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Subgroup-specific structural variation across 1,000 medulloblastoma genomes

Northcott, Paul A.; Shih, David J. H.; Peacock, John; Garzia, Livia; Morrissy, A. Sorana; Zichner, Thomas; Stuetz, Adrian M.; Korshunov, Andrey; Reimand, Jueri; Schumacher, Steven E.; Beroukhim, Rameen; Ellison, David W.; Marshall, Christian R.; Lionel, Anath C.; Mack, Stephen; Dubuc, Adrian; Yao, Yuan; Ramaswamy, Vijay; Luu, Betty; Rolider, Adi; Cavalli, Florence M. G.; Wang, Xin; Remke, Marc; Wu, Xiaochong; Chiu, Readman Y. B.; Chu, Andy; Chuah, Eric; Corbett, Richard D.; Hoad, Gemma R.; Jackman, Shaun D.; Li, Yisu; Lo, Allan; Mungall, Karen L.; Nip, Ka Ming; Qian, Jenny Q.; Raymond, Anthony G. J.; Thiessen, Nina; Varhol, Richard J.; Birol, Inanc; Moore, Richard A.; Mungall, Andrew J.; Holt, Robert; Kawauchi, Daisuke; Roussel, Martine F.; Kool, Marcel; Jones, David T. W.; Witt, Hendrick; Fernandez-L, Africa; Kenney, Anna M.; Wechsler-Reya, Robert J.; Dirks, Peter; Aviv, Tzvi; Grajkowska, Wieslawa A.; Perek-Polnik, Marta; Haberler, Christine C.; Delattre, Olivier; Reynaud, Stephanie S.; Doz, Francois F.; Pernet-Fattet, Sarah S.; Cho, Byung-Kyu; Kim, Seung-Ki; Wang, Kyu-Chang; Scheurlen, Wolfram; Eberhart, Charles G.; Fevre-Montange, Michelle; Jouvet, Anne; Pollack, Ian F.; Fan, Xing; Muraszko, Karin M.; Gillespie, G. Yancey; Di Rocco, Concezio; Massimi, Luca; Michiels, Erna M. C.; Kloosterhof, Nanne K.; French, Pim J.; Kros, Johan M.; Olson, James M.; Ellenbogen, Richard G.; Zitterbart, Karel; Kren, Leos; Thompson, Reid C.; Cooper, Michael K.; Lach, Boleslaw; Mclendon, Roger E.; Bigner, Darell D.; Fontebasso, Adam; Albrecht, Steffen; Jabado, Nada; Lindsey, Janet C.; Bailey, Simon; Gupta, Nalin; Weiss, William A.; Bognar, Laszlo; Klekner, Almos; Van Meter, Timothy E.; Kumabe, Toshihiro; Tominaga, Teiji; Elbabaa, Samer K.; Leonard, Jeffrey R.; Rubin, Joshua B.; Liau, Linda M.; Van Meir, Erwin G.; Fouladi, Maryam; Nakamura, Hideo; Cinalli, Giuseppe; Garami, Miklos; Hauser, Peter; Saad, Ali G.; Iolascon, Achille; Jung, Shin; Carlotti, Carlos G.; Vibhakar, Rajeev; Ra, Young Shin; Robinson, Shenandoah; Zollo, Massimo; Faria, Claudia C.; Chan, Jennifer A.; Levy, Michael L.; Sorensen, Poul H. B.; Meyerson, Matthew; Pomeroy, Scott L.; Cho, Yoon-Jae; Bader, Gary D.; Tabori, Uri; Hawkins, Cynthia E.; Bouffet, Eric; Scherer, Stephen W.; Rutka, James T.; Malkin, David; Clifford, Steven C.; Jones, Steven J. M.; Korbel, Jan O.; Pfister, Stefan M.; Marra, Marco A.; Taylor, Michael D. Universidade De São Paulo

