Albert J Vilella

Albert J Vilella

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Albert J Vilella

Publications by authors named "Albert J Vilella"

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23Publications

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Pulsed Light Accelerated Corneal Collagen Cross-Linking: 1-Year Results.

Authors:
Oliver Bowes Sophie Coutts Aamir Ismailjee Eric Trocme Albert J Vilella Hank Perry Allon Barsam

Cornea 2017 06;36(6):e15-e16

*Department of Ophthalmology, Luton and Dunstable University Hospital, Luton, United Kingdom†Ophthalmic Consultants of Long Island, Rockville Centre, NY.

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http://dx.doi.org/10.1097/ICO.0000000000001187DOI Listing
June 2017

Ensembl comparative genomics resources.

Authors:
Javier Herrero Matthieu Muffato Kathryn Beal Stephen Fitzgerald Leo Gordon Miguel Pignatelli Albert J Vilella Stephen M J Searle Ridwan Amode Simon Brent William Spooner Eugene Kulesha Andrew Yates Paul Flicek

Database (Oxford) 2016 20;2016. Epub 2016 Feb 20.

European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton CB10 1SD, Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton CB10 1SA,

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http://dx.doi.org/10.1093/database/bav096DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4761110PMC
October 2016

ncRNA orthologies in the vertebrate lineage.

Authors:
Miguel Pignatelli Albert J Vilella Matthieu Muffato Leo Gordon Simon White Paul Flicek Javier Herrero

Database (Oxford) 2016 15;2016. Epub 2016 Mar 15.

European Molecular Biology Laboratory, European Bioinformatics Institute UCL Cancer Institute, University College London, London WC1E 6BT, UK.

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http://dx.doi.org/10.1093/database/bav127DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4792531PMC
October 2016

Ensembl comparative genomics resources.

Authors:
Javier Herrero Matthieu Muffato Kathryn Beal Stephen Fitzgerald Leo Gordon Miguel Pignatelli Albert J Vilella Stephen M J Searle Ridwan Amode Simon Brent William Spooner Eugene Kulesha Andrew Yates Paul Flicek

Database (Oxford) 2016 2;2016. Epub 2016 May 2.

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http://dx.doi.org/10.1093/database/baw053DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4852398PMC
August 2016

Sambamba: fast processing of NGS alignment formats.

Authors:
Artem Tarasov Albert J Vilella Edwin Cuppen Isaac J Nijman Pjotr Prins

Bioinformatics 2015 Jun 19;31(12):2032-4. Epub 2015 Feb 19.

Department of Statistical Simulation, St. Petersburg State University, St. Petersburg, Russia, Illumina Cambridge, Cambridge, UK, Hubrecht Institute, Royal Netherlands Academy of Arts and Sciences, Utrecht, The Netherlands, Department of Medical Genetics, Institute for Molecular Medicine, University Medical Centre Utrecht, Utrecht, The Netherlands and Department of Nematology, Wageningen University, Wageningen, The Netherlands Department of Statistical Simulation, St. Petersburg State University, St. Petersburg, Russia, Illumina Cambridge, Cambridge, UK, Hubrecht Institute, Royal Netherlands Academy of Arts and Sciences, Utrecht, The Netherlands, Department of Medical Genetics, Institute for Molecular Medicine, University Medical Centre Utrecht, Utrecht, The Netherlands and Department of Nematology, Wageningen University, Wageningen, The Netherlands.

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http://dx.doi.org/10.1093/bioinformatics/btv098DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4765878PMC
June 2015

Accurate extension of multiple sequence alignments using a phylogeny-aware graph algorithm.

Authors:
Ari Löytynoja Albert J Vilella Nick Goldman

Bioinformatics 2012 Jul 23;28(13):1684-91. Epub 2012 Apr 23.

EMBL-European Bioinformatics Institute, Hinxton, CB10 1SD, UK.

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http://dx.doi.org/10.1093/bioinformatics/bts198DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3381962PMC
July 2012

Insights into hominid evolution from the gorilla genome sequence.

