Mapping the hallmarks of lung adenocarcinoma with massively parallel sequencing
Marcin Imielinski,Alice H. Berger,Alice H. Berger,Peter S. Hammerman,Peter S. Hammerman,Bryan Hernandez,Trevor J. Pugh,Trevor J. Pugh,Eran Hodis,Jeonghee Cho,James Suh,Marzia Capelletti,Andrey Sivachenko,Carrie Sougnez,Daniel Auclair,Michael S. Lawrence,Petar Stojanov,Petar Stojanov,Kristian Cibulskis,Kyusam Choi,Luc de Waal,Luc de Waal,Tanaz Sharifnia,Tanaz Sharifnia,Angela N. Brooks,Angela N. Brooks,Heidi Greulich,Heidi Greulich,Shantanu Banerji,Shantanu Banerji,Thomas Zander,Danila Seidel,Frauke Leenders,Sascha Ansén,Corinna Ludwig,Walburga Engel-Riedel,Erich Stoelben,Jürgen Wolf,Chandra Goparju,Kristin Thompson,Wendy Winckler,David J. Kwiatkowski,Bruce E. Johnson,Pasi A. Jänne,Vincent A. Miller,William Pao,William D. Travis,Harvey I. Pass,Stacey Gabriel,Eric S. Lander,Eric S. Lander,Eric S. Lander,Roman K. Thomas,Levi A. Garraway,Levi A. Garraway,Gad Getz,Matthew Meyerson,Matthew Meyerson +57 more
TLDR
Exome and genome sequences and whole-genome sequence analysis revealed frequent structural rearrangements, including in-frame exonic alterations within EGFR and SIK2 kinases, which are attractive targets for biological characterization and therapeutic targeting of lung adenocarcinoma.About:
This article is published in Cell.The article was published on 2012-09-14 and is currently open access. It has received 1631 citations till now. The article focuses on the topics: Adenocarcinoma & Exome.read more
Citations
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Signatures of mutational processes in human cancer
Ludmil B. Alexandrov,Serena Nik-Zainal,Serena Nik-Zainal,David C. Wedge,Samuel Aparicio,Sam Behjati,Sam Behjati,Andrew V. Biankin,Graham R. Bignell,Niccolo Bolli,Niccolo Bolli,Åke Borg,Anne Lise Børresen-Dale,Anne Lise Børresen-Dale,Sandrine Boyault,Birgit Burkhardt,Adam Butler,Carlos Caldas,Helen Davies,Christine Desmedt,Roland Eils,Jorunn E. Eyfjord,John A. Foekens,Mel Greaves,Fumie Hosoda,Barbara Hutter,Tomislav Ilicic,Sandrine Imbeaud,Sandrine Imbeaud,Marcin Imielinsk,Natalie Jäger,David T. W. Jones,David T. Jones,Stian Knappskog,Stian Knappskog,Marcel Kool,Sunil R. Lakhani,Carlos López-Otín,Sancha Martin,Nikhil C. Munshi,Nikhil C. Munshi,Hiromi Nakamura,Paul A. Northcott,Marina Pajic,Elli Papaemmanuil,Angelo Paradiso,John V. Pearson,Xose S. Puente,Keiran Raine,Manasa Ramakrishna,Andrea L. Richardson,Andrea L. Richardson,Julia Richter,Philip Rosenstiel,Matthias Schlesner,Ton N. Schumacher,Paul N. Span,Jon W. Teague,Yasushi Totoki,Andrew Tutt,Rafael Valdés-Mas,Marit M. van Buuren,Laura van ’t Veer,Anne Vincent-Salomon,Nicola Waddell,Lucy R. Yates,Icgc PedBrain,Jessica Zucman-Rossi,Jessica Zucman-Rossi,P. Andrew Futreal,Ultan McDermott,Peter Lichter,Matthew Meyerson,Matthew Meyerson,Sean M. Grimmond,Reiner Siebert,Elias Campo,Tatsuhiro Shibata,Stefan M. Pfister,Stefan M. Pfister,Peter J. Campbell,Peter J. Campbell,Peter J. Campbell,Michael R. Stratton,Michael R. Stratton +84 more
TL;DR: It is shown that hypermutation localized to small genomic regions, ‘kataegis’, is found in many cancer types, and this results reveal the diversity of mutational processes underlying the development of cancer.