NATURE, LONDON, v. 488, n. 7409, supl. 4, Part 1-2, pp. 49-56, AUG 2, 2012

NATURE PUBLISHING GROUP; LONDON 2012

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The Genome Sequence of Taurine Cattle: A Window to Ruminant Biology and Evolution

Elsik, Christine G.; Tellam, Ross L.; Worley, Kim C.; Gibbs, Richard A.; Abatepaulo, Antonio R. R.; Abbey, Colette A.; Adelson, David L.; Aerts, Jan; Ahola, Virpi; Alexander, Lee; Alioto, Tyler; Almeida, Iassudara G.; Amadio, Ariel F.; Anatriello, Elen; Antonarakis, Stylianos E.; Anzola, Juan M.; Astashyn, Alex; Bahadue, Suria M.; Baldwin, Cynthia L.; Barris, Wes; Baxter, Rebecca; Bell, Stephanie Nicole; Bennett, Anna K.; Bennett, Gary L.; Biase, Fernando H.; Boldt, Clayton R.; Bradley, Daniel G.; Brinkman, Fiona S. L.; Brinkmeyer-Langford, Candice L.; Brown, Wendy C.; Brownstein, Michael J.; Buhay, Christian; Caetano, Alexandre R.; Camara, Francisco; Carroll, Jeffrey A.; Carvalho, Wanessa A.; Casey, Theresa; Cervelatti, Elaine P.; Chack, Joseph; Chacko, Elsa; Chandrabose, Mimi M.; Chapin, Jennifer E.; Chapple, Charles E.; Chen, Hsiu-Chuan; Chen, Lin; Cheng, Ye; Cheng, Ze; Childers, Christopher P.; Chitko-Mckown, Carol G.; Chiu, Readman; Choi, Jungwoo; Chrast, Jacqueline; Colley, Adam J.; Connelley, Tomothy; Cree, Andy; Curry, Stacey; Dalrymple, Brian; Dao, Marvin Diep; Davis, Clay; Oliveira, Carlo J. F. De; Santos, Isabel K. F. De Miranda; Campos, Tatiana A. De; Deobald, Heather; Devinoy, Eve; Dickins, C. Michael; Yan, Ding; Dinh, Huyen H.; Donato, Marcos De; Donohue, Kaitlin E.; Donthu, Ravikiran; Dovc, Peter; Dugan-Rocha, Shannon; Durbin, K. James; Eberlein, Annett; Edgar, Robert C.; Egan, Amy; Eggen, Andre; Eichler, Evan E.; Elhaik, Eran; Ellis, Shirley A.; Elnitski, Laura; Ermolaeva, Olga; Eyras, Eduardo; Fitzsimmons, Carolyn J.; Fowler, Gerald R.; Franzin, Alessandra M.; Fritz, Krista; Gabisi, Ramatu Ayiesha; Garcia, Gustavo R.; Garcia, Jose Fernando; Genini, Sem; Gerlach, Daniel; German, J. Bruce; Gilbert, James G. R.; Gill, Clare A.; Gladney, Cody J.; Glass, Elizabeth J.; Goodell, Jason; Grant, Jason R.; Graur, Dan; Greaser, Marion L.; Green, Jonathan A.; Green, Ronnie D.; Guan, Leluo; Guigo, Roderic; Hadsell, Darryl L.; Hagen, Darren E.; Hakimov, Hatam A.; Halgren, Rob; Hamernik, Debora L.; Hamilton, Cerissa; Harhay, Gregory P.; Harrow, Jennifer L.; Hart, Elizabeth A.; Hastings, Nicola; Havlak, Paul; Henrichsen, Charlotte N.; Hernandez, Judith; Hernandez, Marta; Herzig, Carolyn T. A.; Hiendleder, Stefan G.; Hines, Sandra; Hitchens, Matthew Edward; Hlavina, Wratko; Hobbs, Matthew; Holder, Michael; Holt, Robert A.; Hu, Zhi-Liang; Hume, Jennifer; Iivanainen, Antti; Ingham, Aaron; Iso-Touru, Terhi; Jamis, Catherine; Jann, Oliver; Jensen, Kirsty; Jhangiani, Shalini N.; Jiang, Huaiyang; Johnson, Angela Jolivet; Jones, Steven J. M.; Joshi, Vandita; Junier, Thomas; Kapetis, Dimos; Kappes, Steve M.; Kapustin, Yuri; Keele, John W.; Kent, Matthew P.; Kerr, Tovah; Khalil, Sari