Authors:
Aylwyn Scally Julien Y Dutheil LaDeana W Hillier Gregory E Jordan Ian Goodhead Javier Herrero Asger Hobolth Tuuli Lappalainen Thomas Mailund Tomas Marques-Bonet Shane McCarthy Stephen H Montgomery Petra C Schwalie Y Amy Tang Michelle C Ward Yali Xue Bryndis Yngvadottir Can Alkan Lars N Andersen Qasim Ayub Edward V Ball Kathryn Beal Brenda J Bradley Yuan Chen Chris M Clee Stephen Fitzgerald Tina A Graves Yong Gu Paul Heath Andreas Heger Emre Karakoc Anja Kolb-Kokocinski Gavin K Laird Gerton Lunter Stephen Meader Matthew Mort James C Mullikin Kasper Munch Timothy D O'Connor Andrew D Phillips Javier Prado-Martinez Anthony S Rogers Saba Sajjadian Dominic Schmidt Katy Shaw Jared T Simpson Peter D Stenson Daniel J Turner Linda Vigilant Albert J Vilella Weldon Whitener Baoli Zhu David N Cooper Pieter de Jong Emmanouil T Dermitzakis Evan E Eichler Paul Flicek Nick Goldman Nicholas I Mundy Zemin Ning Duncan T Odom Chris P Ponting Michael A Quail Oliver A Ryder Stephen M Searle Wesley C Warren Richard K Wilson Mikkel H Schierup Jane Rogers Chris Tyler-Smith Richard Durbin

Nature 2012 Mar 7;483(7388):169-75. Epub 2012 Mar 7.

Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton CB10 1SA, UK.

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http://dx.doi.org/10.1038/nature10842DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3303130PMC
March 2012

Considerations for the inclusion of 2x mammalian genomes in phylogenetic analyses.

Authors:
Albert J Vilella Ewan Birney Paul Flicek Javier Herrero

Genome Biol 2011 21;12(2):401. Epub 2011 Feb 21.

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http://dx.doi.org/10.1186/gb-2011-12-2-401DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3188792PMC
February 2012

Genome sequencing and analysis of the Tasmanian devil and its transmissible cancer.

Authors:
Elizabeth P Murchison Ole B Schulz-Trieglaff Zemin Ning Ludmil B Alexandrov Markus J Bauer Beiyuan Fu Matthew Hims Zhihao Ding Sergii Ivakhno Caitlin Stewart Bee Ling Ng Wendy Wong Bronwen Aken Simon White Amber Alsop Jennifer Becq Graham R Bignell R Keira Cheetham William Cheng Thomas R Connor Anthony J Cox Zhi-Ping Feng Yong Gu Russell J Grocock Simon R Harris Irina Khrebtukova Zoya Kingsbury Mark Kowarsky Alexandre Kreiss Shujun Luo John Marshall David J McBride Lisa Murray Anne-Maree Pearse Keiran Raine Isabelle Rasolonjatovo Richard Shaw Philip Tedder Carolyn Tregidgo Albert J Vilella David C Wedge Gregory M Woods Niall Gormley Sean Humphray Gary Schroth Geoffrey Smith Kevin Hall Stephen M J Searle Nigel P Carter Anthony T Papenfuss P Andrew Futreal Peter J Campbell Fengtang Yang David R Bentley Dirk J Evers Michael R Stratton

Cell 2012 Feb;148(4):780-91

Wellcome Trust Sanger Institute, Hinxton, CB10 1SA, UK.

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http://q-bio.org/w/images/6/62/AlexandrovLudmil-Poster.pdf
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http://linkinghub.elsevier.com/retrieve/pii/S009286741200081
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http://dx.doi.org/10.1016/j.cell.2011.11.065DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3281993PMC
February 2012

RNAcentral: A vision for an international database of RNA sequences.

