating with poor survival was enabled.
Journal ArticleDOI
Cell-of-Origin Patterns Dominate the Molecular Classification of 10,000 Tumors from 33 Types of Cancer.
Katherine A Hoadley,Christina Yau,Christina Yau,Toshinori Hinoue,Denise M. Wolf,Alexander J. Lazar,Esther Drill,Ronglai Shen,Alison M. Taylor,Alison M. Taylor,Andrew D. Cherniack,Andrew D. Cherniack,Vesteinn Thorsson,Rehan Akbani,Reanne Bowlby,Christopher K. Wong,Maciej Wiznerowicz,Maciej Wiznerowicz,Francisco Sanchez-Vega,A. Gordon Robertson,Barbara G. Schneider,Michael S. Lawrence,Michael S. Lawrence,Houtan Noushmehr,Houtan Noushmehr,Tathiane M. Malta,Tathiane M. Malta,Samantha J. Caesar-Johnson,John A. Demchok,Ina Felau,Melpomeni Kasapi,Martin L. Ferguson,Carolyn M. Hutter,Heidi J. Sofia,Roy Tarnuzzer,Zhining Wang,Liming Yang,Jean C. Zenklusen,Jiashan Zhang,Sudha Chudamani,Jia Liu,Laxmi Lolla,Rashi Naresh,Todd Pihl,Qiang Sun,Yunhu Wan,Ye Wu,Juok Cho,Timothy Defreitas,Scott Frazer,Nils Gehlenborg,Gad Getz,David I. Heiman,Jaegil Kim,Pei Lin,Sam Meier,Michael S. Noble,Gordon Saksena,Doug Voet,Hailei Zhang,Brady Bernard,Nyasha Chambwe,Varsha Dhankani,Theo A. Knijnenburg,Roger Kramer,Kalle Leinonen,Yuexin Liu,Michael W. Miller,Sheila Reynolds,Ilya Shmulevich,Wei Zhang,Bradley M. Broom,Apurva M. Hegde,Zhenlin Ju,Rupa S. Kanchi,Anil Korkut,Jun Li,Han Liang,Shiyun Ling,Wen-Bin Liu,Yiling Lu,Gordon B. Mills,Kwok Shing Ng,Arvind Rao,Michael T. Ryan,Jing Wang,John N. Weinstein,Jiexin Zhang,Adam Abeshouse,Joshua Armenia,Debyani Chakravarty,Walid K. Chatila,Ino de Bruijn,Jianjiong Gao,Benjamin Gross,Zachary J. Heins,Ritika Kundra,Konnor La,Marc Ladanyi,Augustin Luna,Moriah G. Nissan,Angelica Ochoa,Sarah Phillips,Ed Reznik,Chris Sander,Nikolaus Schultz,Robert L. Sheridan,S. Onur Sumer,Yichao Sun,Barry S. Taylor,Jioajiao Wang,Hongxin Zhang,Pavana Anur,Myron Peto,Paul T. Spellman,Christopher C. Benz,Joshua M. Stuart,D. Neil Hayes,Joel S. Parker,Matthew D. Wilkerson,Adrian Ally,Miruna Balasundaram,Denise Brooks,Rebecca Carlsen,Eric Chuah,Noreen Dhalla,Robert A. Holt,Steven J.M. Jones,Katayoon Kasaian,Darlene Lee,Yussanne Ma,Marco A. Marra,Michael Mayo,Richard A. Moore,Andrew J. Mungall,Karen Mungall,Sara Sadeghi,Jacqueline E. Schein,Payal Sipahimalani,Angela Tam,Nina Thiessen,Kane Tse,Tina Wong,Ashton C. Berger,Rameen Beroukhim,Carrie Cibulskis,Stacey Gabriel,Galen F. Gao,Gavin Ha,Matthew Meyerson,Steven E. Schumacher,Juliann Shih,Melanie H. Kucherlapati,Raju Kucherlapati,Stephen B. Baylin,Leslie Cope,Ludmila Danilova,Moiz S. Bootwalla,Phillip H. Lai,Dennis T. Maglinte,David Van Den Berg,Daniel J. Weisenberger,J. Todd Auman,Saianand Balu,Tom Bodenheimer,Cheng Fan,Alan P. Hoyle,Stuart R. Jefferys,Corbin D. Jones,Shaowu Meng,Piotr A. Mieczkowski,Lisle E. Mose,Amy H. Perou,Charles M. Perou,Jeffrey Roach,Yan Shi,Janae V. Simons,Tara Skelly,Matthew G. Soloway,Donghui Tan,Umadevi Veluvolu,Huihui Fan,Peter W. Laird,Hui Shen,Wanding Zhou,Michelle Bellair,Kyle Chang,Kyle R. Covington,Chad J. Creighton,Huyen Dinh,Harshavardhan Doddapaneni,Lawrence