Literature DB >> 27905416

Safikhani et al. reply.

Zhaleh Safikhani1,2, Nehme El-Hachem3, Petr Smirnov1, Mark Freeman1, Anna Goldenberg4,5, Nicolai J Birkbak6,7, Andrew H Beck8,9, Hugo J W L Aerts9,10,11, John Quackenbush10,12, Benjamin Haibe-Kains1,2,5,13.   

Abstract

Year:  2016        PMID: 27905416     DOI: 10.1038/nature20172

Source DB:  PubMed          Journal:  Nature        ISSN: 0028-0836            Impact factor:   49.962


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  10 in total

1.  Consistency in drug response profiling.

Authors:  John Patrick Mpindi; Bhagwan Yadav; Päivi Östling; Prson Gautam; Disha Malani; Astrid Murumägi; Akira Hirasawa; Sara Kangaspeska; Krister Wennerberg; Olli Kallioniemi; Tero Aittokallio
Journal:  Nature       Date:  2016-11-30       Impact factor: 49.962

2.  Reproducible pharmacogenomic profiling of cancer cell line panels.

Authors:  Peter M Haverty; Eva Lin; Jenille Tan; Yihong Yu; Billy Lam; Steve Lianoglou; Richard M Neve; Scott Martin; Jeff Settleman; Robert L Yauch; Richard Bourgon
Journal:  Nature       Date:  2016-05-19       Impact factor: 49.962

3.  PharmacoGx: an R package for analysis of large pharmacogenomic datasets.

Authors:  Petr Smirnov; Zhaleh Safikhani; Nehme El-Hachem; Dong Wang; Adrian She; Catharina Olsen; Mark Freeman; Heather Selby; Deena M A Gendoo; Patrick Grossmann; Andrew H Beck; Hugo J W L Aerts; Mathieu Lupien; Anna Goldenberg; Benjamin Haibe-Kains
Journal:  Bioinformatics       Date:  2015-12-09       Impact factor: 6.937

4.  Individualized systems medicine strategy to tailor treatments for patients with chemorefractory acute myeloid leukemia.

Authors:  Tea Pemovska; Mika Kontro; Bhagwan Yadav; Henrik Edgren; Samuli Eldfors; Agnieszka Szwajda; Henrikki Almusa; Maxim M Bespalov; Pekka Ellonen; Erkki Elonen; Bjørn T Gjertsen; Riikka Karjalainen; Evgeny Kulesskiy; Sonja Lagström; Anna Lehto; Maija Lepistö; Tuija Lundán; Muntasir Mamun Majumder; Jesus M Lopez Marti; Pirkko Mattila; Astrid Murumägi; Satu Mustjoki; Aino Palva; Alun Parsons; Tero Pirttinen; Maria E Rämet; Minna Suvela; Laura Turunen; Imre Västrik; Maija Wolf; Jonathan Knowles; Tero Aittokallio; Caroline A Heckman; Kimmo Porkka; Olli Kallioniemi; Krister Wennerberg
Journal:  Cancer Discov       Date:  2013-09-20       Impact factor: 39.397

5.  Drug response consistency in CCLE and CGP.

Authors:  Mehdi Bouhaddou; Matthew S DiStefano; Eric A Riesel; Emilce Carrasco; Hadassa Y Holzapfel; DeAnalisa C Jones; Gregory R Smith; Alan D Stern; Sulaiman S Somani; T Victoria Thompson; Marc R Birtwistle
Journal:  Nature       Date:  2016-11-30       Impact factor: 49.962

6.  Inconsistency in large pharmacogenomic studies.

Authors:  Benjamin Haibe-Kains; Nehme El-Hachem; Nicolai Juul Birkbak; Andrew C Jin; Andrew H Beck; Hugo J W L Aerts; John Quackenbush
Journal:  Nature       Date:  2013-11-27       Impact factor: 49.962

