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TITLE: Transcriptome characterization by RNA sequencing identifies a major molecular and clinical subdivision in chronic lymphocytic leukemia
AUTHORS: Ferreira, PG ; Jares, P; Rico, D; Gómez López, G; Martínez Trillos, A; Villamor, N; Ecker, S; González Pérez, A; Knowles, DG; Monlong, J; Johnson, R; Quesada, V; Djebali, S; Papasaikas, P; López Guerra, M; Colomer, D; Royo, C; Cazorla, M; Pinyol, M; Clot, G; Aymerich, M; Rozman, M; Kulis, M; Tamborero, D; Gouin, A; Blanc, J; Gut, M; Gut, I; Puente, XS; Pisano, DG; Martin Subero, JI; López Bigas, N; López Guillermo, A; Valencia, A; López Otín, C; Campo, E; Guigó, R; ...More
PUBLISHED: 2014, SOURCE: Genome Research, VOLUME: 24, ISSUE: 2
INDEXED IN: Scopus CrossRef: 140
IN MY: ORCID
32
TITLE: CPEB1 coordinates alternative 3 ' -UTR formation with translational regulation  Full Text
AUTHORS: Felice Alessio Bava; Carolina Eliscovich; Pedro G Ferreira ; Belen Minana; Claudia Ben Dov; Roderic Guigo; Juan Valcarcel; Raul Mendez;
PUBLISHED: 2013, SOURCE: NATURE, VOLUME: 495, ISSUE: 7439
INDEXED IN: Scopus WOS CrossRef: 114
33
TITLE: Immune response is a personal matter
AUTHORS: Ferreira, PG ; Dermitzakis, ET;
PUBLISHED: 2013, SOURCE: eLife, VOLUME: 2013, ISSUE: 2
INDEXED IN: Scopus CrossRef: 1
IN MY: ORCID
34
TITLE: Sporadic and reversible chromothripsis in chronic lymphocytic leukemia revealed by longitudinal genomic analysis  Full Text
AUTHORS: Bassaganyas, L; Beà, S; Escaramís, G; Tornador, C; Salaverria, I; Zapata, L; Drechsel, O; Ferreira, PG ; Rodriguez Santiago, B; Tubio, JMC; Navarro, A; Martín García, D; López, C; Martínez Trillos, A; López Guillermo, A; Gut, M; Ossowski, S; López Otín, C; Campo, E; Estivill, X;
PUBLISHED: 2013, SOURCE: Leukemia, VOLUME: 27, ISSUE: 12
INDEXED IN: Scopus CrossRef: 24
IN MY: ORCID
35
TITLE: Transcriptome analyses of primitively eusocial wasps reveal novel insights into the evolution of sociality and the origin of alternative phenotypes
AUTHORS: Pedro G Ferreira ; Solenn Patalano; Ritika Chauhan; Richard Ffrench Constant; Toni Gabaldon; Roderic Guigo; Seirian Sumner;
PUBLISHED: 2013, SOURCE: GENOME BIOLOGY, VOLUME: 14, ISSUE: 2
INDEXED IN: Scopus WOS CrossRef: 114
IN MY: ORCID
36
TITLE: Transcriptome and genome sequencing uncovers functional variation in humans  Full Text
AUTHORS: Tuuli Lappalainen; Michael Sammeth; Marc R Friedländer; Peter A C ‘t Hoen; Jean Monlong; Manuel A Rivas; Mar Gonzàlez-Porta; Natalja Kurbatova; Thasso Griebel; Pedro G Ferreira ; Matthias Barann; Thomas Wieland; Liliana Greger; Maarten van Iterson; Jonas Almlöf; Paolo Ribeca; Irina Pulyakhina; Daniela Esser; Thomas Giger; Andrew Tikhonov; Marc Sultan; Gabrielle Bertier; Daniel G MacArthur; Monkol Lek; Esther Lizano; Henk P J Buermans; Ismael Padioleau; Thomas Schwarzmayr; Olof Karlberg; Halit Ongen; Helena Kilpinen; Sergi Beltran; Marta Gut; Katja Kahlem; Vyacheslav Amstislavskiy; Oliver Stegle; Matti Pirinen; Stephen B Montgomery; Peter Donnelly; Mark I McCarthy; Paul Flicek; Tim M Strom; The Geuvadis Consortium, ; Hans Lehrach; Stefan Schreiber; Ralf Sudbrak; Ángel Carracedo; Stylianos E Antonarakis; Robert Häsler; Ann-Christine Syvänen; Gert-Jan van Ommen; Alvis Brazma; Thomas Meitinger; Philip Rosenstiel; Roderic Guigó; Ivo G Gut; Xavier Estivill; Emmanouil T Dermitzakis; ...More
