Literature DB >> 22911550

Next-generation sequencing reveals the secrets of the chronic lymphocytic leukemia genome.

Andrew J Ramsay1, Alejandra Martínez-Trillos, Pedro Jares, David Rodríguez, Agnieszka Kwarciak, Víctor Quesada.   

Abstract

The study of the detailed molecular history of cancer development is one of the most promising techniques to understand and fight this diverse and prevalent disease. Unfortunately, this history is as diverse as cancer itself. Therefore, even with next-generation sequencing techniques, it is not easy to distinguish significant (driver) from random (passenger) events. The International Cancer Genome Consortium (ICGC) was formed to solve this fundamental issue by coordinating the sequencing of samples from 50 different cancer types and/or sub-types that are of clinical and societal importance. The contribution of Spain in this consortium has been focused on chronic lymphocytic leukemia (CLL). This approach has unveiled new and unexpected events in the development of CLL. In this review, we introduce the approaches utilized by the consortium for the study of the CLL genome and discuss the recent results and future perspectives of this work.

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Year:  2012        PMID: 22911550     DOI: 10.1007/s12094-012-0922-z

Source DB:  PubMed          Journal:  Clin Transl Oncol        ISSN: 1699-048X            Impact factor:   3.405


  66 in total

1.  Oncogenically active MYD88 mutations in human lymphoma.

Authors:  Vu N Ngo; Ryan M Young; Roland Schmitz; Sameer Jhavar; Wenming Xiao; Kian-Huat Lim; Holger Kohlhammer; Weihong Xu; Yandan Yang; Hong Zhao; Arthur L Shaffer; Paul Romesser; George Wright; John Powell; Andreas Rosenwald; Hans Konrad Muller-Hermelink; German Ott; Randy D Gascoyne; Joseph M Connors; Lisa M Rimsza; Elias Campo; Elaine S Jaffe; Jan Delabie; Erlend B Smeland; Richard I Fisher; Rita M Braziel; Raymond R Tubbs; J R Cook; Denny D Weisenburger; Wing C Chan; Louis M Staudt
Journal:  Nature       Date:  2010-12-22       Impact factor: 49.962

2.  Whole-genome sequencing identifies recurrent mutations in chronic lymphocytic leukaemia.

Authors:  Xose S Puente; Magda Pinyol; Víctor Quesada; Laura Conde; Gonzalo R Ordóñez; Neus Villamor; Georgia Escaramis; Pedro Jares; Sílvia Beà; Marcos González-Díaz; Laia Bassaganyas; Tycho Baumann; Manel Juan; Mónica López-Guerra; Dolors Colomer; José M C Tubío; Cristina López; Alba Navarro; Cristian Tornador; Marta Aymerich; María Rozman; Jesús M Hernández; Diana A Puente; José M P Freije; Gloria Velasco; Ana Gutiérrez-Fernández; Dolors Costa; Anna Carrió; Sara Guijarro; Anna Enjuanes; Lluís Hernández; Jordi Yagüe; Pilar Nicolás; Carlos M Romeo-Casabona; Heinz Himmelbauer; Ester Castillo; Juliane C Dohm; Silvia de Sanjosé; Miguel A Piris; Enrique de Alava; Jesús San Miguel; Romina Royo; Josep L Gelpí; David Torrents; Modesto Orozco; David G Pisano; Alfonso Valencia; Roderic Guigó; Mónica Bayés; Simon Heath; Marta Gut; Peter Klatt; John Marshall; Keiran Raine; Lucy A Stebbings; P Andrew Futreal; Michael R Stratton; Peter J Campbell; Ivo Gut; Armando López-Guillermo; Xavier Estivill; Emili Montserrat; Carlos López-Otín; Elías Campo
Journal:  Nature       Date:  2011-06-05       Impact factor: 49.962

3.  Reduced fidelity of branch point recognition and alternative splicing induced by the anti-tumor drug spliceostatin A.