Authors:
Alex Bateman Shipra Agrawal Ewan Birney Elspeth A Bruford Janusz M Bujnicki Guy Cochrane James R Cole Marcel E Dinger Anton J Enright Paul P Gardner Daniel Gautheret Sam Griffiths-Jones Jen Harrow Javier Herrero Ian H Holmes Hsien-Da Huang Krystyna A Kelly Paul Kersey Ana Kozomara Todd M Lowe Manja Marz Simon Moxon Kim D Pruitt Tore Samuelsson Peter F Stadler Albert J Vilella Jan-Hinnerk Vogel Kelly P Williams Mathew W Wright Christian Zwieb

RNA 2011 Nov 22;17(11):1941-6. Epub 2011 Sep 22.

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http://dx.doi.org/10.1261/rna.2750811DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3198587PMC
November 2011

A high-resolution map of human evolutionary constraint using 29 mammals.

Authors:
Kerstin Lindblad-Toh Manuel Garber Or Zuk Michael F Lin Brian J Parker Stefan Washietl Pouya Kheradpour Jason Ernst Gregory Jordan Evan Mauceli Lucas D Ward Craig B Lowe Alisha K Holloway Michele Clamp Sante Gnerre Jessica Alföldi Kathryn Beal Jean Chang Hiram Clawson James Cuff Federica Di Palma Stephen Fitzgerald Paul Flicek Mitchell Guttman Melissa J Hubisz David B Jaffe Irwin Jungreis W James Kent Dennis Kostka Marcia Lara Andre L Martins Tim Massingham Ida Moltke Brian J Raney Matthew D Rasmussen Jim Robinson Alexander Stark Albert J Vilella Jiayu Wen Xiaohui Xie Michael C Zody Jen Baldwin Toby Bloom Chee Whye Chin Dave Heiman Robert Nicol Chad Nusbaum Sarah Young Jane Wilkinson Kim C Worley Christie L Kovar Donna M Muzny Richard A Gibbs Andrew Cree Huyen H Dihn Gerald Fowler Shalili Jhangiani Vandita Joshi Sandra Lee Lora R Lewis Lynne V Nazareth Geoffrey Okwuonu Jireh Santibanez Wesley C Warren Elaine R Mardis George M Weinstock Richard K Wilson Kim Delehaunty David Dooling Catrina Fronik Lucinda Fulton Bob Fulton Tina Graves Patrick Minx Erica Sodergren Ewan Birney Elliott H Margulies Javier Herrero Eric D Green David Haussler Adam Siepel Nick Goldman Katherine S Pollard Jakob S Pedersen Eric S Lander Manolis Kellis

Nature 2011 Oct 12;478(7370):476-82. Epub 2011 Oct 12.

Broad Institute of Harvard and Massachusetts Institute of Technology, 7 Cambridge Center, Cambridge, Massachusetts 02142, USA.

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http://dx.doi.org/10.1038/nature10530DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3207357PMC
October 2011

Ensembl 2011.

Authors:
Paul Flicek M Ridwan Amode Daniel Barrell Kathryn Beal Simon Brent Yuan Chen Peter Clapham Guy Coates Susan Fairley Stephen Fitzgerald Leo Gordon Maurice Hendrix Thibaut Hourlier Nathan Johnson Andreas Kähäri Damian Keefe Stephen Keenan Rhoda Kinsella Felix Kokocinski Eugene Kulesha Pontus Larsson Ian Longden William McLaren Bert Overduin Bethan Pritchard Harpreet Singh Riat Daniel Rios Graham R S Ritchie Magali Ruffier Michael Schuster Daniel Sobral Giulietta Spudich Y Amy Tang Stephen Trevanion Jana Vandrovcova Albert J Vilella Simon White Steven P Wilder Amonida Zadissa Jorge Zamora Bronwen L Aken Ewan Birney Fiona Cunningham Ian Dunham Richard Durbin Xosé M Fernández-Suarez Javier Herrero Tim J P Hubbard Anne Parker Glenn Proctor Jan Vogel Stephen M J Searle

Nucleic Acids Res 2011 Jan 2;39(Database issue):D800-6. Epub 2010 Nov 2.

European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK.

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http://dx.doi.org/10.1093/nar/gkq1064DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3013672PMC
January 2011

Comparative and demographic analysis of orang-utan genomes.