Journal ArticleDOI
Cancer Genome Landscapes
Bert Vogelstein,Nickolas Papadopoulos,Victor E. Velculescu,Shibin Zhou,Luis A. Diaz,Kenneth W. Kinzler +5 more
TL;DR: This work has revealed the genomic landscapes of common forms of human cancer, which consists of a small number of “mountains” (genes altered in a high percentage of tumors) and a much larger number of "hills" (Genes altered infrequently).
Journal ArticleDOI
Mutational landscape determines sensitivity to PD-1 blockade in non–small cell lung cancer
Naiyer A. Rizvi,Naiyer A. Rizvi,Matthew D. Hellmann,Matthew D. Hellmann,Alexandra Snyder,Alexandra Snyder,Pia Kvistborg,Vladimir Makarov,Jonathan J. Havel,William Lee,Jianda Yuan,Phillip Wong,Teresa S. Ho,Martin L. Miller,Natasha Rekhtman,Andre L. Moreira,Fawzia Ibrahim,Cameron Bruggeman,Billel Gasmi,Roberta Zappasodi,Yuka Maeda,Chris Sander,Edward B. Garon,Taha Merghoub,Jedd D. Wolchok,Jedd D. Wolchok,Ton N. Schumacher,Timothy A. Chan,Timothy A. Chan +28 more
TL;DR: Treatment efficacy was associated with a higher number of mutations in the tumors, and a tumor-specific T cell response paralleled tumor regression in one patient, suggesting that the genomic landscape of lung cancers shapes response to anti–PD-1 therapy.
Journal ArticleDOI
Inferring tumour purity and stromal and immune cell admixture from expression data
Kosuke Yoshihara,Maria Shahmoradgoli,Emmanuel Martinez,Rahulsimham Vegesna,Hoon Kim,Wandaliz Torres-Garcia,Victor Trevino,Hui Shen,Peter W. Laird,Douglas A. Levine,Scott L. Carter,Gad Getz,Katherine Stemke-Hale,Gordon B. Mills,Roel G.W. Verhaak +14 more
TL;DR: A method that uses gene expression signatures to infer the fraction of stromal and immune cells in tumour samples and prediction accuracy is corroborated using 3,809 transcriptional profiles available elsewhere in the public domain.
Journal ArticleDOI
Comprehensive molecular profiling of lung adenocarcinoma: The cancer genome atlas research network
Eric A. Collisson,Joshua D. Campbell,Angela N. Brooks,Angela N. Brooks,Alice H. Berger,William Lee,Juliann Chmielecki,David G. Beer,Leslie Cope,Chad J. Creighton,Ludmila Danilova,Li Ding,Gad Getz,Gad Getz,Peter S. Hammerman,D. Neil Hayes,Bryan Hernandez,James G. Herman,John V. Heymach,Igor Jurisica,Raju Kucherlapati,David J. Kwiatkowski,Marc Ladanyi,Gordon Robertson,Nikolaus Schultz,Ronglai Shen,Rileen Sinha,Carrie Sougnez,Ming-Sound Tsao,William D. Travis,John N. Weinstein,Dennis A. Wigle,Matthew D. Wilkerson,Andy Chu,Andrew D. Cherniack,Angela Hadjipanayis,Mara Rosenberg,Daniel J. Weisenberger,Peter W. Laird,Amie Radenbaugh,Singer Ma,Joshua M. Stuart,Lauren Averett Byers,Stephen B. Baylin,Ramaswamy Govindan,Matthew