A. Donehower,Jennifer Drummond,Richard A. Gibbs,Robert Glenn,Walker Hale,Yi Han,Jianhong Hu,Viktoriya Korchina,Sandra J. Lee,Lora Lewis,W. G. Li,Xiuping Liu,Margaret Morgan,Donna Morton,Donna M. Muzny,Jireh Santibanez,Margi Sheth,Eve Shinbrot,Linghua Wang,Min Wang,David A. Wheeler,Liu Xi,Fengmei Zhao,Julian M. Hess,Elizabeth L. Appelbaum,Matthew A. Bailey,Matthew G. Cordes,Li Ding,Catrina Fronick,Lucinda Fulton,Robert S. Fulton,Cyriac Kandoth,Elaine R. Mardis,Michael D. McLellan,Christopher A. Miller,Heather Schmidt,Rick K. Wilson,Daniel Crain,Erin Curley,Johanna Gardner,Kevin Lau,David Mallery,Scott Morris,Joseph Paulauskis,Robert Penny,Candace Shelton,Troy Shelton,Mark E. Sherman,Eric M. Thompson,Peggy Yena,Jay Bowen,Julie M. Gastier-Foster,Mark Gerken,Kristen M. Leraas,Tara M. Lichtenberg,Nilsa C. Ramirez,Lisa Wise,Erik Zmuda,Niall M. Corcoran,Tony Costello,Christopher M. Hovens,André Lopes Carvalho,Ana Carolina de Carvalho,José Humberto Tavares Guerreiro Fregnani,Adhemar Longatto-Filho,Rui Manuel Reis,Cristovam Scapulatempo-Neto,Henrique César Santejo Silveira,Daniel Onofre Vidal,Andrew Burnette,Jennifer M. Eschbacher,Beth Hermes,Ardene Noss,Rosy Singh,Matthew L. Anderson,Patricia Castro,Michael Ittmann,David G. Huntsman,Bernard Kohl,Xuan Le,Richard Thorp,Chris Andry,Elizabeth R. Duffy,Vladimir Lyadov,Oxana Paklina,Galiya Setdikova,Alexey Shabunin,Mikhail Tavobilov,Christopher M. McPherson,Ronald E. Warnick,Ross S. Berkowitz,Daniel W. Cramer,Colleen M. Feltmate,Neil S. Horowitz,Adam S. Kibel,Michael G. Muto,Chandrajit P. Raut,Andrei Malykh,Jill S. Barnholtz-Sloan,Wendi Barrett,Karen Devine,Jordonna Fulop,Quinn T. Ostrom,Kristen Shimmel,Yingli Wolinsky,Andrew E. Sloan,Agostino Maria De Rose,Felice Giuliante,Marc T. Goodman,Beth Y. Karlan,Curt H. Hagedorn,John Eckman,Jodi Harr,Jerome Myers,Kelinda Tucker,Leigh Anne Zach,Brenda Deyarmin,Hai Hu,Leonid Kvecher,Caroline Larson,Richard J. Mural,Stella Somiari,Ales Vicha,Tomáš Zelinka,Joseph J. Bennett,Mary Iacocca,Brenda Rabeno,Patricia Swanson,Mathieu Latour,Louis Lacombe,Bernard Têtu,Alain Bergeron,Mary McGraw,Susan M. Staugaitis,John Chabot,Hanina Hibshoosh,Antonia R. Sepulveda,Tao Su,Timothy C. Wang,Olga Potapova,Olga Voronina,Laurence Desjardins,Odette Mariani,Sergio Roman-Roman,Xavier Sastre,Marc-Henri Stern,Feixiong Cheng,Sabina Signoretti,Andrew Berchuck,Darell D. Bigner,Eric S. Lipp,Jeffrey R. Marks,Shannon J. McCall,Roger E. McLendon,Angeles Alvarez Secord,Alexis Sharp,Madhusmita Behera,Daniel J. Brat,Amy Y. Chen,Keith A. Delman,Seth D. Force,Fadlo R. Khuri,Kelly R. Magliocca,Shishir K. Maithel,Jeffrey J. Olson,Taofeek K. Owonikoko,Alan Pickens,Suresh S. Ramalingam,Dong M. Shin,Gabriel Sica,Erwin G. Van Meir,Hongzheng Zhang,Wil Eijckenboom,Ad J. M. Gillis,Esther Korpershoek,Leendert H. J. Looijenga,Wolter Oosterhuis,Hans Stoop,Kim E.M. van Kessel,Ellen C. Zwarthoff,Chiara Calatozzolo,Lucia Cuppini,Stefania Cuzzubbo,Francesco DiMeco,Gaetano Finocchiaro,Luca Mattei,Alessandro Perin,Bianca Pollo,Chu Chen,John Houck,Pawadee Lohavanichbutr,Arndt