Authors:
Devin P Locke LaDeana W Hillier Wesley C Warren Kim C Worley Lynne V Nazareth Donna M Muzny Shiaw-Pyng Yang Zhengyuan Wang Asif T Chinwalla Pat Minx Makedonka Mitreva Lisa Cook Kim D Delehaunty Catrina Fronick Heather Schmidt Lucinda A Fulton Robert S Fulton Joanne O Nelson Vincent Magrini Craig Pohl Tina A Graves Chris Markovic Andy Cree Huyen H Dinh Jennifer Hume Christie L Kovar Gerald R Fowler Gerton Lunter Stephen Meader Andreas Heger Chris P Ponting Tomas Marques-Bonet Can Alkan Lin Chen Ze Cheng Jeffrey M Kidd Evan E Eichler Simon White Stephen Searle Albert J Vilella Yuan Chen Paul Flicek Jian Ma Brian Raney Bernard Suh Richard Burhans Javier Herrero David Haussler Rui Faria Olga Fernando Fleur Darré Domènec Farré Elodie Gazave Meritxell Oliva Arcadi Navarro Roberta Roberto Oronzo Capozzi Nicoletta Archidiacono Giuliano Della Valle Stefania Purgato Mariano Rocchi Miriam K Konkel Jerilyn A Walker Brygg Ullmer Mark A Batzer Arian F A Smit Robert Hubley Claudio Casola Daniel R Schrider Matthew W Hahn Victor Quesada Xose S Puente Gonzalo R Ordoñez Carlos López-Otín Tomas Vinar Brona Brejova Aakrosh Ratan Robert S Harris Webb Miller Carolin Kosiol Heather A Lawson Vikas Taliwal André L Martins Adam Siepel Arindam Roychoudhury Xin Ma Jeremiah Degenhardt Carlos D Bustamante Ryan N Gutenkunst Thomas Mailund Julien Y Dutheil Asger Hobolth Mikkel H Schierup Oliver A Ryder Yuko Yoshinaga Pieter J de Jong George M Weinstock Jeffrey Rogers Elaine R Mardis Richard A Gibbs Richard K Wilson

Nature 2011 Jan;469(7331):529-33

The Genome Center at Washington University, Washington University School of Medicine, 4444 Forest Park Avenue, Saint Louis, Missouri 63108, USA.

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http://dx.doi.org/10.1038/nature09687DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3060778PMC
January 2011

Sequencing of Culex quinquefasciatus establishes a platform for mosquito comparative genomics.

Authors:
Peter Arensburger Karine Megy Robert M Waterhouse Jenica Abrudan Paolo Amedeo Beatriz Antelo Lyric Bartholomay Shelby Bidwell Elisabet Caler Francisco Camara Corey L Campbell Kathryn S Campbell Claudio Casola Marta T Castro Ishwar Chandramouliswaran Sinéad B Chapman Scott Christley Javier Costas Eric Eisenstadt Cedric Feschotte Claire Fraser-Liggett Roderic Guigo Brian Haas Martin Hammond Bill S Hansson Janet Hemingway Sharon R Hill Clint Howarth Rickard Ignell Ryan C Kennedy Chinnappa D Kodira Neil F Lobo Chunhong Mao George Mayhew Kristin Michel Akio Mori Nannan Liu Horacio Naveira Vishvanath Nene Nam Nguyen Matthew D Pearson Ellen J Pritham Daniela Puiu Yumin Qi Hilary Ranson Jose M C Ribeiro Hugh M Roberston David W Severson Martin Shumway Mario Stanke Robert L Strausberg Cheng Sun Granger Sutton Zhijian Jake Tu Jose Manuel C Tubio Maria F Unger Dana L Vanlandingham Albert J Vilella Owen White Jared R White Charles S Wondji Jennifer Wortman Evgeny M Zdobnov Bruce Birren Bruce M Christensen Frank H Collins Anthony Cornel George Dimopoulos Linda I Hannick Stephen Higgs Gregory C Lanzaro Daniel Lawson Norman H Lee Marc A T Muskavitch Alexander S Raikhel Peter W Atkinson

Science 2010 Oct;330(6000):86-8

Center for Disease Vector Research, University of California Riverside, Riverside, CA 92521, USA.

