Publications by authors named "Glenn Tesler"

30Publications

Predicting Carriers of Ongoing Selective Sweeps without Knowledge of the Favored Allele.

PLoS Genet 2015 Sep 24;11(9):e1005527. Epub 2015 Sep 24.

Department of Computer Science & Engineering, University of California, San Diego, La Jolla, California, United States of America.

View Article

Download full-text PDF

Source
https://rosenberglab.stanford.edu/papers/RonenEtAl2015-PlosG
Web Search
http://dx.plos.org/10.1371/journal.pgen.1005527
Publisher Site
http://dx.doi.org/10.1371/journal.pgen.1005527DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4581834PMC
September 2015

Characterizing the relationship between steady state and response using analytical expressions for the steady states of mass action models.

PLoS Comput Biol 2013 28;9(2):e1002901. Epub 2013 Feb 28.

Signaling Systems Laboratory, Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, California, United States of America.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.pcbi.1002901DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3585464PMC
October 2013

QUAST: quality assessment tool for genome assemblies.

Bioinformatics 2013 Apr 19;29(8):1072-5. Epub 2013 Feb 19.

Algorithmic Biology Laboratory, St. Petersburg Academic University, Russian Academy of Sciences, St. Petersburg, Russia.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/bioinformatics/btt086DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3624806PMC
April 2013

Mapping single molecule sequencing reads using basic local alignment with successive refinement (BLASR): application and theory.

BMC Bioinformatics 2012 Sep 19;13:238. Epub 2012 Sep 19.

Department of Mathematics, University of California, San Diego, 9500 Gilman Dr, CA, La Jolla, USA.

View Article

Download full-text PDF

Source
http://bmcbioinformatics.biomedcentral.com/articles/10.1186/
Publisher Site
http://dx.doi.org/10.1186/1471-2105-13-238DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3572422PMC
September 2012

How to apply de Bruijn graphs to genome assembly.

Nat Biotechnol 2011 Nov 8;29(11):987-91. Epub 2011 Nov 8.

Department of Mathematics, University of California San Diego, La Jolla, California, USA.

View Article

Download full-text PDF

Source
http://www.nature.com/articles/nbt.2023
Publisher Site
http://dx.doi.org/10.1038/nbt.2023DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5531759PMC
November 2011

Paired de bruijn graphs: a novel approach for incorporating mate pair information into genome assemblers.

J Comput Biol 2011 Nov 14;18(11):1625-34. Epub 2011 Oct 14.

Department of Computer Science and Engineering, University of California, San Diego, California, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1089/cmb.2011.0151DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3216098PMC
November 2011

RAPID detection of gene-gene interactions in genome-wide association studies.

Bioinformatics 2010 Nov 24;26(22):2856-62. Epub 2010 Sep 24.

Life Technologies, Foster City, CA, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/bioinformatics/btq529DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3493125PMC
November 2010

Computational tools for the analysis of rearrangements in mammalian genomes.

Methods Mol Biol 2008 ;422:145-70

Department of Mathematics, University of California-San Diego, La Jolla, CA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/978-1-59745-581-7_10DOI Listing
August 2008

Computational tools for the analysis of rearrangements in mammalian genomes.

Methods Mol Biol 2008 ;452:431-55

Genome Institute of Singapore, Singapore, Republic of Singapore.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/978-1-60327-159-2_20DOI Listing
July 2008

The convergence of cytogenetics and rearrangement-based models for ancestral genome reconstruction.

Genome Res 2006 Mar;16(3):311-3

Information and Mathematical Sciences, Genome Institute of Singapore, 138672 Singapore.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1101/gr.4631806DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1415205PMC
March 2006

The fragile breakage versus random breakage models of chromosome evolution.

PLoS Comput Biol 2006 Feb 24;2(2):e14. Epub 2006 Feb 24.

Department of Computer Science and Engineering, University of California San Diego, La Jolla, California, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.pcbi.0020014DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1378107PMC
February 2006

Reconstructing the genomic architecture of mammalian ancestors using multispecies comparative maps.

Hum Genomics 2003 Nov;1(1):30-40

Laboratory of Genomic Diversity, National Cancer Institute, Frederick, MD 21702, USA.

View Article

Download full-text PDF

Source
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3525001PMC
http://dx.doi.org/10.1186/1479-7364-1-1-30DOI Listing
November 2003

De novo repeat classification and fragment assembly.

Genome Res 2004 Sep;14(9):1786-96

Department of Computer Science and Engineering, University of California, San Diego, La Jolla, California 92093, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1101/gr.2395204DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC515325PMC
September 2004

Reconstructing the genomic architecture of ancestral mammals: lessons from human, mouse, and rat genomes.

Genome Res 2004 Apr;14(4):507-16

Centre de Recherches Mathématiques, Université de Montréal, Canada H3C 3J7.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1101/gr.1975204DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC383294PMC
April 2004

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

View Article

Download full-text PDF

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

Human and mouse genomic sequences reveal extensive breakpoint reuse in mammalian evolution.

Proc Natl Acad Sci U S A 2003 Jun 16;100(13):7672-7. Epub 2003 Jun 16.

Department of Computer Science and Engineering, University of California at San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0114, USA.