PUBLISHED: 2013, SOURCE: NATURE, VOLUME: 501, ISSUE: 7468
INDEXED IN: Scopus WOS CrossRef: 1360
37
TITLE: An integrated encyclopedia of DNA elements in the human genome  Full Text
AUTHORS: Ian Dunham; Anshul Kundaje; Shelley F Aldred; Patrick J Collins; CarrieA. Davis; Francis Doyle; Charles B Epstein; Seth Frietze; Jennifer Harrow; Rajinder Kaul; Jainab Khatun; Bryan R Lajoie; Stephen G Landt; Bum Kyu Lee; Florencia Pauli; Kate R Rosenbloom; Peter Sabo; Alexias Safi; Amartya Sanyal; Noam Shoresh; Jeremy M Simon; Lingyun Song; Nathan D Trinklein; Robert C Altshuler; Ewan Birney; James B Brown; Chao Cheng; Sarah Djebali; Xianjun J Dong; Ian Dunham; Jason Ernst; Terrence S Furey; Mark Gerstein; Belinda Giardine; Melissa Greven; Ross C Hardison; Robert S Harris; Javier Herrero; Michael M Hoffman; Sowmya Iyer; Manolis Kellis; Jainab Khatun; Pouya Kheradpour; Anshul Kundaje; Timo Lassmann; Qunhua H Li; Xinying Lin; Georgi K Marinov; Angelika Merkel; Ali Mortazavi; Stephen C J Parker; Timothy E Reddy; Joel Rozowsky; Felix Schlesinger; Robert E Thurman; Jie Wang; Lucas D Ward; Troy W Whitfield; Steven P Wilder; Weisheng Wu; Hualin L S Xi; Kevin Y Yip; Jiali L Zhuang; Bradley E Bernstein; Ewan Birney; Ian Dunham; Eric D Green; Chris Gunter; Michael Snyder; Michael J Pazin; Rebecca F Lowdon; Laura A L Dillon; Leslie B Adams; Caroline J Kelly; Julia Zhang; Judith R Wexler; Eric D Green; Peter J Good; Elise A Feingold; Bradley E Bernstein; Ewan Birney; Gregory E Crawford; Job Dekker; Laura Elnitski; Peggy J Farnham; Mark Gerstein; Morgan C Giddings; Thomas R Gingeras; Eric D Green; Roderic Guigo; Ross C Hardison; Timothy J Hubbard; Manolis Kellis; James J Kent; Jason D Lieb; Elliott H Margulies; Richard M Myers; Michael Snyder; John A Stamatoyannopoulos; Scott A Tenenbaum; Zhiping P Weng; Kevin P White; Barbara Wold; Jainab Khatun; Yanbao Yu; John Wrobel; Brian A Risk; Harsha P Gunawardena; Heather C Kuiper; Christopher W Maier; Ling Xie; Xian Chen; Morgan C Giddings; Bradley E Bernstein; Charles B Epstein; Noam Shoresh; Jason Ernst; Pouya Kheradpour; Tarjei S Mikkelsen; Shawn Gillespie; Alon Goren; Oren Ram; Xiaolan L Zhang; Li Wang; Robbyn Issner; Michael J Coyne; Timothy Durham; Manching Ku; Thanh Truong; Lucas D Ward; Robert C Altshuler; Matthew L Eaton; Manolis Kellis; Sarah Djebali; Carrie A Davis; Angelika Merkel; Alex Dobin; Timo Lassmann; Ali Mortazavi; Andrea Tanzer; Julien Lagarde; Wei Lin; Felix Schlesinger; Chenghai H Xue; Georgi K Marinov; Jainab Khatun; Brian A Williams; Chris Zaleski; Joel Rozowsky; Maik Roeder; Felix Kokocinski; Rehab F Abdelhamid; Tyler Alioto; Igor Antoshechkin; Michael T Baer; Philippe Batut; Ian Bell; Kimberly Bell; Sudipto Chakrabortty; Xian Chen; Jacqueline Chrast; Joao Curado; Thomas Derrien; Jorg Drenkow; Erica Dumais; Jackie Dumais; Radha Duttagupta; Megan Fastuca; Kata Fejes Toth; Pedro Ferreira ; Sylvain Foissac; Melissa J