Zhenpeng Li1, Yang Huang1, Yabo Ouyang1, Yang Jiao1, Hui Xing1, Lingjie Liao1, Shibo Jiang1, Yiming Shao1, Liying Ma1. 1. State Key Laboratory for Infectious Disease Prevention and Control, National Center for AIDS/STD Control and Prevention, Chinese Center for Disease Control and Prevention, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Beijing 102206 and Key Laboratory of Medical Molecular Virology (Ministries of Education and Health), Shanghai Medical College and Institute of Medical Microbiology, Fudan University, Shanghai 200032, China.
Abstract
UNLABELLED: Correlated mutations constitute a fundamental idea in evolutionary biology, and understanding correlated mutations will, in turn, facilitate an understanding of the genetic mechanisms governing evolution. CorMut is an R package designed to compute correlated mutations in the unit of codon or amino acid mutation. Three classical methods were incorporated, and the computation results can be represented as correlation mutation networks. CorMut also enables the comparison of correlated mutations between two different evolutionary conditions. AVAILABILITY AND IMPLEMENTATION: CorMut is released under the GNU General Public License within bioconductor project, and freely available at http://bioconductor.org/packages/release/bioc/html/CorMut.html.
UNLABELLED: Correlated mutations constitute a fundamental idea in evolutionary biology, and understanding correlated mutations will, in turn, facilitate an understanding of the genetic mechanisms governing evolution. CorMut is an R package designed to compute correlated mutations in the unit of codon or amino acid mutation. Three classical methods were incorporated, and the computation results can be represented as correlation mutation networks. CorMut also enables the comparison of correlated mutations between two different evolutionary conditions. AVAILABILITY AND IMPLEMENTATION: CorMut is released under the GNU General Public License within bioconductor project, and freely available at http://bioconductor.org/packages/release/bioc/html/CorMut.html.
Authors: Teresa H Evering; Edwin Kamau; Leslie St Bernard; Charles B Farmer; Xiang-Peng Kong; Martin Markowitz Journal: Retrovirology Date: 2014-08-15 Impact factor: 4.602
Authors: Jeffrey R Wagner; Christopher T Lee; Jacob D Durrant; Robert D Malmstrom; Victoria A Feher; Rommie E Amaro Journal: Chem Rev Date: 2016-04-13 Impact factor: 60.622
Authors: Gregorio Iraola; Samuel C Forster; Nitin Kumar; Philippe Lehours; Sadjia Bekal; Francisco J García-Peña; Fernando Paolicchi; Claudia Morsella; Helmut Hotzel; Po-Ren Hsueh; Ana Vidal; Simon Lévesque; Wataru Yamazaki; Claudia Balzan; Agueda Vargas; Alessandra Piccirillo; Bonnie Chaban; Janet E Hill; Laura Betancor; Luis Collado; Isabelle Truyers; Anne C Midwinter; Hatice T Dagi; Francis Mégraud; Lucía Calleros; Ruben Pérez; Hugo Naya; Trevor D Lawley Journal: Nat Commun Date: 2017-11-08 Impact factor: 14.919