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http://dx.doi.org/10.1126/science.1191864DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3740384PMC
October 2010

Multi-platform next-generation sequencing of the domestic turkey (Meleagris gallopavo): genome assembly and analysis.

Authors:
Rami A Dalloul Julie A Long Aleksey V Zimin Luqman Aslam Kathryn Beal Le Ann Blomberg Pascal Bouffard David W Burt Oswald Crasta Richard P M A Crooijmans Kristal Cooper Roger A Coulombe Supriyo De Mary E Delany Jerry B Dodgson Jennifer J Dong Clive Evans Karin M Frederickson Paul Flicek Liliana Florea Otto Folkerts Martien A M Groenen Tim T Harkins Javier Herrero Steve Hoffmann Hendrik-Jan Megens Andrew Jiang Pieter de Jong Pete Kaiser Heebal Kim Kyu-Won Kim Sungwon Kim David Langenberger Mi-Kyung Lee Taeheon Lee Shrinivasrao Mane Guillaume Marcais Manja Marz Audrey P McElroy Thero Modise Mikhail Nefedov Cédric Notredame Ian R Paton William S Payne Geo Pertea Dennis Prickett Daniela Puiu Dan Qioa Emanuele Raineri Magali Ruffier Steven L Salzberg Michael C Schatz Chantel Scheuring Carl J Schmidt Steven Schroeder Stephen M J Searle Edward J Smith Jacqueline Smith Tad S Sonstegard Peter F Stadler Hakim Tafer Zhijian Jake Tu Curtis P Van Tassell Albert J Vilella Kelly P Williams James A Yorke Liqing Zhang Hong-Bin Zhang Xiaojun Zhang Yang Zhang Kent M Reed

PLoS Biol 2010 Sep 7;8(9). Epub 2010 Sep 7.

Avian Immunobiology Laboratory, Department of Animal and Poultry Sciences, Virginia Tech, Blacksburg, Virginia, United States of America.

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http://dx.doi.org/10.1371/journal.pbio.1000475DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2935454PMC
September 2010

eHive: an artificial intelligence workflow system for genomic analysis.

Authors:
Jessica Severin Kathryn Beal Albert J Vilella Stephen Fitzgerald Michael Schuster Leo Gordon Abel Ureta-Vidal Paul Flicek Javier Herrero

BMC Bioinformatics 2010 May 11;11:240. Epub 2010 May 11.

European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, UK.

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http://dx.doi.org/10.1186/1471-2105-11-240DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2885371PMC
May 2010

The genome of a songbird.

Authors:
Wesley C Warren David F Clayton Hans Ellegren Arthur P Arnold Ladeana W Hillier Axel Künstner Steve Searle Simon White Albert J Vilella Susan Fairley Andreas Heger Lesheng Kong Chris P Ponting Erich D Jarvis Claudio V Mello Pat Minx Peter Lovell Tarciso A F Velho Margaret Ferris Christopher N Balakrishnan Saurabh Sinha Charles Blatti Sarah E London Yun Li Ya-Chi Lin Julia George Jonathan Sweedler Bruce Southey Preethi Gunaratne Michael Watson Kiwoong Nam Niclas Backström Linnea Smeds Benoit Nabholz Yuichiro Itoh Osceola Whitney Andreas R Pfenning Jason Howard Martin Völker Bejamin M Skinner Darren K Griffin Liang Ye William M McLaren Paul Flicek Victor Quesada Gloria Velasco Carlos Lopez-Otin Xose S Puente Tsviya Olender Doron Lancet Arian F A Smit Robert Hubley Miriam K Konkel Jerilyn A Walker Mark A Batzer Wanjun Gu David D Pollock Lin Chen Ze Cheng Evan E Eichler Jessica Stapley Jon Slate Robert Ekblom Tim Birkhead Terry Burke David Burt Constance Scharff Iris Adam Hugues Richard Marc Sultan Alexey Soldatov Hans Lehrach Scott V Edwards Shiaw-Pyng Yang Xiaoching Li Tina Graves Lucinda Fulton Joanne Nelson Asif Chinwalla Shunfeng Hou Elaine R Mardis Richard K Wilson

Nature 2010 Apr;464(7289):757-62

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

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http://dx.doi.org/10.1038/nature08819DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3187626PMC
April 2010

Joining forces in the quest for orthologs.