Fullwood; Hui Gao; David Gonzalez; Assaf Gordon; Harsha P Gunawardena; Cedric Howald; Sonali Jha; Rory Johnson; Philipp Kapranov; Brandon King; Colin Kingswood; Guoliang L Li; Oscar J Luo; Eddie Park; Jonathan B Preall; Kimberly Presaud; Paolo Ribeca; Brian A Risk; Daniel Robyr; Xiaoan A Ruan; Michael Sammeth; Kuljeet Singh Sandhu; Lorain Schaeffer; Lei Hoon See; Atif Shahab; Jorgen Skancke; Ana Maria Suzuki; Hazuki Takahashi; Hagen Tilgner; Diane Trout; Nathalie Walters; Huaien E Wang; John Wrobel; Yanbao B Yu; Yoshihide Hayashizaki; Jennifer Harrow; Mark Gerstein; Timothy J Hubbard; Alexandre Reymond; Stylianos E Antonarakis; Gregory J Hannon; Morgan C Giddings; Yijun J Ruan; Barbara Wold; Piero Carninci; Roderic Guigo; Thomas R Gingeras; Kate R Rosenbloom; Cricket A Sloan; Katrina Learned; Venkat S Malladi; Matthew C Wong; Galtp. Barber; Melissa S Cline; Timothy R Dreszer; Steven G Heitner; Donna Karolchik; James J Kent; Vanessa M Kirkup; Laurence R Meyer; Jeffrey C Long; Morgan Maddren; Brian J Raney; Terrence S Furey; Lingyun Y Song; Linda L Grasfeder; Paul G Giresi; Bum Kyu Lee; Anna Battenhouse; Nathan C Sheffield; Jeremy M Simon; Kimberly A Showers; Alexias Safi; Darin London; Akshay A Bhinge; Christopher Shestak; Matthew R Schaner; Seul Ki Kim; Zhuzhu Z Z Zhang; Piotr A Mieczkowski; Joanna O Mieczkowska; Zheng Liu; Ryan M McDaniell; Yunyun Y Ni; Naim U Rashid; Min Jae Kim; Sheera Adar; Zhancheng C Zhang; Tianyuan Y Wang; Deborah Winter; Damian Keefe; Ewan Birney; Vishwanath R Iyer; Jason D Lieb; Gregory E Crawford; Guoliang L Li; Kuljeet Singh Sandhu; Meizhen Z Zheng; Ping Wang; Oscar J Luo; Atif Shahab; Melissa J Fullwood; Xiaoan A Ruan; Yijun J Ruan; Richard M Myers; Florencia Pauli; Brian A Williams; Jason Gertz; Georgi K Marinov; Timothy E Reddy; Jost Vielmetter; Christopher C Partridge; Diane Trout; Katherine E Varley; Clarke Gasper; Anita Bansal; Shirley Pepke; Preti Jain; Henry Amrhein; Kevin M Bowling; Michael Anaya; Marie K Cross; Brandon King; Michael A Muratet; Igor Antoshechkin; Kimberly M Newberry; Kenneth Mccue; Amy S Nesmith; Katherine I Fisher Aylor; Barbara Pusey; Gilberto DeSalvo; Stephanie L Parker; Sreeram Balasubramanian; Nicholas S Davis; Sarah K Meadows; Tracy Eggleston; Chris Gunter; Scott S Newberry; Shawn E Levy; Devin M Absher; Ali Mortazavi; Wing H Wong; Barbara Wold; Matthew J Blow; Axel Visel; Len A Pennachio; Laura Elnitski; Elliott H Margulies; Stephen C J Parker; Hanna M Petrykowska; Alexej Abyzov; Bronwen Aken; Daniel Barrell; Gemma Barson; Andrew Berry; Alexandra Bignell; Veronika Boychenko; Giovanni Bussotti; Jacqueline Chrast; Claire Davidson; Thomas Derrien; Gloria Despacio Reyes; Mark Diekhans; Iakes Ezkurdia; Adam Frankish; James Gilbert; Jose Manuel Gonzalez; Ed Griffiths; Rachel Harte; David A Hendrix; Cedric Howald; Toby Hunt; Irwin Jungreis; Mike Kay; Ekta Khurana; Felix Kokocinski; Jing Leng; Michael F Lin; Jane Loveland; Zhi Lu; Deepa Manthravadi; Marco Mariotti; Jonathan Mudge; Gaurab Mukherjee; Cedric Notredame; Baikang K Pei; Jose Manuel Rodriguez; Gary Saunders; Andrea Sboner; Stephen Searle; Cristina Sisu; Catherine