S.; Khatib, Hasan; Kiryutin, Boris; Kitts, Paul; Kokocinski, Felix; Kolbehdari, Davood; Kovar, Christie L.; Kriventseva, Evgenia V.; Kumar, Charu G.; Kumar, Dinesh; Lahmers, Kevin K.; Landrum, Melissa; Larkin, Denis M.; Lau, Lilian P. L.; Leach, Richard; Lee, Justin C. M.; Lee, Sandra; Lemay, Danielle G.; Lewin, Harris A.; Lewis, Lora R.; Li, Changxi; Lien, Sigbjorn; Liu, George E.; Liu, Yih-Shin; Liu, Yue; Logan, Krystin M.; Lopez, John; Lozado, Ryan J.; Lutzow, Ylva Strandberg; Lynn, David J.; Macneil, Michael D.; Maglott, Donna; Malinverni, Roberto; Maqbool, Nauman J.; Marques, Elisa; Marra, Marco A.; Martin, William F.; Martins, Natalia F.; Maruyama, Sandra R.; Matukumalli, Lakshmi K.; Mazza, Raffaele; Mcewan, John C.; Mckay, Stephanie D.; Mclean, Kim L.; Mcwilliam, Sean; Medrano, Juan F.; Memili, Erdogan; Moen, Charles; Molenaar, Adrian J.; Moore, Stephen S.; Moore, Richard; More, Daniela D.; Moreno, Barbara T.; Morgan, Margaret B.; Muntean, Carl T.; Muzny, Donna M.; Nandakumar, Hari P.; Nazareth, Lynne V.; Nguyen, Ngoc Bich; Nicholas, Frank W.; Nogueira, Marcelo F. G.; Okwuonu, Geoffrey O.; Olsaker, Ingrid; Pant, Sameer D.; Panzitta, Francesca; Pastor, Rosemeire C. P.; Patel, Bella Mayurkumar; Payne, Gemma M.; Plass, Mireya; Poli, Mario A.; Poslusny, Nathan; Pruitt, Kim; Pu, Ling-Ling; Qin, Xiang; Rachagani, Satyanarayana; Raison, Joy M.; Ranganathan, Shoba; Ratnakumar, Abhirami; Razpet, Andrej; Reecy, James; Reese, Justin T.; Ren, Yanru; Reymond, Alexandre; Riggs, Penny K.; Rijnkels, Monique; Rincon, Gonzalo; Roberts, Andy; Rodriguez-Osorio, Nelida; Rodriguez-Zas, Sandra L.; Romero, Natasha E.; Rosenwald, Anne; Ruiz, San Juana; Sabo, Aniko; Salih, Hanni; Sando, Lillian; Santibanez, Jireh; Sapojnikov, Victor; Schein, Jacqueline E.; Schmutz, Sheila M.; Schnabel, Robert D.; Schook, Lawrence; Searle, Stephen M.; Seo, Seongwon; Shen, Yufeng; Shen, Libing; Sherman, Laura; Skow, Loren C.; Smith, Timothy; Snelling, Warren M.; Sodergren, Erica; Solovyev, Victor; Song, Henry; Song, Jiuzhou; Sonstegard, Tad S.; Southey, Bruce R.; Souvorov, Alexandre; Spurlock, Diane; Steffen, David; Stone, Roger T.; Stothard, Paul; Sugimoto, Yoshikazu; Sweedler, Jonathan V.; Takasuga, Akiko; Tammen, Imke; Taniguchi, Masaaki; Taylor, Jeremy F.; Telugu, Bhanu Prakash V. L.; Ucla, Catherine; Urbanski, Jennifer M.; Utsunomiya, Yuri T.; Van, Curtis P.; Vattathil, Selina; Verschoor, Chris P.; Waardenberg, Ashley J.; Walker, Angela; Wang, Zhiquan; Ward, Robert; Warren, James T.; Waterman, Richard C.; Weikard, Rosemarie; Weinstock, George M.; Welsh Jr., Thomas H.; Wheeler, David A.; Wheeler, Thomas T.; White, Stephen N.; Whiteside, Matthew D.; Wilczek-Boney, Katarzyna; Williams, John L.; Williams Jr., Rex Lee; Wilming, Laurens G.; Womack, James; Wright, Rita A.; Wunderlich, Kris R.; Wyss, Carine; Yang, Mary Q.; Yang, Jianqi; Zdobnov, Evgeny M.; Zhang, Jingkun; Zhao, Feng-Qi; Zhu, Bin; Bovine Genome Sequencing And Analysis Consortium Universidade De São Paulo