Authors:
Toni Gabaldón Christophe Dessimoz Julie Huxley-Jones Albert J Vilella Erik Ll Sonnhammer Suzanna Lewis

Genome Biol 2009 29;10(9):403. Epub 2009 Sep 29.

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http://dx.doi.org/10.1186/gb-2009-10-9-403DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2768974PMC
February 2010

EnsemblCompara GeneTrees: Complete, duplication-aware phylogenetic trees in vertebrates.

Authors:
Albert J Vilella Jessica Severin Abel Ureta-Vidal Li Heng Richard Durbin Ewan Birney

Genome Res 2009 Feb 24;19(2):327-35. Epub 2008 Nov 24.

EMBL-EBI, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom.

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http://genome.cshlp.org/cgi/doi/10.1101/gr.073585.107
Publisher Site
http://dx.doi.org/10.1101/gr.073585.107DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2652215PMC
February 2009

TreeFam: 2008 Update.

Authors:
Jue Ruan Heng Li Zhongzhong Chen Avril Coghlan Lachlan James M Coin Yiran Guo Jean-Karim Hériché Yafeng Hu Karsten Kristiansen Ruiqiang Li Tao Liu Alan Moses Junjie Qin Søren Vang Albert J Vilella Abel Ureta-Vidal Lars Bolund Jun Wang Richard Durbin

Nucleic Acids Res 2008 Jan 1;36(Database issue):D735-40. Epub 2007 Dec 1.

Beijing Institute of Genomics of the Chinese Academy of Sciences, Beijing Genomics Institute, Beijing 101300, China.

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https://academic.oup.com/nar/article-lookup/doi/10.1093/nar/
Publisher Site
http://dx.doi.org/10.1093/nar/gkm1005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2238856PMC
January 2008

Evolution of genes and genomes on the Drosophila phylogeny.