Authors:  Anna Corrionero; Belén Miñana; Juan Valcárcel
Journal:  Genes Dev       Date:  2011-03-01       Impact factor: 11.361

4.  FGFR1 is fused with a novel zinc-finger gene, ZNF198, in the t(8;13) leukaemia/lymphoma syndrome.

Authors:  S Xiao; S R Nalabolu; J C Aster; J Ma; L Abruzzo; E S Jaffe; R Stone; S M Weissman; T J Hudson; J A Fletcher
Journal:  Nat Genet       Date:  1998-01       Impact factor: 38.330

5.  A comprehensive catalogue of somatic mutations from a human cancer genome.

Authors:  Erin D Pleasance; R Keira Cheetham; Philip J Stephens; David J McBride; Sean J Humphray; Chris D Greenman; Ignacio Varela; Meng-Lay Lin; Gonzalo R Ordóñez; Graham R Bignell; Kai Ye; Julie Alipaz; Markus J Bauer; David Beare; Adam Butler; Richard J Carter; Lina Chen; Anthony J Cox; Sarah Edkins; Paula I Kokko-Gonzales; Niall A Gormley; Russell J Grocock; Christian D Haudenschild; Matthew M Hims; Terena James; Mingming Jia; Zoya Kingsbury; Catherine Leroy; John Marshall; Andrew Menzies; Laura J Mudie; Zemin Ning; Tom Royce; Ole B Schulz-Trieglaff; Anastassia Spiridou; Lucy A Stebbings; Lukasz Szajkowski; Jon Teague; David Williamson; Lynda Chin; Mark T Ross; Peter J Campbell; David R Bentley; P Andrew Futreal; Michael R Stratton
Journal:  Nature       Date:  2009-12-16       Impact factor: 49.962

Review 6.  From pathogenesis to treatment of chronic lymphocytic leukaemia.

Authors:  Thorsten Zenz; Daniel Mertens; Ralf Küppers; Hartmut Döhner; Stephan Stilgenbauer
Journal:  Nat Rev Cancer       Date:  2009-12-03       Impact factor: 60.716

7.  The DLEU2/miR-15a/16-1 cluster controls B cell proliferation and its deletion leads to chronic lymphocytic leukemia.

Authors:  Ulf Klein; Marie Lia; Marta Crespo; Rachael Siegel; Qiong Shen; Tongwei Mo; Alberto Ambesi-Impiombato; Andrea Califano; Anna Migliazza; Govind Bhagat; Riccardo Dalla-Favera
Journal:  Cancer Cell       Date:  2010-01-07       Impact factor: 31.743

Review 8.  The cancer genome.

Authors:  Michael R Stratton; Peter J Campbell; P Andrew Futreal
Journal:  Nature       Date:  2009-04-09       Impact factor: 49.962

9.  The genomic complexity of primary human prostate cancer.

Authors:  Michael F Berger; Michael S Lawrence; Francesca Demichelis; Yotam Drier; Kristian Cibulskis; Andrey Y Sivachenko; Andrea Sboner; Raquel Esgueva; Dorothee Pflueger; Carrie Sougnez; Robert Onofrio; Scott L Carter; Kyung Park; Lukas Habegger; Lauren Ambrogio; Timothy Fennell; Melissa Parkin; Gordon Saksena; Douglas Voet; Alex H Ramos; Trevor J Pugh; Jane Wilkinson; Sheila Fisher; Wendy Winckler; Scott Mahan; Kristin Ardlie; Jennifer Baldwin; Jonathan W Simons; Naoki Kitabayashi; Theresa Y MacDonald; Philip W Kantoff; Lynda Chin; Stacey B Gabriel; Mark B Gerstein; Todd R Golub; Matthew Meyerson; Ashutosh Tewari; Eric S Lander; Gad Getz; Mark A Rubin; Levi A Garraway
Journal:  Nature       Date:  2011-02-10       Impact factor: 49.962

10.  Role of chromodomain helicase DNA-binding protein 2 in DNA damage response signaling and tumorigenesis.

Authors:  P Nagarajan; T M Onami; S Rajagopalan; S Kania; R Donnell; S Venkatachalam
Journal:  Oncogene       Date:  2009-01-12       Impact factor: 9.867

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  15 in total

1.  Next-generation sequencing-based multigene mutational screening for acute myeloid leukemia using MiSeq: applicability for diagnostics and disease monitoring.

Authors:  Rajyalakshmi Luthra; Keyur P Patel; Neelima G Reddy; Varan Haghshenas; Mark J Routbort; Michael A Harmon; Bedia A Barkoh; Rashmi Kanagal-Shamanna; Farhad Ravandi; Jorge E Cortes; Hagop M Kantarjian; L Jeffrey Medeiros; Rajesh R Singh
Journal:  Haematologica       Date:  2013-10-18       Impact factor: 9.941

Review 2.  Molecular pathogenesis of CLL and its evolution.

