Literature DB >> 34163020

The origin of human mutation in light of genomic data.

Vladimir B Seplyarskiy1,2, Shamil Sunyaev3,4.   

Abstract

Despite years of active research into the role of DNA repair and replication in mutagenesis, surprisingly little is known about the origin of spontaneous human mutation in the germ line. With the advent of high-throughput sequencing, genome-scale data have revealed statistical properties of mutagenesis in humans. These properties include variation of the mutation rate and spectrum along the genome at different scales in relation to epigenomic features and dependency on parental age. Moreover, mutations originated in mothers are less frequent than mutations originated in fathers and have a distinct genomic distribution. Statistical analyses that interpret these patterns in the context of known biochemistry can provide mechanistic models of mutagenesis in humans.

Entities:  

Year:  2021        PMID: 34163020     DOI: 10.1038/s41576-021-00376-2

Source DB:  PubMed          Journal:  Nat Rev Genet        ISSN: 1471-0056            Impact factor:   53.242


  141 in total

1.  PAML 4: phylogenetic analysis by maximum likelihood.

Authors:  Ziheng Yang
Journal:  Mol Biol Evol       Date:  2007-05-04       Impact factor: 16.240

Review 2.  PARP inhibitors in ovarian cancer: current status and future promise.

Authors:  Joyce F Liu; Panagiotis A Konstantinopoulos; Ursula A Matulonis
Journal:  Gynecol Oncol       Date:  2014-03-04       Impact factor: 5.482

3.  Chromatin Constrains the Initiation and Elongation of DNA Replication.

Authors:  Sujan Devbhandari; Jieqing Jiang; Charanya Kumar; Iestyn Whitehouse; Dirk Remus
Journal:  Mol Cell       Date:  2016-12-15       Impact factor: 17.970

4.  A mutational signature reveals alterations underlying deficient homologous recombination repair in breast cancer.

Authors:  Paz Polak; Jaegil Kim; Lior Z Braunstein; Rosa Karlic; Nicholas J Haradhavala; Grace Tiao; Daniel Rosebrock; Dimitri Livitz; Kirsten Kübler; Kent W Mouw; Atanas Kamburov; Yosef E Maruvka; Ignaty Leshchiner; Eric S Lander; Todd R Golub; Aviad Zick; Alexandre Orthwein; Michael S Lawrence; Rajbir N Batra; Carlos Caldas; Daniel A Haber; Peter W Laird; Hui Shen; Leif W Ellisen; Alan D D'Andrea; Stephen J Chanock; William D Foulkes; Gad Getz
Journal:  Nat Genet       Date:  2017-08-21       Impact factor: 38.330

5.  Genome-wide mutational signatures of aristolochic acid and its application as a screening tool.

Authors:  Song Ling Poon; See-Tong Pang; John R McPherson; Willie Yu; Kie Kyon Huang; Peiyong Guan; Wen-Hui Weng; Ee Yan Siew; Yujing Liu; Hong Lee Heng; Soo Ching Chong; Anna Gan; Su Ting Tay; Weng Khong Lim; Ioana Cutcutache; Dachuan Huang; Lian Dee Ler; Maarja-Liisa Nairismägi; Ming Hui Lee; Ying-Hsu Chang; Kai-Jie Yu; Waraporn Chan-On; Bin-Kui Li; Yun-Fei Yuan; Chao-Nan Qian; Kwai-Fong Ng; Ching-Fang Wu; Cheng-Lung Hsu; Ralph M Bunte; Michael R Stratton; P Andrew Futreal; Wing-Kin Sung; Cheng-Keng Chuang; Choon Kiat Ong; Steven G Rozen; Patrick Tan; Bin Tean Teh
Journal:  Sci Transl Med       Date:  2013-08-07       Impact factor: 17.956

6.  Mutational signature of aristolochic acid exposure as revealed by whole-exome sequencing.

Authors:  Margaret L Hoang; Chung-Hsin Chen; Viktoriya S Sidorenko; Jian He; Kathleen G Dickman; Byeong Hwa Yun; Masaaki Moriya; Noushin Niknafs; Christopher Douville; Rachel Karchin; Robert J Turesky; Yeong-Shiau Pu; Bert Vogelstein; Nickolas Papadopoulos; Arthur P Grollman; Kenneth W Kinzler; Thomas A Rosenquist
Journal:  Sci Transl Med       Date:  2013-08-07       Impact factor: 17.956