SCIENCE, v.324, n.5926, p.522-528, 2009

AMER ASSOC ADVANCEMENT SCIENCE 2009

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TAP: a targeted clinical genomics pipeline for detecting transcript variants using RNA-seq data

Readman Chiu ; Ka Ming Nip ; Justin Chu ; Inanc Birol

BMC Medical Genomics, 01 September 2018, Vol.11(1), pp.1-9 [Periódico revisado por pares]

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Improved white spruce (Picea glauca) genome assemblies and annotation of large gene families of conifer terpenoid and phenolic defense metabolism

Warren, René L. ; Keeling, Christopher I. ; Yuen, Macaire Man Saint ; Raymond, Anthony ; Taylor, Greg A. ; Vandervalk, Benjamin P. ; Mohamadi, Hamid ; Paulino, Daniel ; Chiu, Readman ; Jackman, Shaun D. ; Robertson, Gordon ; Yang, Chen ; Boyle, Brian ; Hoffmann, Margarete ; Weigel, Detlef ; Nelson, David R. ; Ritland, Carol ; Isabel, Nathalie ; Jaquish, Barry ; Yanchuk, Alvin ; Bousquet, Jean ; Jones, Steven J. M. ; Mackay, John ; Birol, Inanc ; Bohlmann, Joerg

Plant Journal, July 2015, Vol.83(2), pp.189-212 [Periódico revisado por pares]

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Frequent mutation of histone-modifying genes in non-Hodgkin lymphoma

Ryan D. Morin ; Maria Mendez-Lago ; Andrew J. Mungall ; Rodrigo Goya ; Karen L. Mungall ; Richard D. Corbett ; Nathalie A. Johnson ; Tesa M. Severson ; Readman Chiu ; Matthew Field ; Shaun Jackman ; Martin Krzywinski ; David W. Scott ; Diane L. Trinh ; Jessica Tamura-Wells ; Sa Li ; Marlo R. Firme ; Sanja Rogic ; Malachi Griffith ; Susanna Chan ; Oleksandr Yakovenko ; Irmtraud M. Meyer ; Eric Y. Zhao ; Duane Smailus ; Michelle Moksa ; Suganthi Chittaranjan ; Lisa Rimsza ; Angela Brooks-Wilson ; John J. Spinelli ; Susana Ben-Neriah ; Barbara Meissner ; Bruce Woolcock ; Merrill Boyle ; Helen Mcdonald ; Angela Tam ; Yongjun Zhao ; Allen Delaney ; Thomas Zeng ; Kane Tse ; Yaron Butterfield ; Inanç Birol ; Rob Holt ; Jacqueline Schein ; Douglas E. Horsman ; Richard Moore ; Steven J. M. Jones ; Joseph M. Connors ; Martin Hirst ; Randy D. Gascoyne ; Marco A. Marra