7.  The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity.

Authors:  Jordi Barretina; Giordano Caponigro; Nicolas Stransky; Kavitha Venkatesan; Adam A Margolin; Sungjoon Kim; Christopher J Wilson; Joseph Lehár; Gregory V Kryukov; Dmitriy Sonkin; Anupama Reddy; Manway Liu; Lauren Murray; Michael F Berger; John E Monahan; Paula Morais; Jodi Meltzer; Adam Korejwa; Judit Jané-Valbuena; Felipa A Mapa; Joseph Thibault; Eva Bric-Furlong; Pichai Raman; Aaron Shipway; Ingo H Engels; Jill Cheng; Guoying K Yu; Jianjun Yu; Peter Aspesi; Melanie de Silva; Kalpana Jagtap; Michael D Jones; Li Wang; Charles Hatton; Emanuele Palescandolo; Supriya Gupta; Scott Mahan; Carrie Sougnez; Robert C Onofrio; Ted Liefeld; Laura MacConaill; Wendy Winckler; Michael Reich; Nanxin Li; Jill P Mesirov; Stacey B Gabriel; Gad Getz; Kristin Ardlie; Vivien Chan; Vic E Myer; Barbara L Weber; Jeff Porter; Markus Warmuth; Peter Finan; Jennifer L Harris; Matthew Meyerson; Todd R Golub; Michael P Morrissey; William R Sellers; Robert Schlegel; Levi A Garraway
Journal:  Nature       Date:  2012-03-28       Impact factor: 49.962

8.  Systematic identification of genomic markers of drug sensitivity in cancer cells.

Authors:  Mathew J Garnett; Elena J Edelman; Sonja J Heidorn; Chris D Greenman; Anahita Dastur; King Wai Lau; Patricia Greninger; I Richard Thompson; Xi Luo; Jorge Soares; Qingsong Liu; Francesco Iorio; Didier Surdez; Li Chen; Randy J Milano; Graham R Bignell; Ah T Tam; Helen Davies; Jesse A Stevenson; Syd Barthorpe; Stephen R Lutz; Fiona Kogera; Karl Lawrence; Anne McLaren-Douglas; Xeni Mitropoulos; Tatiana Mironenko; Helen Thi; Laura Richardson; Wenjun Zhou; Frances Jewitt; Tinghu Zhang; Patrick O'Brien; Jessica L Boisvert; Stacey Price; Wooyoung Hur; Wanjuan Yang; Xianming Deng; Adam Butler; Hwan Geun Choi; Jae Won Chang; Jose Baselga; Ivan Stamenkovic; Jeffrey A Engelman; Sreenath V Sharma; Olivier Delattre; Julio Saez-Rodriguez; Nathanael S Gray; Jeffrey Settleman; P Andrew Futreal; Daniel A Haber; Michael R Stratton; Sridhar Ramaswamy; Ultan McDermott; Cyril H Benes
Journal:  Nature       Date:  2012-03-28       Impact factor: 49.962

9.  Ten simple rules for reproducible computational research.

Authors:  Geir Kjetil Sandve; Anton Nekrutenko; James Taylor; Eivind Hovig
Journal:  PLoS Comput Biol       Date:  2013-10-24       Impact factor: 4.475

10.  Integrating heterogeneous drug sensitivity data from cancer pharmacogenomic studies.

Authors:  Nikita Pozdeyev; Minjae Yoo; Ryan Mackie; Rebecca E Schweppe; Aik Choon Tan; Bryan R Haugen
Journal:  Oncotarget       Date:  2016-08-09
  10 in total
  4 in total

1.  Evaluating the consistency of large-scale pharmacogenomic studies.

Authors:  Raziur Rahman; Saugato Rahman Dhruba; Kevin Matlock; Carlos De-Niz; Souparno Ghosh; Ranadip Pal
Journal:  Brief Bioinform       Date:  2019-09-27       Impact factor: 11.622

2.  Understanding of researcher behavior is required to improve data reliability.

Authors:  Mark N Wass; Larry Ray; Martin Michaelis
Journal:  Gigascience       Date:  2019-05-01       Impact factor: 6.524

Review 3.  How to find the right drug for each patient? Advances and challenges in pharmacogenomics.

Authors:  Angeliki Kalamara; Luis Tobalina; Julio Saez-Rodriguez
Journal:  Curr Opin Syst Biol       Date:  2018-08

4.  Bayesian multi-source regression and monocyte-associated gene expression predict BCL-2 inhibitor resistance in acute myeloid leukemia.

Authors:  Brian S White; Suleiman A Khan; Mike J Mason; Muhammad Ammad-Ud-Din; Swapnil Potdar; Disha Malani; Heikki Kuusanmäki; Brian J Druker; Caroline Heckman; Olli Kallioniemi; Stephen E Kurtz; Kimmo Porkka; Cristina E Tognon; Jeffrey W Tyner; Tero Aittokallio; Krister Wennerberg; Justin Guinney
Journal:  NPJ Precis Oncol       Date:  2021-07-23
  4 in total

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