7.  Genome-scale mutational signatures of aflatoxin in cells, mice, and human tumors.

Authors:  Mi Ni Huang; Willie Yu; Wei Wei Teoh; Maude Ardin; Apinya Jusakul; Alvin Wei Tian Ng; Arnoud Boot; Behnoush Abedi-Ardekani; Stephanie Villar; Swe Swe Myint; Rashidah Othman; Song Ling Poon; Adriana Heguy; Magali Olivier; Monica Hollstein; Patrick Tan; Bin Tean Teh; Kanaga Sabapathy; Jiri Zavadil; Steven G Rozen
Journal:  Genome Res       Date:  2017-07-24       Impact factor: 9.043

8.  Refining the role of de novo protein-truncating variants in neurodevelopmental disorders by using population reference samples.

Authors:  Jack A Kosmicki; Kaitlin E Samocha; Daniel P Howrigan; Stephan J Sanders; Kamil Slowikowski; Monkol Lek; Konrad J Karczewski; David J Cutler; Bernie Devlin; Kathryn Roeder; Joseph D Buxbaum; Benjamin M Neale; Daniel G MacArthur; Dennis P Wall; Elise B Robinson; Mark J Daly
Journal:  Nat Genet       Date:  2017-02-13       Impact factor: 38.330

9.  Chromatin Controls DNA Replication Origin Selection, Lagging-Strand Synthesis, and Replication Fork Rates.

Authors:  Christoph F Kurat; Joseph T P Yeeles; Harshil Patel; Anne Early; John F X Diffley
Journal:  Mol Cell       Date:  2016-12-15       Impact factor: 17.970

10.  Mutational heterogeneity in cancer and the search for new cancer-associated genes.

Authors:  Michael S Lawrence; Petar Stojanov; Paz Polak; Gregory V Kryukov; Kristian Cibulskis; Andrey Sivachenko; Scott L Carter; Chip Stewart; Craig H Mermel; Steven A Roberts; Adam Kiezun; Peter S Hammerman; Aaron McKenna; Yotam Drier; Lihua Zou; Alex H Ramos; Trevor J Pugh; Nicolas Stransky; Elena Helman; Jaegil Kim; Carrie Sougnez; Lauren Ambrogio; Elizabeth Nickerson; Erica Shefler; Maria L Cortés; Daniel Auclair; Gordon Saksena; Douglas Voet; Michael Noble; Daniel DiCara; Pei Lin; Lee Lichtenstein; David I Heiman; Timothy Fennell; Marcin Imielinski; Bryan Hernandez; Eran Hodis; Sylvan Baca; Austin M Dulak; Jens Lohr; Dan-Avi Landau; Catherine J Wu; Jorge Melendez-Zajgla; Alfredo Hidalgo-Miranda; Amnon Koren; Steven A McCarroll; Jaume Mora; Brian Crompton; Robert Onofrio; Melissa Parkin; Wendy Winckler; Kristin Ardlie; Stacey B Gabriel; Charles W M Roberts; Jaclyn A Biegel; Kimberly Stegmaier; Adam J Bass; Levi A Garraway; Matthew Meyerson; Todd R Golub; Dmitry A Gordenin; Shamil Sunyaev; Eric S Lander; Gad Getz
Journal:  Nature       Date:  2013-06-16       Impact factor: 49.962

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  2 in total

1.  Mutation saturation for fitness effects at human CpG sites.

Authors:  Ipsita Agarwal; Molly Przeworski
Journal:  Elife       Date:  2021-11-22       Impact factor: 8.140

2.  Noether's Theorem as a Metaphor for Chargaff's 2nd Parity Rule in Genomics.

Authors:  Yannis Almirantis; Astero Provata; Wentian Li
Journal:  J Mol Evol       Date:  2022-06-15       Impact factor: 3.973

  2 in total

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