Literature DB >> 28854177

Uncertainties in tumor allele frequencies limit power to infer evolutionary pressures.

Javad Noorbakhsh1, Jeffrey H Chuang1,2.   

Abstract

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Year:  2017        PMID： 28854177      PMCID： PMC5953418          DOI： 10.1038/ng.3876

Source DB:  PubMed          Journal:  Nat Genet        ISSN： 1061-4036            Impact factor:   38.330


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  3 in total

1.  Reliable detection of subclonal single-nucleotide variants in tumour cell populations.

Authors:  Moritz Gerstung; Christian Beisel; Markus Rechsteiner; Peter Wild; Peter Schraml; Holger Moch; Niko Beerenwinkel
Journal:  Nat Commun       Date:  2012-05-01       Impact factor: 14.919

2.  Identification of neutral tumor evolution across cancer types.

Authors:  Marc J Williams; Benjamin Werner; Chris P Barnes; Trevor A Graham; Andrea Sottoriva
Journal:  Nat Genet       Date:  2016-01-18       Impact factor: 38.330

3.  Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples.

Authors:  Kristian Cibulskis; Michael S Lawrence; Scott L Carter; Andrey Sivachenko; David Jaffe; Carrie Sougnez; Stacey Gabriel; Matthew Meyerson; Eric S Lander; Gad Getz
Journal:  Nat Biotechnol       Date:  2013-02-10       Impact factor: 54.908
  3 in total
  12 in total

1.  Estimating growth patterns and driver effects in tumor evolution from individual samples.

Authors:  Leonidas Salichos; William Meyerson; Jonathan Warrell; Mark Gerstein
Journal:  Nat Commun       Date:  2020-02-05       Impact factor: 14.919

2.  Somatic genetic drift and multilevel selection in a clonal seagrass.

Authors:  Lei Yu; Christoffer Boström; Sören Franzenburg; Till Bayer; Tal Dagan; Thorsten B H Reusch
Journal:  Nat Ecol Evol       Date:  2020-05-11       Impact factor: 15.460

Review 3.  Population genetics of clonally transmissible cancers.

Authors:  Máire Ní Leathlobhair; Richard E Lenski
Journal:  Nat Ecol Evol       Date:  2022-07-25       Impact factor: 19.100

4.  Deterministic Evolutionary Trajectories Influence Primary Tumor Growth: TRACERx Renal.

Authors:  Samra Turajlic; Hang Xu; Kevin Litchfield; Andrew Rowan; Stuart Horswell; Tim Chambers; Tim O'Brien; Jose I Lopez; Thomas B K Watkins; David Nicol; Mark Stares; Ben Challacombe; Steve Hazell; Ashish Chandra; Thomas J Mitchell; Lewis Au; Claudia Eichler-Jonsson; Faiz Jabbar; Aspasia Soultati; Simon Chowdhury; Sarah Rudman; Joanna Lynch; Archana Fernando; Gordon Stamp; Emma Nye; Aengus Stewart; Wei Xing; Jonathan C Smith; Mickael Escudero; Adam Huffman; Nik Matthews; Greg Elgar; Ben Phillimore; Marta Costa; Sharmin Begum; Sophia Ward; Max Salm; Stefan Boeing; Rosalie Fisher; Lavinia Spain; Carolina Navas; Eva Grönroos; Sebastijan Hobor; Sarkhara Sharma; Ismaeel Aurangzeb; Sharanpreet Lall; Alexander Polson; Mary Varia; Catherine Horsfield; Nicos Fotiadis; Lisa Pickering; Roland F Schwarz; Bruno Silva; Javier Herrero; Nick M Luscombe; Mariam Jamal-Hanjani; Rachel Rosenthal; Nicolai J Birkbak; Gareth A Wilson; Orsolya Pipek; Dezso Ribli; Marcin Krzystanek; Istvan Csabai; Zoltan Szallasi; Martin Gore; Nicholas McGranahan; Peter Van Loo; Peter Campbell; James Larkin; Charles Swanton
Journal:  Cell       Date:  2018-04-12       Impact factor: 41.582

5.  Distribution-based measures of tumor heterogeneity are sensitive to mutation calling and lack strong clinical predictive power.

Authors:  Javad Noorbakhsh; Hyunsoo Kim; Sandeep Namburi; Jeffrey H Chuang
Journal:  Sci Rep       Date:  2018-07-30       Impact factor: 4.379

6.  High-resolution deconstruction of evolution induced by chemotherapy treatments in breast cancer xenografts.

Authors:  Hyunsoo Kim; Pooja Kumar; Francesca Menghi; Javad Noorbakhsh; Eliza Cerveira; Mallory Ryan; Qihui Zhu; Guruprasad Ananda; Joshy George; Henry C Chen; Susan Mockus; Chengsheng Zhang; Yan Yang; James Keck; R Krishna Murthy Karuturi; Carol J Bult; Charles Lee; Edison T Liu; Jeffrey H Chuang
Journal:  Sci Rep       Date:  2018-12-18       Impact factor: 4.379

7.  Inference of clonal selection in cancer populations using single-cell sequencing data.

Authors:  Pavel Skums; Viachaslau Tsyvina; Alex Zelikovsky
Journal:  Bioinformatics       Date:  2019-07-15       Impact factor: 6.937

Review 8.  A practical guide to cancer subclonal reconstruction from DNA sequencing.

Authors:  Maxime Tarabichi; Adriana Salcedo; Amit G Deshwar; Máire Ni Leathlobhair; Jeff Wintersinger; David C Wedge; Peter Van Loo; Quaid D Morris; Paul C Boutros
Journal:  Nat Methods       Date:  2021-01-04       Impact factor: 28.547

9.  Reconstructing the molecular life history of gliomas.

Authors:  Floris P Barthel; Pieter Wesseling; Roel G W Verhaak
Journal:  Acta Neuropathol       Date:  2018-04-03       Impact factor: 17.088

10.  Whole-exome sequencing capture kit biases yield false negative mutation calls in TCGA cohorts.

Authors:  Victor G Wang; Hyunsoo Kim; Jeffrey H Chuang
Journal:  PLoS One       Date:  2018-10-03       Impact factor: 3.240
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