Hartmann,Christine Stoehr,Robert Stoehr,Helge Taubert,Sven Wach,Bernd Wullich,Witold Kycler,Dawid Murawa,Ki Chung,W. Jeffrey Edenfield,Julie S. Martin,Eric Baudin,Glenn J. Bubley,Raphael Bueno,Assunta De Rienzo,William G. Richards,Steven N. Kalkanis,Tom Mikkelsen,Lisa Scarpace,Nicolas Girard,Marta Aymerich,Elias Campo,Eva Giné,Armando López Guillermo,Nguyen Van Bang,Phan Thi Hanh,Bui Duc Phu,Yufang Tang,Howard Colman,Kimberley Evason,Peter Dottino,John A. Martignetti,Hani Gabra,Hartmut Juhl,Teniola Akeredolu,Serghei Stepa,Dave S.B. Hoon,Keunsoo Ahn,Koo Jeong Kang,Felix Beuschlein,Anne Breggia,Michael J. Birrer,Debra A. Bell,Mitesh J. Borad,Alan H. Bryce,Erik P. Castle,Vishal S. Chandan,John C. Cheville,John A. Copland,Michael B. Farnell,Thomas J. Flotte,Nasra H. Giama,Thai H. Ho,Michael L. Kendrick,Jean Pierre A. Kocher,Karla Kopp,Catherine D. Moser,David M. Nagorney,Daniel R. O'Brien,Brian P. O'Neill,Tushar Patel,Gloria M. Petersen,Florencia G. Que,Michael Rivera,Lewis R. Roberts,Robert C. Smallridge,Thomas C. Smyrk,Melissa L. Stanton,R. Houston Thompson,Michael Torbenson,Ju Dong Yang,Lizhi Zhang,Fadi Brimo,Jaffer A. Ajani,Ana Maria Angulo Gonzalez,Carmen Behrens,olanta Bondaruk,Russell Broaddus,Bogdan Czerniak,Bita Esmaeli,Junya Fujimoto,Jeffrey E. Gershenwald,Charles C. Guo,Christopher J. Logothetis,Funda Meric-Bernstam,Cesar A. Moran,Lois M. Ramondetta,David C. Rice,Anil K. Sood,Pheroze Tamboli,Timothy C. Thompson,Patricia Troncoso,Anne Tsao,Ignacio I. Wistuba,Candace Carter,Lauren E. Haydu,Peter Hersey,Valerie Jakrot,Hojabr Kakavand,Richard F. Kefford,Kenneth K. Lee,Georgina V. Long,Graham J. Mann,Michael A. Quinn,Robyn P. M. Saw,Richard A. Scolyer,Kerwin F. Shannon,Andrew J. Spillane,Jonathan R. Stretch,Maria Synott,John F. Thompson,James S. Wilmott,Hikmat Al-Ahmadie,Timothy A. Chan,Ronald Ghossein,Anuradha Gopalan,Douglas A. Levine,Victor E. Reuter,Samuel Singer,Bhuvanesh Singh,Nguyen Viet Tien,Thomas Broudy,Cyrus Mirsaidi,Praveen Nair,Paul Drwiega,Judy Miller,Jennifer S. Smith,Howard Zaren,Joong-Won Park,Nguyen Phi Hung,Electron Kebebew,W. Marston Linehan,Adam R. Metwalli,Karel Pacak,Peter A. Pinto,Mark Schiffman,Laura S. Schmidt,Cathy D. Vocke,Nicolas Wentzensen,Robert Worrell,Hannah P. Yang,Marc Moncrieff,Chandra Goparaju,Jonathan Melamed,Harvey I. Pass,Natalia Botnariuc,Irina Caraman,Mircea Cernat,Inga Chemencedji,Adrian Clipca,Serghei Doruc,Ghenadie Gorincioi,Sergiu Mura,Maria Pirtac,Irina Stancul,Diana Tcaciuc,Monique Albert,Iakovina Alexopoulou,Angel Arnaout,John Bartlett,Jay Engel,Sebastien Gilbert,Jeremy Parfitt,Harman Sekhon,George Thomas,Doris M. Rassl,Robert C. Rintoul,Carlo Bifulco,Raina Tamakawa,Walter J. Urba,Nicholas K. Hayward,Henri J L M Timmers,Anna Antenucci,Francesco Facciolo,Gian Luca Grazi,Mirella Marino,Roberta Merola,Ronald R. de Krijger,Anne Paule Gimenez-Roqueplo,Alain Piché,Simone Chevalier,Ginette McKercher,Kıvanç Birsoy,Gene H. Barnett,Cathy Brewer,Carol Farver,Theresa Naska,Nathan A. Pennell,Daniel P. Raymond,Cathy Schilero,Kathy Smolenski,Felicia