Von Bing Yap

Von Bing Yap

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Von Bing Yap

Von Bing Yap

Publications by authors named "Von Bing Yap"

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ADP ribosyl-cyclases (CD38/CD157), social skills and friendship.

Psychoneuroendocrinology 2017 04 16;78:185-192. Epub 2017 Jan 16.

Dept. of Psychology, National University of Singapore, S117570, Singapore. Electronic address:

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http://dx.doi.org/10.1016/j.psyneuen.2017.01.011DOI Listing
April 2017

Statistical Methods for Identifying Sequence Motifs Affecting Point Mutations.

Genetics 2017 02 14;205(2):843-856. Epub 2016 Dec 14.

Research School of Biology, The Australian National University, Canberra, Australian Capital Territory 2601, Australia

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http://dx.doi.org/10.1534/genetics.116.195677DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5289855PMC
February 2017

Standard Codon Substitution Models Overestimate Purifying Selection for Nonstationary Data.

Genome Biol Evol 2017 01;9(1):134-149

Research School of Biology, College of Medicine, Biology, and Environment, Australian National University, Canberra, ACT, Australia.

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http://dx.doi.org/10.1093/gbe/evw308DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5381540PMC
January 2017

Genetic distance for a general non-stationary markov substitution process.

Syst Biol 2015 Mar 9;64(2):281-93. Epub 2014 Dec 9.

John Curtin School of Medical Research, Australian National University, Canberra, ACT, 2600, Australia; and

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http://dx.doi.org/10.1093/sysbio/syu106DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4380038PMC
March 2015

The embedding problem for markov models of nucleotide substitution.

PLoS One 2013 30;8(7):e69187. Epub 2013 Jul 30.

Computational Genomics Laboratory, John Curtin School of Medical Research, The Australian National University, Canberra, Australian.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0069187PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3728303PMC
April 2014

Context-dependent substitution models for circular DNA.

Infect Genet Evol 2013 Aug 14;18:362-6. Epub 2013 Mar 14.

Department of Statistics and Applied Probability, National University of Singapore, Block S16 Level 7, 6 Science Drive 2, Singapore 117546, Singapore.

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http://dx.doi.org/10.1016/j.meegid.2013.03.001DOI Listing
August 2013

A unified approach to the transition matrices of DNA substitution models.

Authors:
Von Bing Yap

Math Biosci 2013 Apr 8;242(2):111-6. Epub 2013 Jan 8.

Department of Statistics and Applied Probability, National University of Singapore, Singapore.

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http://dx.doi.org/10.1016/j.mbs.2012.12.008DOI Listing
April 2013

The apportionment of total genetic variation by categorical analysis of variance.

Stat Appl Genet Mol Biol 2010 13;9:Article 7. Epub 2010 Jan 13.

National University of Singapore.

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http://dx.doi.org/10.2202/1544-6115.1482DOI Listing
May 2010

Estimates of the effect of natural selection on protein-coding content.

Mol Biol Evol 2010 Mar 8;27(3):726-34. Epub 2009 Oct 8.

Department of Statistics and Applied Probability, National University of Singapore, Singapore, Singapore.

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http://dx.doi.org/10.1093/molbev/msp232DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2822286PMC
March 2010

Effects of normalization on quantitative traits in association test.

BMC Bioinformatics 2009 Dec 14;10:415. Epub 2009 Dec 14.

Cancer & Stem Cell Biology Program, Duke-National University of Singapore Graduate Medical School, Singapore.

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http://www.biomedcentral.com/1471-2105/10/415
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http://dx.doi.org/10.1186/1471-2105-10-415DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2800123PMC
December 2009

Comparison of methods for estimating the nucleotide substitution matrix.

BMC Bioinformatics 2008 Dec 1;9:511. Epub 2008 Dec 1.

Department of Applied Mathematics, University of Colorado, Boulder, CO, USA.

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http://dx.doi.org/10.1186/1471-2105-9-511DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2655096PMC
December 2008

Pitfalls of the most commonly used models of context dependent substitution.

Biol Direct 2008 Dec 16;3:52. Epub 2008 Dec 16.

Computational Genomics Laboratory, John Curtin School of Medical Research, The Australian National University, Canberra, Australia.

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http://dx.doi.org/10.1186/1745-6150-3-52DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2628887PMC
December 2008

Pathological rate matrices: from primates to pathogens.

BMC Bioinformatics 2008 Dec 19;9:550. Epub 2008 Dec 19.

John Curtin School of Medical Research, The Australian National University, Canberra, ACT, Australia.

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http://dx.doi.org/10.1186/1471-2105-9-550DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2639438PMC
December 2008

Rooting a phylogenetic tree with nonreversible substitution models.

BMC Evol Biol 2005 Jan 4;5. Epub 2005 Jan 4.

Mathematics Department, University of California, 970 Evans Hall, Berkeley, CA 94720, USA.

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http://bmcevolbiol.biomedcentral.com/articles/10.1186/1471-2
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http://dx.doi.org/10.1186/1471-2148-5-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC544347PMC
January 2005

Genome sequence of the Brown Norway rat yields insights into mammalian evolution.