Nature, 2011, Vol.476(7360), p.298 [Periódico revisado por pares]

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Obligate biotrophy features unraveled by the genomic analysis of rust fungi

Duplessis, Sébastien ; Cuomo, Christina A ; Lin, Yao-Cheng ; Aerts, Andrea ; Tisserant, Emilie ; Veneault-Fourrey, Claire ; Joly, David L ; Hacquard, Stéphane ; Amselem, Joëlle ; Cantarel, Brandi L ; Chiu, Readman ; Coutinho, Pedro M ; Feau, Nicolas ; Field, Matthew ; Frey, Pascal ; Gelhaye, Eric ; Goldberg

Proceedings of the National Academy of Sciences of the United States of America, 31 May 2011, Vol.108(22), pp.9166-71 [Periódico revisado por pares]

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A high-resolution whole-genome cattle-human comparative map reveals details of mammalian chromosome evolution

Everts-Van Der Wind, Annelie ; Larkin, Denis M ; Green, Cheryl A ; Elliott, Janice S ; Olmstead, Colleen A ; Chiu, Readman ; Schein, Jacqueline E ; Marra, Marco A ; Womack, James E ; Lewin, Harris A

Proceedings of the National Academy of Sciences of the United States of America, 20 December 2005, Vol.102(51), pp.18526-31 [Periódico revisado por pares]

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Konnector v2.0: pseudo-long reads from paired-end sequencing data

Vandervalk, Benjamin P ; Yang, Chen ; Xue, Zhuyi ; Raghavan, Karthika ; Chu, Justin ; Mohamadi, Hamid ; Jackman, Shaun D ; Chiu, Readman ; Warren, René L ; Birol, Inanç

BMC medical genomics, 2015, Vol.8 Suppl 3, pp.S1 [Periódico revisado por pares]

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The genetic landscape of high-risk neuroblastoma

Pugh, Trevor J. ; Morozova, Olena ; Attiyeh, Edward F. ; Asgharzadeh, Shahab ; Wei, Jun S. ; Auclair, Daniel ; Carter, Scott L. ; Cibulskis, Kristian ; Hanna, Megan ; Kiezun, Adam ; Kim, Jaegil ; Lawrence, Michael S. ; Lichenstein, Lee ; Mckenna, Aaron ; Pedamallu, Chandra Sekhar ; Ramos, Alex H. ; Shefler, Erica ; Sivachenko, Andrey ; Sougnez, Carrie ; Stewart, Chip ; Ally, Adrian ; Birol, Inanc ; Chiu, Readman ; Corbett, Richard D. ; Hirst, Martin ; Jackman, Shaun D. ; Kamoh, Baljit ; Khodabakshi, Alireza Hadj ; Krzywinski, Martin ; Lo, Allan ; Moore, Richard A. ; Mungall, Karen L. ; Qian, Jenny ; Tam, Angela ; Thiessen, Nina ; Zhao, Yongjun ; Cole, Kristina A. ; Diamond, Maura ; Diskin, Sharon J. ; Mosse, Yael P. ; Wood, Andrew C. ; Ji, Lingyun ; Sposto, Richard ; Badgett, Thomas ; London, Wendy B. ; Moyer, Yvonne ; Gastier-Foster, Julie M. ; Smith, Malcolm A. ; Auvil, Jaime M. Guidry ; Gerhard, Daniela S. ; Hogarty, Michael D. ; Jones, Steven J. M. ; Lander, Eric S. ; Gabriel, Stacey B. ; Getz, Gad ; Seeger, Robert C. ; Khan, Javed ; Marra, Marco A. ; Meyerson, Matthew ; Maris, John M.