Snow; Charlie Steward; Andrea Tanzer; Electra Tapanari; Michael L Tress; Marijke J van Baren; Nathalie Walters; Stefan Washietl; Laurens Wilming; Amonida Zadissa; Zhengdong D Zhang; Michael Brent; David Haussler; Manolis Kellis; Alfonso Valencia; Mark Gerstein; Alexandre Reymond; Roderic Guigo; Jennifer Harrow; Timothy J Hubbard; Stephen G Landt; Seth Frietze; Alexej Abyzov; Nick Addleman; Roger P Alexander; Raymond K Auerbach; Suganthi Balasubramanian; Keith Bettinger; Nitin Bhardwaj; Alan P Boyle; Alina R Cao; Philip Cayting; Alexandra Charos; Yong Cheng; Chao Cheng; Catharine Eastman; Ghia Euskirchen; Joseph D Fleming; Fabian Grubert; Lukas Habegger; Manoj Hariharan; Arif Harmanci; Sushma Iyengar; Victor X Jin; Konrad J Karczewski; Maya Kasowski; Phil Lacroute; Hugo Lam; Nathan Lamarre Vincent; Jing Leng; Jin Lian; Marianne Lindahl Allen; Renqiang Q Min; Benoit Miotto; Hannah Monahan; Zarmik Moqtaderi; Xinmeng M J Mu; Henriette O'Geen; Zhengqing Q Ouyang; Dorrelyn Patacsil; Baikang K Pei; Debasish Raha; Lucia Ramirez; Brian Reed; Joel Rozowsky; Andrea Sboner; Minyi Y Shi; Cristina Sisu; Teri Slifer; Heather Witt; Linfeng F Wu; Xiaoqin Q Xu; Koon Kiu Yan; Xinqiong Q Yang; Kevin Y Yip; Zhengdong D Zhang; Kevin Struhl; Sherman M Weissman; Mark Gerstein; Peggy J Farnham; Michael Snyder; Scott A Tenenbaum; Luiz O Penalva; Francis Doyle; Subhradip Karmakar; Stephen G Landt; Raj R Bhanvadia; Alina Choudhury; Marc Domanus; Lijia J Ma; Jennifer Moran; Dorrelyn Patacsil; Teri Slifer; Alec Victorsen; Xinqiong Q Yang; Michael Snyder; Kevin P White; Thomas Auer; Lazaro Centanin; Michael Eichenlaub; Franziska Gruhl; Stephan Heermann; Burkhard Hoeckendorf; Daigo Inoue; Tanja Kellner; Stephan Kirchmaier; Claudia Mueller; Robert Reinhardt; Lea Schertel; Stephanie Schneider; Rebecca Sinn; Beate Wittbrodt; Jochen Wittbrodt; Zhiping P Weng; Troy W Whitfield; Jie Wang; Patrick J Collins; Shelley F Aldred; Nathan D Trinklein; Christopher C Partridge; Richard M Myers; Job Dekker; Gaurav Jain; Bryan R Lajoie; Amartya Sanyal; Gayathri Balasundaram; Daniel L Bates; Rachel Byron; Theresa K Canfield; Morgan J Diegel; Douglas Dunn; Abigail K Ebersol; Tristan Frum; Kavita Garg; Erica Gist; Scott S Hansen; Lisa Boatman; Eric Haugen; Richard Humbert; Gaurav Jain; Audra K Johnson; Ericka M Johnson; Tattyana V Kutyavin; Bryan R Lajoie; Kristen Lee; Dimitra Lotakis; Matthew T Maurano; Shane J Neph; Fiedencio V Neri; Eric D Nguyen; Hongzhu Z Qu; Alex P Reynolds; Vaughn Roach; Eric Rynes; Peter Sabo; Minerva E Sanchez; Richard S Sandstrom; Amartya Sanyal; Anthony O Shafer; Andrew B Stergachis; Sean Thomas; Robert E Thurman; Benjamin Vernot; Jeff Vierstra; Shinny Vong; Hao Wang; Molly A Weaver; Yongqi Q Yan; Miaohua H Zhang; Joshua M Akey; Michael Bender; Michael O Dorschner; Mark Groudine; Michael J MacCoss; Patrick Navas; George Stamatoyannopoulos; Rajinder Kaul; Job Dekker; John A Stamatoyannopoulos; Ian Dunham; Kathryn Beal; Alvis Brazma; Paul Flicek; Javier Herrero; Nathan Johnson; Damian Keefe; Margus Lukk; Nicholas M Luscombe; Daniel Sobral; Juan M Vaquerizas; Steven P Wilder; Serafim Batzoglou; Arend