Authors:  David Rodríguez; Gabriel Bretones; Javier R Arango; Víctor Valdespino; Elías Campo; Víctor Quesada; Carlos López-Otín
Journal:  Int J Hematol       Date:  2015-01-29       Impact factor: 2.490

3.  Genomic characterization of HIV-associated plasmablastic lymphoma identifies pervasive mutations in the JAK-STAT pathway.

Authors:  Laura Pasqualucci; Raul Rabadan; Pascale Willem; Zhaoqi Liu; Ioan Filip; Karen Gomez; Dewaldt Engelbrecht; Shabnum Meer; Pooja N Lalloo; Pareen Patel; Yvonne Perner; Junfei Zhao; Jiguang Wang
Journal:  Blood Cancer Discov       Date:  2020-07

Review 4.  The genomic landscape of chronic lymphocytic leukemia: clinical implications.

Authors:  Víctor Quesada; Andrew J Ramsay; David Rodríguez; Xose S Puente; Elías Campo; Carlos López-Otín
Journal:  BMC Med       Date:  2013-05-09       Impact factor: 8.775

5.  Expression of COBLL1 encoding novel ROR1 binding partner is robust predictor of survival in chronic lymphocytic leukemia.

Authors:  Hana Plešingerová; Pavlína Janovská; Archana Mishra; Lucie Smyčková; Lucie Poppová; Antonín Libra; Karla Plevová; Petra Ovesná; Lenka Radová; Michael Doubek; Šárka Pavlová; Šárka Pospíšilová; Vítězslav Bryja
Journal:  Haematologica       Date:  2017-11-09       Impact factor: 9.941

6.  The Transcriptional Landscape of p53 Signalling Pathway.

Authors:  Chizu Tanikawa; Yao-Zhong Zhang; Ryuta Yamamoto; Yusuke Tsuda; Masami Tanaka; Yuki Funauchi; Jinichi Mori; Seiya Imoto; Rui Yamaguchi; Yusuke Nakamura; Satoru Miyano; Hidewaki Nakagawa; Koichi Matsuda
Journal:  EBioMedicine       Date:  2017-05-18       Impact factor: 8.143

7.  Functional genomics analyses of RNA-binding proteins reveal the splicing regulator SNRPB as an oncogenic candidate in glioblastoma.

Authors:  Bruna R Correa; Patricia Rosa de Araujo; Mei Qiao; Suzanne C Burns; Chen Chen; Richard Schlegel; Seema Agarwal; Pedro A F Galante; Luiz O F Penalva
Journal:  Genome Biol       Date:  2016-06-10       Impact factor: 13.583

8.  SYK expression level distinguishes control from BRCA1-mutated lymphocytes.

Authors:  Tamar Zahavi; Amir Sonnenblick; Asher Y Salmon; Mali Salmon-Divon; Yael Shimshon; Luna Kadouri; Tamar Peretz
Journal:  Cancer Manag Res       Date:  2018-03-26       Impact factor: 3.989

9.  Evaluating the Genetics of Common Variable Immunodeficiency: Monogenetic Model and Beyond.

Authors:  Guillem de Valles-Ibáñez; Ana Esteve-Solé; Mònica Piquer; E Azucena González-Navarro; Jessica Hernandez-Rodriguez; Hafid Laayouni; Eva González-Roca; Ana María Plaza-Martin; Ángela Deyà-Martínez; Andrea Martín-Nalda; Mónica Martínez-Gallo; Marina García-Prat; Lucía Del Pino-Molina; Ivón Cuscó; Marta Codina-Solà; Laura Batlle-Masó; Manuel Solís-Moruno; Tomàs Marquès-Bonet; Elena Bosch; Eduardo López-Granados; Juan Ignacio Aróstegui; Pere Soler-Palacín; Roger Colobran; Jordi Yagüe; Laia Alsina; Manel Juan; Ferran Casals
Journal:  Front Immunol       Date:  2018-05-14       Impact factor: 7.561

10.  Multivariate transcriptome analysis identifies networks and key drivers of chronic lymphocytic leukemia relapse risk and patient survival.

Authors:  Ti'ara L Griffen; Eric B Dammer; Courtney D Dill; Kaylin M Carey; Corey D Young; Sha'Kayla K Nunez; Adaugo Q Ohandjo; Steven M Kornblau; James W Lillard
Journal:  BMC Med Genomics       Date:  2021-06-29       Impact factor: 3.063

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