Authors:
Andrew G Clark Michael B Eisen Douglas R Smith Casey M Bergman Brian Oliver Therese A Markow Thomas C Kaufman Manolis Kellis William Gelbart Venky N Iyer Daniel A Pollard Timothy B Sackton Amanda M Larracuente Nadia D Singh Jose P Abad Dawn N Abt Boris Adryan Montserrat Aguade Hiroshi Akashi Wyatt W Anderson Charles F Aquadro David H Ardell Roman Arguello Carlo G Artieri Daniel A Barbash Daniel Barker Paolo Barsanti Phil Batterham Serafim Batzoglou Dave Begun Arjun Bhutkar Enrico Blanco Stephanie A Bosak Robert K Bradley Adrianne D Brand Michael R Brent Angela N Brooks Randall H Brown Roger K Butlin Corrado Caggese Brian R Calvi A Bernardo de Carvalho Anat Caspi Sergio Castrezana Susan E Celniker Jean L Chang Charles Chapple Sourav Chatterji Asif Chinwalla Alberto Civetta Sandra W Clifton Josep M Comeron James C Costello Jerry A Coyne Jennifer Daub Robert G David Arthur L Delcher Kim Delehaunty Chuong B Do Heather Ebling Kevin Edwards Thomas Eickbush Jay D Evans Alan Filipski Sven Findeiss Eva Freyhult Lucinda Fulton Robert Fulton Ana C L Garcia Anastasia Gardiner David A Garfield Barry E Garvin Greg Gibson Don Gilbert Sante Gnerre Jennifer Godfrey Robert Good Valer Gotea Brenton Gravely Anthony J Greenberg Sam Griffiths-Jones Samuel Gross Roderic Guigo Erik A Gustafson Wilfried Haerty Matthew W Hahn Daniel L Halligan Aaron L Halpern Gillian M Halter Mira V Han Andreas Heger LaDeana Hillier Angie S Hinrichs Ian Holmes Roger A Hoskins Melissa J Hubisz Dan Hultmark Melanie A Huntley David B Jaffe Santosh Jagadeeshan William R Jeck Justin Johnson Corbin D Jones William C Jordan Gary H Karpen Eiko Kataoka Peter D Keightley Pouya Kheradpour Ewen F Kirkness Leonardo B Koerich Karsten Kristiansen Dave Kudrna Rob J Kulathinal Sudhir Kumar Roberta Kwok Eric Lander Charles H Langley Richard Lapoint Brian P Lazzaro So-Jeong Lee Lisa Levesque Ruiqiang Li Chiao-Feng Lin Michael F Lin Kerstin Lindblad-Toh Ana Llopart Manyuan Long Lloyd Low Elena Lozovsky Jian Lu Meizhong Luo Carlos A Machado Wojciech Makalowski Mar Marzo Muneo Matsuda Luciano Matzkin Bryant McAllister Carolyn S McBride Brendan McKernan Kevin McKernan Maria Mendez-Lago Patrick Minx Michael U Mollenhauer Kristi Montooth Stephen M Mount Xu Mu Eugene Myers Barbara Negre Stuart Newfeld Rasmus Nielsen Mohamed A F Noor Patrick O'Grady Lior Pachter Montserrat Papaceit Matthew J Parisi Michael Parisi Leopold Parts Jakob S Pedersen Graziano Pesole Adam M Phillippy Chris P Ponting Mihai Pop Damiano Porcelli Jeffrey R Powell Sonja Prohaska Kim Pruitt Marta Puig Hadi Quesneville Kristipati Ravi Ram David Rand Matthew D Rasmussen Laura K Reed Robert Reenan Amy Reily Karin A Remington Tania T Rieger Michael G Ritchie Charles Robin Yu-Hui Rogers Claudia Rohde Julio Rozas Marc J Rubenfield Alfredo Ruiz Susan Russo Steven L Salzberg Alejandro Sanchez-Gracia David J Saranga Hajime Sato Stephen W Schaeffer Michael C Schatz Todd Schlenke Russell Schwartz Carmen Segarra Rama S Singh Laura Sirot Marina Sirota Nicholas B Sisneros Chris D Smith Temple F Smith John Spieth Deborah E Stage Alexander Stark Wolfgang Stephan Robert L Strausberg Sebastian Strempel David Sturgill Granger Sutton Granger G Sutton Wei Tao Sarah Teichmann Yoshiko N Tobari Yoshihiko Tomimura Jason M Tsolas Vera L S Valente Eli Venter J Craig Venter Saverio Vicario Filipe G Vieira Albert J Vilella Alfredo Villasante Brian Walenz Jun Wang Marvin Wasserman Thomas Watts Derek Wilson Richard K Wilson Rod A Wing Mariana F Wolfner Alex Wong Gane Ka-Shu Wong Chung-I Wu Gabriel Wu Daisuke Yamamoto Hsiao-Pei Yang Shiaw-Pyng Yang James A Yorke Kiyohito Yoshida Evgeny Zdobnov Peili Zhang Yu Zhang Aleksey V Zimin