Meyerson,Matthew Meyerson,Stacey Gabriel,Kristian Cibulskis,Jaegil Kim,Chip Stewart,Lee Lichtenstein,Eric S. Lander,Eric S. Lander,Michael S. Lawrence,E. Getz,E. Getz,Robert S. Fulton,Lucinda Fulton,Michael D. McLellan,Richard K. Wilson,Kai Ye,Catrina Fronick,Christopher G. Maher,Christopher A. Miller,Michael C. Wendl,Christopher R. Cabanski,Elaine R. Mardis,David A. Wheeler,Miruna Balasundaram,Yaron S.N. Butterfield,Rebecca Carlsen,Eric Chuah,Noreen Dhalla,Ranabir Guin,Carrie Hirst,Darlene Lee,Haiyan I. Li,Michael Mayo,Richard A. Moore,Andrew J. Mungall,Jacqueline E. Schein,Payal Sipahimalani,Angela Tam,Richard Varhol,A. Gordon Robertson,Natasja Wye,Nina Thiessen,Robert A. Holt,Steven J.M. Jones,Marco A. Marra,Marcin Imielinski,Marcin Imielinski,Robert C. Onofrio,Eran Hodis,Travis I. Zack,Elena Helman,Chandra Sekhar Pedamallu,Jill P. Mesirov,Gordon Saksena,Steven E. Schumacher,Scott L. Carter,Levi A. Garraway,Levi A. Garraway,Rameen Beroukhim,Rameen Beroukhim,Semin Lee,Harshad S. Mahadeshwar,Angeliki Pantazi,Angeliki Pantazi,Alexei Protopopov,Xiaojia Ren,Sahil Seth,Xingzhi Song,Jiabin Tang,Lixing Yang,Jianhua Zhang,Peng Chieh Chen,Michael Parfenov,Andrew Wei Xu,Netty Santoso,Lynda Chin,Peter J. Park,Katherine A. Hoadley,J. Todd Auman,Shaowu Meng,Yan Shi,Elizabeth Buda,Scot Waring,Umadevi Veluvolu,Donghui Tan,Piotr A. Mieczkowski,Corbin D. Jones,Janae V. Simons,Matthew G. Soloway,Tom Bodenheimer,Stuart R. Jefferys,Jeffrey Roach,Alan P. Hoyle,Junyuan Wu,Saianand Balu,Darshan Singh,Jan F. Prins,James Stephen Marron,Joel S. Parker,Charles M. Perou,Jinze Liu,Dennis T. Maglinte,Philip H. Lai,Moiz S. Bootwalla,David Van Den Berg,Timothy J. Triche,Juok Cho,Daniel DiCara,David I. Heiman,Pei Lin,William Mallard,Douglas Voet,Hailei Zhang,Lihua Zou,Michael S. Noble,Nils Gehlenborg,Helga Thorvaldsdottir,Marc Danie Nazaire,James T. Robinson,B. Arman Aksoy,Giovanni Ciriello,Barry S. Taylor,Gideon Dresdner,Jianjiong Gao,Benjamin Gross,Venkatraman E. Seshan,Boris Reva,S. Onur Sumer,Nils Weinhold,Chris Sander,Sam Ng,Jingchun Zhu,Christopher C. Benz,Christina Yau,David Haussler,Paul T. Spellman,Patrick K. Kimes,Bradley M. Broom,Jing Wang,Yiling Lu,Patrick Kwok Shing Ng,Lixia Diao,Wenbin Liu,Christopher I. Amos,Rehan Akbani,Gordon B. Mills,Erin Curley,Joseph Paulauskis,Kevin Lau,Scott Morris,Troy Shelton,David Mallery,Johanna Gardner,Robert Penny,Charles Saller,Katherine Tarvin,William G. Richards,Robert J. Cerfolio,Ayesha S. Bryant,Daniel P. Raymond,Nathan A. Pennell,Carol Farver,Christine Czerwinski,Lori Huelsenbeck-Dill,Mary Iacocca,Nicholas J. Petrelli,Brenda Rabeno,Jennifer Brown,Thomas L. Bauer,Cureline Oleg Dolzhanskiy,Olga Potapova,D L