Williams,Carl Morrison,Jeffrey A. Borgia,Michael J. Liptay,Mark Pool,Christopher W. Seder,Kerstin Junker,Larsson Omberg,Mikhail Dinkin,George Manikhas,Domenico Alvaro,Maria Consiglia Bragazzi,Vincenzo Cardinale,Guido Carpino,Eugenio Gaudio,David Chesla,Sandra Cottingham,Michael Dubina,Fedor Moiseenko,Renumathy Dhanasekaran,Karl-Friedrich Becker,Klaus-Peter Janssen,Julia Slotta-Huspenina,Mohamed H. Abdel-Rahman,Dina Aziz,Sue E. Bell,Colleen M. Cebulla,Amy Davis,Rebecca Duell,J. Bradley Elder,Joe Hilty,Bahavna Kumar,James C. Lang,Norman L. Lehman,Randy Mandt,Phuong Nguyen,Robert Pilarski,Karan Rai,Lynn Schoenfield,Kelly Senecal,Paul Wakely,Paul Hansen,Ronald Lechan,James Powers,Arthur S. Tischler,William E. Grizzle,Katherine C. Sexton,Alison Kastl,Joel M. Henderson,Sima P. Porten,Jens Waldmann,Martin Fassnacht,Sylvia L. Asa,Dirk Schadendorf,Marta Couce,Markus Graefen,Hartwig Huland,Guido Sauter,Thorsten Schlomm,Ronald Simon,Pierre Tennstedt,Oluwole Olabode,Mark Nelson,Oliver F. Bathe,Peter R. Carroll,June M. Chan,Philip J. DiSaia,Pat Glenn,Robin Kate Kelley,Charles N. Landen,Joanna J. Phillips,Michael D. Prados,Jeffry P. Simko,Karen Smith-McCune,Scott R. VandenBerg,Kevin K. Roggin,Ashley Fehrenbach,Ady Kendler,Suzanne Sifri,Ruth Steele,Antonio Jimeno,Francis Carey,Ian Forgie,Massimo Mannelli,Michael E. Carney,Brenda Y. Hernandez,Benito Campos,Christel Herold-Mende,Christin Jungk,Andreas Unterberg,Andreas von Deimling,Aaron D. Bossler,Joseph Galbraith,Laura Jacobus,Michael Knudson,Tina Knutson,Deqin Ma,Mohammed M. Milhem,Rita Sigmund,Andrew K. Godwin,Rashna Madan,Howard G. Rosenthal,Clement Adebamowo,Sally N. Adebamowo,Alex Boussioutas,David G. Beer,Thomas J. Giordano,Anne Marie Mes-Masson,Fred Saad,Thèrése Bocklage,Lisa M. Landrum,Robert S. Mannel,Kathleen N. Moore,Katherine M. Moxley,Russel Postier,Joan L. Walker,Rosemary E. Zuna,Michael Feldman,Federico Valdivieso,Rajiv Dhir,James D. Luketich,Edna M. Mora Pinero,Mario Quintero-Aguilo,Carlos Gilberto Carlotti,Jose Sebastião Dos Santos,Rafael Kemp,Ajith Sankarankuty,Daniela Pretti da Cunha Tirapelli,James W.F. Catto,Kathy Agnew,Elizabeth M. Swisher,Jenette Creaney,Bruce W. S. Robinson,Carl Simon Shelley,Eryn M. Godwin,Sara Kendall,Cassaundra Shipman,Carol R. Bradford,Thomas E. Carey,Andrea Haddad,Jeffey Moyer,Lisa A. Peterson,Mark E. Prince,Laura S. Rozek,Gregory T. Wolf,Rayleen V. Bowman,Kwun M. Fong,Ian A. Yang,Robert Korst,W. Kimryn Rathmell,J. Leigh Fantacone-Campbell,Jeffrey A. Hooke,Albert J. Kovatich,Craig D. Shriver,John F. DiPersio,Bettina F. Drake,Ramaswamy Govindan,Sharon Heath,Timothy J. Ley,Brian A. Van Tine,Peter Westervelt,Mark A. Rubin,Jung Il Lee,Natália D. Aredes,Armaz Mariamidze,Christopher C. Benz +738 more
TL;DR: Molecular similarities among histologically or anatomically related cancer types provide a basis for focused pan-cancer analyses, such as pan-gastrointestinal, Pan-gynecological, pan-kidney, and pan-squamous cancers, and those related by stemness features, which may inform strategies for future therapeutic development.