Authors:
Richard A Gibbs George M Weinstock Michael L Metzker Donna M Muzny Erica J Sodergren Steven Scherer Graham Scott David Steffen Kim C Worley Paula E Burch Geoffrey Okwuonu Sandra Hines Lora Lewis Christine DeRamo Oliver Delgado Shannon Dugan-Rocha George Miner Margaret Morgan Alicia Hawes Rachel Gill Celera Robert A Holt Mark D Adams Peter G Amanatides Holly Baden-Tillson Mary Barnstead Soo Chin Cheryl A Evans Steve Ferriera Carl Fosler Anna Glodek Zhiping Gu Don Jennings Cheryl L Kraft Trixie Nguyen Cynthia M Pfannkoch Cynthia Sitter Granger G Sutton J Craig Venter Trevor Woodage Douglas Smith Hong-Mei Lee Erik Gustafson Patrick Cahill Arnold Kana Lynn Doucette-Stamm Keith Weinstock Kim Fechtel Robert B Weiss Diane M Dunn Eric D Green Robert W Blakesley Gerard G Bouffard Pieter J De Jong Kazutoyo Osoegawa Baoli Zhu Marco Marra Jacqueline Schein Ian Bosdet Chris Fjell Steven Jones Martin Krzywinski Carrie Mathewson Asim Siddiqui Natasja Wye John McPherson Shaying Zhao Claire M Fraser Jyoti Shetty Sofiya Shatsman Keita Geer Yixin Chen Sofyia Abramzon William C Nierman Paul H Havlak Rui Chen K James Durbin Amy Egan Yanru Ren Xing-Zhi Song Bingshan Li Yue Liu Xiang Qin Simon Cawley Kim C Worley A J Cooney Lisa M D'Souza Kirt Martin Jia Qian Wu Manuel L Gonzalez-Garay Andrew R Jackson Kenneth J Kalafus Michael P McLeod Aleksandar Milosavljevic Davinder Virk Andrei Volkov David A Wheeler Zhengdong Zhang Jeffrey A Bailey Evan E Eichler Eray Tuzun Ewan Birney Emmanuel Mongin Abel Ureta-Vidal Cara Woodwark Evgeny Zdobnov Peer Bork Mikita Suyama David Torrents Marina Alexandersson Barbara J Trask Janet M Young Hui Huang Huajun Wang Heming Xing Sue Daniels Darryl Gietzen Jeanette Schmidt Kristian Stevens Ursula Vitt Jim Wingrove Francisco Camara M Mar Albà Josep F Abril Roderic Guigo Arian Smit Inna Dubchak Edward M Rubin Olivier Couronne Alexander Poliakov Norbert Hübner Detlev Ganten Claudia Goesele Oliver Hummel Thomas Kreitler Young-Ae Lee Jan Monti Herbert Schulz Heike Zimdahl Heinz Himmelbauer Hans Lehrach Howard J Jacob Susan Bromberg Jo Gullings-Handley Michael I Jensen-Seaman Anne E Kwitek Jozef Lazar Dean Pasko Peter J Tonellato Simon Twigger Chris P Ponting Jose M Duarte Stephen Rice Leo Goodstadt Scott A Beatson Richard D Emes Eitan E Winter Caleb Webber Petra Brandt Gerald Nyakatura Margaret Adetobi Francesca Chiaromonte Laura Elnitski Pallavi Eswara Ross C Hardison Minmei Hou Diana Kolbe Kateryna Makova Webb Miller Anton Nekrutenko Cathy Riemer Scott Schwartz James Taylor Shan Yang Yi Zhang Klaus Lindpaintner T Dan Andrews Mario Caccamo Michele Clamp Laura Clarke Valerie Curwen Richard Durbin Eduardo Eyras Stephen M Searle Gregory M Cooper Serafim Batzoglou Michael Brudno Arend Sidow Eric A Stone J Craig Venter Bret A Payseur Guillaume Bourque Carlos López-Otín Xose S Puente Kushal Chakrabarti Sourav Chatterji Colin Dewey Lior Pachter Nicolas Bray Von Bing Yap Anat Caspi Glenn Tesler Pavel A Pevzner David Haussler Krishna M Roskin Robert Baertsch Hiram Clawson Terrence S Furey Angie S Hinrichs Donna Karolchik William J Kent Kate R Rosenbloom Heather Trumbower Matt Weirauch David N Cooper Peter D Stenson Bin Ma Michael Brent Manimozhiyan Arumugam David Shteynberg Richard R Copley Martin S Taylor Harold Riethman Uma Mudunuri Jane Peterson Mark Guyer Adam Felsenfeld Susan Old Stephen Mockrin Francis Collins

Nature 2004 Apr;428(6982):493-521

Human Genome Sequencing Center, Department of Molecular and Human Genetics, Baylor College of Medicine, MS BCM226, One Baylor Plaza, Houston, Texas 77030, USA. http://www.hgsc.bcm.tmc.edu

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http://dx.doi.org/10.1038/nature02426DOI Listing
April 2004

Identification of evolutionary hotspots in the rodent genomes.

Genome Res 2004 Apr;14(4):574-9

Department of Mathematics, University of California, Berkeley, California 94720-3840, USA.

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http://dx.doi.org/10.1101/gr.1967904DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC383301PMC
April 2004

Modeling DNA base substitution in large genomic regions from two organisms.

J Mol Evol 2004 Jan;58(1):12-8

Department of Mathematics, University of California, 970 Evans Hall, Berkeley, CA 94720-3840, USA.

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http://dx.doi.org/10.1007/s00239-003-2520-8DOI Listing
January 2004