Literature DB >> 33606263

Multiregion Sequence Analysis to Predict Intratumor Heterogeneity and Clonal Evolution.

Soyeon Ahn1, Haiyan Huang2,3.   

Abstract

Multiregion sequencing can advance our understanding of the intratumor heterogeneity and the clonal evolution. Here, we introduced multiple aspects of multiregion sequencing and its analysis, including the study design and sampling strategy, current understanding of the tumor evolution model, and a protocol for multiregion sequencing analysis of DNA-sequencing data.

Entities:  

Keywords:  Clonal evolution; Clone ordering; Heterogeneity; Multiregional sequencing; Phylogenetic tree

Mesh：

Year:  2021        PMID： 33606263     DOI： 10.1007/978-1-0716-1103-6_14

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN： 1064-3745


  40 in total

Review 1.  The evolution of tumour phylogenetics: principles and practice.

Authors:  Russell Schwartz; Alejandro A Schäffer
Journal:  Nat Rev Genet       Date:  2017-02-13       Impact factor: 53.242

Review 2.  Intratumor Heterogeneity: Novel Approaches for Resolving Genomic Architecture and Clonal Evolution.

Authors:  Ravi G Gupta; Robert A Somer
Journal:  Mol Cancer Res       Date:  2017-06-08       Impact factor: 5.852

3.  The clonal evolution of tumor cell populations.

Authors:  P C Nowell
Journal:  Science       Date:  1976-10-01       Impact factor: 47.728

4.  Intratumor heterogeneity and branched evolution revealed by multiregion sequencing.

Authors:  Marco Gerlinger; Andrew J Rowan; Stuart Horswell; James Larkin; David Endesfelder; Eva Gronroos; Pierre Martinez; Nicholas Matthews; Aengus Stewart; Charles Swanton; M Math; Patrick Tarpey; Ignacio Varela; Benjamin Phillimore; Sharmin Begum; Neil Q McDonald; Adam Butler; David Jones; Keiran Raine; Calli Latimer; Claudio R Santos; Mahrokh Nohadani; Aron C Eklund; Bradley Spencer-Dene; Graham Clark; Lisa Pickering; Gordon Stamp; Martin Gore; Zoltan Szallasi; Julian Downward; P Andrew Futreal
Journal:  N Engl J Med       Date:  2012-03-08       Impact factor: 91.245

5.  Absolute quantification of somatic DNA alterations in human cancer.

Authors:  Scott L Carter; Kristian Cibulskis; Elena Helman; Aaron McKenna; Hui Shen; Travis Zack; Peter W Laird; Robert C Onofrio; Wendy Winckler; Barbara A Weir; Rameen Beroukhim; David Pellman; Douglas A Levine; Eric S Lander; Matthew Meyerson; Gad Getz
Journal:  Nat Biotechnol       Date:  2012-05       Impact factor: 54.908

6.  Multi-region sequencing unveils novel actionable targets and spatial heterogeneity in esophageal squamous cell carcinoma.

Authors:  Ting Yan; Heyang Cui; Yong Zhou; Bin Yang; Pengzhou Kong; Yingchun Zhang; Yiqian Liu; Bin Wang; Yikun Cheng; Jiayi Li; Shixing Guo; Enwei Xu; Huijuan Liu; Caixia Cheng; Ling Zhang; Ling Chen; Xiaofei Zhuang; Yu Qian; Jian Yang; Yanchun Ma; Hongyi Li; Fang Wang; Jing Liu; Xuefeng Liu; Dan Su; Yan Wang; Ruifang Sun; Shiping Guo; Yaoping Li; Xiaolong Cheng; Zhihua Liu; Qimin Zhan; Yongping Cui
Journal:  Nat Commun       Date:  2019-04-11       Impact factor: 14.919

7.  Learning mutational graphs of individual tumour evolution from single-cell and multi-region sequencing data.

Authors:  Daniele Ramazzotti; Alex Graudenzi; Luca De Sano; Marco Antoniotti; Giulio Caravagna
Journal:  BMC Bioinformatics       Date:  2019-04-25       Impact factor: 3.169

8.  Integrative inference of subclonal tumour evolution from single-cell and bulk sequencing data.

Authors:  Salem Malikic; Katharina Jahn; Jack Kuipers; S Cenk Sahinalp; Niko Beerenwinkel
Journal:  Nat Commun       Date:  2019-06-21       Impact factor: 14.919

9.  Tree inference for single-cell data.

Authors:  Katharina Jahn; Jack Kuipers; Niko Beerenwinkel
Journal:  Genome Biol       Date:  2016-05-05       Impact factor: 13.583

10.  Parameter, noise, and tree topology effects in tumor phylogeny inference.

Authors:  Kiran Tomlinson; Layla Oesper
Journal:  BMC Med Genomics       Date:  2019-12-23       Impact factor: 3.063
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