View Article

Download full-text PDF

Source
http://www.pnas.org/cgi/doi/10.1073/pnas.1330369100
Publisher Site
http://dx.doi.org/10.1073/pnas.1330369100DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC164646PMC
June 2003

Genome rearrangements in mammalian evolution: lessons from human and mouse genomes.

Genome Res 2003 Jan;13(1):37-45

Department of Computer Science and Engineering, University of California, San Diego, La Jolla, CA 92093-0114, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1101/gr.757503DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC430962PMC
January 2003

Initial sequencing and comparative analysis of the mouse genome.

Authors:
Robert H Waterston Kerstin Lindblad-Toh Ewan Birney Jane Rogers Josep F Abril Pankaj Agarwal Richa Agarwala Rachel Ainscough Marina Alexandersson Peter An Stylianos E Antonarakis John Attwood Robert Baertsch Jonathon Bailey Karen Barlow Stephan Beck Eric Berry Bruce Birren Toby Bloom Peer Bork Marc Botcherby Nicolas Bray Michael R Brent Daniel G Brown Stephen D Brown Carol Bult John Burton Jonathan Butler Robert D Campbell Piero Carninci Simon Cawley Francesca Chiaromonte Asif T Chinwalla Deanna M Church Michele Clamp Christopher Clee Francis S Collins Lisa L Cook Richard R Copley Alan Coulson Olivier Couronne James Cuff Val Curwen Tim Cutts Mark Daly Robert David Joy Davies Kimberly D Delehaunty Justin Deri Emmanouil T Dermitzakis Colin Dewey Nicholas J Dickens Mark Diekhans Sheila Dodge Inna Dubchak Diane M Dunn Sean R Eddy Laura Elnitski Richard D Emes Pallavi Eswara Eduardo Eyras Adam Felsenfeld Ginger A Fewell Paul Flicek Karen Foley Wayne N Frankel Lucinda A Fulton Robert S Fulton Terrence S Furey Diane Gage Richard A Gibbs Gustavo Glusman Sante Gnerre Nick Goldman Leo Goodstadt Darren Grafham Tina A Graves Eric D Green Simon Gregory Roderic Guigó Mark Guyer Ross C Hardison David Haussler Yoshihide Hayashizaki LaDeana W Hillier Angela Hinrichs Wratko Hlavina Timothy Holzer Fan Hsu Axin Hua Tim Hubbard Adrienne Hunt Ian Jackson David B Jaffe L Steven Johnson Matthew Jones Thomas A Jones Ann Joy Michael Kamal Elinor K Karlsson Donna Karolchik Arkadiusz Kasprzyk Jun Kawai Evan Keibler Cristyn Kells W James Kent Andrew Kirby Diana L Kolbe Ian Korf Raju S Kucherlapati Edward J Kulbokas David Kulp Tom Landers J P Leger Steven Leonard Ivica Letunic Rosie Levine Jia Li Ming Li Christine Lloyd Susan Lucas Bin Ma Donna R Maglott Elaine R Mardis Lucy Matthews Evan Mauceli John H Mayer Megan McCarthy W Richard McCombie Stuart McLaren Kirsten McLay John D McPherson Jim Meldrim Beverley Meredith Jill P Mesirov Webb Miller Tracie L Miner Emmanuel Mongin Kate T Montgomery Michael Morgan Richard Mott James C Mullikin Donna M Muzny William E Nash Joanne O Nelson Michael N Nhan Robert Nicol Zemin Ning Chad Nusbaum Michael J O'Connor Yasushi Okazaki Karen Oliver Emma Overton-Larty Lior Pachter Genís Parra Kymberlie H Pepin Jane Peterson Pavel Pevzner Robert Plumb Craig S Pohl Alex Poliakov Tracy C Ponce Chris P Ponting Simon Potter Michael Quail Alexandre Reymond Bruce A Roe Krishna M Roskin Edward M Rubin Alistair G Rust Ralph Santos Victor Sapojnikov Brian Schultz Jörg Schultz Matthias S Schwartz Scott Schwartz Carol Scott Steven Seaman Steve Searle Ted Sharpe Andrew Sheridan Ratna Shownkeen Sarah Sims Jonathan B Singer Guy Slater Arian Smit Douglas R Smith Brian Spencer Arne Stabenau Nicole Stange-Thomann Charles Sugnet Mikita Suyama Glenn Tesler Johanna Thompson David Torrents Evanne Trevaskis John Tromp Catherine Ucla Abel Ureta-Vidal Jade P Vinson Andrew C Von Niederhausern Claire M Wade Melanie Wall Ryan J Weber Robert B Weiss Michael C Wendl Anthony P West Kris Wetterstrand Raymond Wheeler Simon Whelan Jamey Wierzbowski David Willey Sophie Williams Richard K Wilson Eitan Winter Kim C Worley Dudley Wyman Shan Yang Shiaw-Pyng Yang Evgeny M Zdobnov Michael C Zody Eric S Lander

Nature 2002 Dec;420(6915):520-62

Genome Sequencing Center, Washington University School of Medicine, Campus Box 8501, 4444 Forest Park Avenue, St Louis, Missouri 63108, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/nature01262DOI Listing
December 2002

GRIMM: genome rearrangements web server.

Authors:
Glenn Tesler

Bioinformatics 2002 Mar;18(3):492-3

Department of Computer Science and Engineering, University of California, San Diego, CA 92093-0114, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/bioinformatics/18.3.492DOI Listing
March 2002