Jennifer Baldwin Amr Abdouelleil Jamal Abdulkadir Adal Abebe Brikti Abera Justin Abreu St Christophe Acer Lynne Aftuck Allen Alexander Peter An Erica Anderson Scott Anderson Harindra Arachi Marc Azer Pasang Bachantsang Andrew Barry Tashi Bayul Aaron Berlin Daniel Bessette Toby Bloom Jason Blye Leonid Boguslavskiy Claude Bonnet Boris Boukhgalter Imane Bourzgui Adam Brown Patrick Cahill Sheridon Channer Yama Cheshatsang Lisa Chuda Mieke Citroen Alville Collymore Patrick Cooke Maura Costello Katie D'Aco Riza Daza Georgius De Haan Stuart DeGray Christina DeMaso Norbu Dhargay Kimberly Dooley Erin Dooley Missole Doricent Passang Dorje Kunsang Dorjee Alan Dupes Richard Elong Jill Falk Abderrahim Farina Susan Faro Diallo Ferguson Sheila Fisher Chelsea D Foley Alicia Franke Dennis Friedrich Loryn Gadbois Gary Gearin Christina R Gearin Georgia Giannoukos Tina Goode Joseph Graham Edward Grandbois Sharleen Grewal Kunsang Gyaltsen Nabil Hafez Birhane Hagos Jennifer Hall Charlotte Henson Andrew Hollinger Tracey Honan Monika D Huard Leanne Hughes Brian Hurhula M Erii Husby Asha Kamat Ben Kanga Seva Kashin Dmitry Khazanovich Peter Kisner Krista Lance Marcia Lara William Lee Niall Lennon Frances Letendre Rosie LeVine Alex Lipovsky Xiaohong Liu Jinlei Liu Shangtao Liu Tashi Lokyitsang Yeshi Lokyitsang Rakela Lubonja Annie Lui Pen MacDonald Vasilia Magnisalis Kebede Maru Charles Matthews William McCusker Susan McDonough Teena Mehta James Meldrim Louis Meneus Oana Mihai Atanas Mihalev Tanya Mihova Rachel Mittelman Valentine Mlenga Anna Montmayeur Leonidas Mulrain Adam Navidi Jerome Naylor Tamrat Negash Thu Nguyen Nga Nguyen Robert Nicol Choe Norbu Nyima Norbu Nathaniel Novod Barry O'Neill Sahal Osman Eva Markiewicz Otero L Oyono Christopher Patti Pema Phunkhang Fritz Pierre Margaret Priest Sujaa Raghuraman Filip Rege Rebecca Reyes Cecil Rise Peter Rogov Keenan Ross Elizabeth Ryan Sampath Settipalli Terry Shea Ngawang Sherpa Lu Shi Diana Shih Todd Sparrow Jessica Spaulding John Stalker Nicole Stange-Thomann Sharon Stavropoulos Catherine Stone Christopher Strader Senait Tesfaye Talene Thomson Yama Thoulutsang Dawa Thoulutsang Kerri Topham Ira Topping Tsamla Tsamla Helen Vassiliev Andy Vo Tsering Wangchuk Tsering Wangdi Michael Weiand Jane Wilkinson Adam Wilson Shailendra Yadav Geneva Young Qing Yu Lisa Zembek Danni Zhong Andrew Zimmer Zac Zwirko David B Jaffe Pablo Alvarez Will Brockman Jonathan Butler CheeWhye Chin Sante Gnerre Manfred Grabherr Michael Kleber Evan Mauceli Iain MacCallum

Nature 2007 Nov;450(7167):203-18

Department of Molecular Biology and Genetics, Cornell University, Ithaca, New York 14853, USA.

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http://dx.doi.org/10.1038/nature06341DOI Listing
November 2007

Genome-wide DNA polymorphism analyses using VariScan.

Authors:
Stephan Hutter Albert J Vilella Julio Rozas

BMC Bioinformatics 2006 Sep 12;7:409. Epub 2006 Sep 12.

Departament de Genètica, Facultat de Biologia, Universitat de Barcelona, Diagonal 645, 08028 Barcelona, Spain.

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http://dx.doi.org/10.1186/1471-2105-7-409DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1574356PMC
September 2006

VariScan: Analysis of evolutionary patterns from large-scale DNA sequence polymorphism data.

Authors:
Albert J Vilella Angel Blanco-Garcia Stephan Hutter Julio Rozas

Bioinformatics 2005 Jun 6;21(11):2791-3. Epub 2005 Apr 6.

Departament de Genètica, Facultat de Biologia, Universitat de Barcelona, Diagonal 645, 08028 Barcelona, Spain.

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http://dx.doi.org/10.1093/bioinformatics/bti403DOI Listing
June 2005