Pugh, T. J., O. Morozova, E. F. Attiyeh, S. Asgharzadeh, J. S. Wei, D. Auclair, S. L. Carter, et al. 2013. “The genetic landscape of high-risk neuroblastoma.” Nature genetics 45 (3): 279-284. doi:10.1038/ng.2529. http://dx.doi.org/10.1038/ng.2529. [Periódico revisado por pares]

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Subgroup-specific structural variation across 1,000 medulloblastoma genomes

Paul A. Northcott ; David J. H. Shih ; John Peacock ; Livia Garzia ; A. Sorana Morrissy ; Thomas Zichner ; Adrian M. Stütz ; Andrey Korshunov ; Jüri Reimand ; Steven E. Schumacher ; Rameen Beroukhim ; David W. Ellison ; Christian R. Marshall ; Anath C. Lionel ; Stephen Mack ; Adrian Dubuc ; Yuan Yao ; Vijay Ramaswamy ; Betty Luu ; Adi Rolider ; Florence M. G. Cavalli ; Xin Wang ; Marc Remke ; Xiaochong Wu ; Readman Y. B. Chiu ; Andy Chu ; Eric Chuah ; Richard D. Corbett ; Gemma R. Hoad ; Shaun D. Jackman ; Yisu Li ; Allan Lo ; Karen L. Mungall ; Ka Ming Nip ; Jenny Q. Qian ; Anthony G. J. Raymond ; Nina Thiessen ; Richard J. Varhol ; Inanc Birol ; Richard A. Moore ; Andrew J. Mungall ; Robert Holt ; Daisuke Kawauchi ; Martine F. Roussel ; Marcel Kool ; David T. W. Jones ; Hendrick Witt ; Africa Fernandez-L ; Anna M. Kenney ; Robert J. Wechsler-Reya ; Peter Dirks ; Tzvi Aviv ; Wieslawa A. Grajkowska ; Marta Perek-Polnik ; Christine C. Haberler ; Olivier Delattre ; Stéphanie S. Reynaud ; François F. Doz ; Sarah S. Pernet-Fattet ; Byung-Kyu Cho ; Seung-Ki Kim ; Kyu-Chang Wang ; Wolfram Scheurlen ; Charles G. Eberhart ; Michelle Fèvre-Montange ; Anne Jouvet ; Ian F. Pollack ; Xing Fan ; Karin M. Muraszko ; G. Yancey Gillespie ; Concezio Di Rocco ; Luca Massimi ; Erna M. C. Michiels ; Nanne K. Kloosterhof ; Pim J. French ; Johan M. Kros ; James M. Olson ; Richard G. Ellenbogen ; Karel Zitterbart ; Leos Kren ; Reid C. Thompson ; Michael K. Cooper ; Boleslaw Lach ; Roger E. Mclendon ; Darell D. Bigner ; Adam Fontebasso ; Steffen Albrecht ; Nada Jabado ; Janet C. Lindsey ; Simon Bailey ; Nalin Gupta ; William A. Weiss ; László Bognár ; Almos Klekner ; Timothy E. Van Meter ; Toshihiro Kumabe ; Teiji Tominaga ; Samer K. Elbabaa ; Jeffrey R. Leonard ; Joshua B. Rubin ; Linda M. Liau ; Erwin G. Van Meir ; Maryam Fouladi ; Hideo Nakamura ; Giuseppe Cinalli ; Miklós Garami ; Peter Hauser ; Ali G. Saad ; Achille Iolascon ; Shin Jung ; Carlos G. Carlotti ; Rajeev Vibhakar ; Young Shin Ra ; Shenandoah Robinson ; Massimo Zollo ; Claudia C. Faria ; Jennifer A. Chan ; Michael L. Levy ; Poul H. B. Sorensen ; Matthew Meyerson ; Scott L. Pomeroy ; Yoon-Jae Cho ; Gary D. Bader ; Uri Tabori ; Cynthia E. Hawkins ; Eric Bouffet ; Stephen W. Scherer ; James T. Rutka ; David Malkin ; Steven C. Clifford ; Steven J. M. Jones ; Jan O. Korbel ; Stefan M. Pfister ; Marco A. Marra ; Michael D. Taylor

Nature, 2012, Vol.488(7409), p.49 [Periódico revisado por pares]

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