Rotin,Olga Voronina,Elena Nemirovich-Danchenko,Konstantin V. Fedosenko,Anthony A. Gal,Madhusmita Behera,Suresh S. Ramalingam,Gabriel Sica,Douglas B. Flieder,Jeff Boyd,Jo Ellen Weaver,Bernard Kohl,Dang Huy Quoc Thinh,George E. Sandusky,Hartmut Juhl,Edwina Duhig,Peter B. Illei,Edward Gabrielson,James Shin,Beverly Lee,Kristen Rogers,Dante Trusty,Malcolm V. Brock,Christina Williamson,Eric J. Burks,Kimberly M. Rieger-Christ,Antonia H. Holway,Travis Sullivan,Michael K. Asiedu,Farhad Kosari,Natasha Rekhtman,Maureen F. Zakowski,Valerie W. Rusch,Paul Zippile,James Suh,Harvey I. Pass,Chandra Goparaju,Yvonne Owusu-Sarpong,John M. S. Bartlett,Sugy Kodeeswaran,Jeremy Parfitt,Harmanjatinder S. Sekhon,Monique Albert,John Eckman,Jerome Myers,Carl Morrison,Carmelo Gaudioso,Jeffrey A. Borgia,Philip Bonomi,Mark Pool,Michael J. Liptay,Fedor Moiseenko,Irina Zaytseva,Hendrik Dienemann,Michael Meister,Philipp A. Schnabel,Thomas Muley,Martin Peifer,Carmen Gomez-Fernandez,Lynn M. Herbert,Sophie C. Egea,Mei Huang,Leigh B. Thorne,Lori Boice,Ashley H. Salazar,William K. Funkhouser,W. Kimryn Rathmell,Rajiv Dhir,Samuel A. Yousem,Sanja Dacic,Frank Schneider,Jill M. Siegfried,Richard A. Hajek,Mark A. Watson,Sandra McDonald,Bryan F. Meyers,Belinda E. Clarke,Ian A. Yang,Kwun M. Fong,Lindy Hunter,Morgan Windsor,Rayleen V. Bowman,Solange Peters,Igor Letovanec,Khurram Z. Khan,Mark A. Jensen,Eric E. Snyder,Deepak Srinivasan,Ari B. Kahn,Julien Baboud,David Pot,Kenna R. Mills Shaw,Margi Sheth,Tanja Davidsen,John A. Demchok,Liming Yang,Zhining Wang,Roy Tarnuzzer,Jean C. Zenklusen,Bradley A. Ozenberger,Heidi J. Sofia,Richard T. Cheney +318 more
TL;DR: In this paper, the authors report molecular profiling of 230 resected lung adnocarcinomas using messenger RNA, microRNA and DNA sequencing integrated with copy number, methylation and proteomic analyses.
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J. Guillermo Paez,Pasi A. Jänne,Pasi A. Jänne,Jeffrey C. Lee,Sean Tracy,Heidi Greulich,Heidi Greulich,Stacey Gabriel,Paula Herman,Frederic J. Kaye,Neal I. Lindeman,Titus J. Boggon,Katsuhiko Naoki,Hidefumini Sasaki,Yoshitaka Fujii,Michael J. Eck,William R. Sellers,William R. Sellers,William R. Sellers,Bruce E. Johnson,Bruce E. Johnson,Matthew Meyerson,Matthew Meyerson +22 more
TL;DR: Results suggest that EGFR mutations may predict sensitivity to gefitinib, and treatment with the EGFR kinase inhibitor gefitsinib causes tumor regression in some patients with NSCLC, more frequently in Japan.
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EGFR mutations in lung cancer: correlation with clinical response to gefitinib therapy.
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