Sidow; Nadine Hussami; Sofia Kyriazopoulou Panagiotopoulou; Max W Libbrecht; Marc A Schaub; Anshul Kundaje; Ross C Hardison; Webb Miller; Belinda Giardine; Robert S Harris; Weisheng Wu; Peter J Bickel; Balazs Banfai; Nathan P Boley; James B Brown; Haiyan Y Huang; Qunhua H Li; Jingyi Jessica Li; William Stafford Noble; Jeffrey A Bilmes; Orion J Buske; Michael M Hoffman; Avinash D Sahu; Peter V Kharchenko; Peter J Park; Dannon Baker; James Taylor; Zhiping P Weng; Sowmya Iyer; Xianjun J Dong; Melissa Greven; Xinying Y Lin; Jie Wang; Hualin L S Xi; Jiali L Zhuang; Mark Gerstein; Roger P Alexander; Suganthi Balasubramanian; Chao Cheng; Arif Harmanci; Lucas Lochovsky; Renqiang Min; Xinmeng M J Mu; Joel Rozowsky; Koon Kiu Yan; Kevin Y Yip; Ewan Birney; ...More
PUBLISHED: 2012, SOURCE: NATURE, VOLUME: 489, ISSUE: 7414
INDEXED IN: Scopus WOS CrossRef: 11668
38
TITLE: Detecting abnormal patterns in call graphs based on the aggregation of relevant vertex measures
AUTHORS: Alves, R; Ferreira, P ; Ribeiro, J ; Belo, O ;
PUBLISHED: 2012, SOURCE: 12th Industrial Conference on Advances in Data Mining, ICDM 2012 in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), VOLUME: 7377 LNAI
INDEXED IN: Scopus DBLP CrossRef
IN MY: ORCID
39
TITLE: Landscape of transcription in human cells  Full Text
AUTHORS: Sarah Djebali; Carrie A Davis; Angelika Merkel; Alex Dobin; Timo Lassmann; Ali Mortazavi; Andrea Tanzer; Julien Lagarde; Wei Lin; Felix Schlesinger; Chenghai H Xue; Georgi K Marinov; Jainab Khatun; Brian A Williams; Chris Zaleski; Joel Rozowsky; Maik Roeder; Felix Kokocinski; Rehab F Abdelhamid; Tyler Alioto; Igor Antoshechkin; Michael T Baer; Nadav S Bar; Philippe Batut; Kimberly Bell; Ian Bell; Sudipto Chakrabortty; Xian Chen; Jacqueline Chrast; Joao Curado; Thomas Derrien; Jorg Drenkow; Erica Dumais; Jacqueline Dumais; Radha Duttagupta; Emilie Falconnet; Meagan Fastuca; Kata Fejes Toth; Pedro Ferreira ; Sylvain Foissac; Melissa J Fullwood; Hui Gao; David Gonzalez; Assaf Gordon; Harsha Gunawardena; Cedric Howald; Sonali Jha; Rory Johnson; Philipp Kapranov; Brandon King; Colin Kingswood; Oscar J Luo; Eddie Park; Kimberly Persaud; Jonathan B Preall; Paolo Ribeca; Brian Risk; Daniel Robyr; Michael Sammeth; Lorian Schaffer; Lei Hoon See; Atif Shahab; Jorgen Skancke; Ana Maria Suzuki; Hazuki Takahashi; Hagen Tilgner; Diane Trout; Nathalie Walters; Huaien Wang; John Wrobel; Yanbao B Yu; Xiaoan A Ruan; Yoshihide Hayashizaki; Jennifer Harrow; Mark Gerstein; Tim Hubbard; Alexandre Reymond; Stylianos E Antonarakis; Gregory Hannon; Morgan C Giddings; Yijun J Ruan; Barbara Wold; Piero Carninci; Roderic Guigo; Thomas R Gingeras; ...More
PUBLISHED: 2012, SOURCE: NATURE, VOLUME: 489, ISSUE: 7414
INDEXED IN: Scopus WOS CrossRef: 3332
40
TITLE: RNA secondary structure mediates alternative 3 ' ss selection in Saccharomyces cerevisiae
AUTHORS: Mireya Plass; Carles Codony Servat; Pedro G Gabriel Ferreira ; Josep Vilardell; Eduardo Eyras;
PUBLISHED: 2012, SOURCE: RNA-A PUBLICATION OF THE RNA SOCIETY, VOLUME: 18, ISSUE: 6
INDEXED IN: Scopus WOS CrossRef: 31
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