Wilfried Haerty

Department of Physiology, Anatomy and Genetics, University of Oxford, Oxford, UK; Department of Physiology, Anatomy and Genetics, MRC Functional Genomics Unit, University of Oxford, UK.

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August 2015

G&T-seq: parallel sequencing of single-cell genomes and transcriptomes.

Nat Methods 2015 Jun 27;12(6):519-22. Epub 2015 Apr 27.

1] Sanger Institute-EBI Single-Cell Genomics Centre, Wellcome Trust Sanger Institute, Hinxton, UK. [2] Department of Human Genetics, University of Leuven, Leuven, Belgium.

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June 2015

Unexpected selection to retain high GC content and splicing enhancers within exons of multiexonic lncRNA loci.

Authors:

Wilfried Haerty Chris P Ponting

RNA 2015 Mar;21(3):333-46

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March 2015

Genome-wide discovery of human splicing branchpoints.

Authors:

Tim R Mercer Michael B Clark Stacey B Andersen Marion E Brunck Wilfried Haerty Joanna Crawford Ryan J Taft Lars K Nielsen Marcel E Dinger John S Mattick

Genome Res 2015 Feb 5;25(2):290-303. Epub 2015 Jan 5.

Garvan Institute of Medical Research, Sydney, New South Wales 2010, Australia; St. Vincent's Clinical School, Faculty of Medicine, UNSW Australia, Sydney, New South Wales 2052, Australia;

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February 2015

RBFOX and PTBP1 proteins regulate the alternative splicing of micro-exons in human brain transcripts.

Authors:

Yang I Li Luis Sanchez-Pulido Wilfried Haerty Chris P Ponting

Genome Res 2015 Jan;25(1):1-13

MRC Functional Genomics Unit, Department of Physiology, Anatomy and Genetics, University of Oxford, Oxford OX1 3PT, United Kingdom;

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January 2015

The genomic substrate for adaptive radiation in African cichlid fish.

Authors:

David Brawand Catherine E Wagner Yang I Li Milan Malinsky Irene Keller Shaohua Fan Oleg Simakov Alvin Y Ng Zhi Wei Lim Etienne Bezault Jason Turner-Maier Jeremy Johnson Rosa Alcazar Hyun Ji Noh Pamela Russell Bronwen Aken Jessica Alföldi Chris Amemiya Naoual Azzouzi Jean-François Baroiller Frederique Barloy-Hubler Aaron Berlin Ryan Bloomquist Karen L Carleton Matthew A Conte Helena D'Cotta Orly Eshel Leslie Gaffney Francis Galibert Hugo F Gante Sante Gnerre Lucie Greuter Richard Guyon Natalie S Haddad Wilfried Haerty Rayna M Harris Hans A Hofmann Thibaut Hourlier Gideon Hulata David B Jaffe Marcia Lara Alison P Lee Iain MacCallum Salome Mwaiko Masato Nikaido Hidenori Nishihara Catherine Ozouf-Costaz David J Penman Dariusz Przybylski Michaelle Rakotomanga Suzy C P Renn Filipe J Ribeiro Micha Ron Walter Salzburger Luis Sanchez-Pulido M Emilia Santos Steve Searle Ted Sharpe Ross Swofford Frederick J Tan Louise Williams Sarah Young Shuangye Yin Norihiro Okada Thomas D Kocher Eric A Miska Eric S Lander Byrappa Venkatesh Russell D Fernald Axel Meyer Chris P Ponting J Todd Streelman Kerstin Lindblad-Toh Ole Seehausen Federica Di Palma

Nature 2014 Sep 3;513(7518):375-381. Epub 2014 Sep 3.

Broad Institute of MIT and Harvard, Cambridge, Massachusetts 02142, USA.

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September 2014

Considerations when investigating lncRNA function in vivo.

Authors:

Andrew R Bassett Asifa Akhtar Denise P Barlow Adrian P Bird Neil Brockdorff Denis Duboule Anne Ephrussi Anne C Ferguson-Smith Thomas R Gingeras Wilfried Haerty Douglas R Higgs Eric A Miska Chris P Ponting

Elife 2014 Aug 14;3:e03058. Epub 2014 Aug 14.

Chris P Ponting is in the MRC Functional Genomics Unit, Department of Physiology, Anatomy and Genetics, University of Oxford, Oxford, United Kingdom; Wellcome Trust Sanger Institute, Cambridge, United Kingdom

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August 2014

No gene in the genome makes sense except in the light of evolution.

Authors:

Wilfried Haerty Chris P Ponting

Annu Rev Genomics Hum Genet 2014 24;15:71-92. Epub 2014 Apr 24.

MRC Functional Genomics Unit, Department of Physiology, Anatomy, and Genetics, University of Oxford, Oxford OX1 3PT, United Kingdom; email: ,

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May 2015

Increased substitution rates surrounding low-complexity regions within primate proteins.

Authors:

Carolyn Lenz Wilfried Haerty G Brian Golding

Genome Biol Evol 2014 Mar;6(3):655-65

Department of Biology, McMaster University, Hamilton, Ontario, Canada.

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March 2014

Mutations within lncRNAs are effectively selected against in fruitfly but not in human.

Authors:

Wilfried Haerty Chris P Ponting

Genome Biol 2013 May 27;14(5):R49. Epub 2013 May 27.

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May 2013

The African coelacanth genome provides insights into tetrapod evolution.

Authors:

Chris T Amemiya Jessica Alföldi Alison P Lee Shaohua Fan Hervé Philippe Iain Maccallum Ingo Braasch Tereza Manousaki Igor Schneider Nicolas Rohner Chris Organ Domitille Chalopin Jeramiah J Smith Mark Robinson Rosemary A Dorrington Marco Gerdol Bronwen Aken Maria Assunta Biscotti Marco Barucca Denis Baurain Aaron M Berlin Gregory L Blatch Francesco Buonocore Thorsten Burmester Michael S Campbell Adriana Canapa John P Cannon Alan Christoffels Gianluca De Moro Adrienne L Edkins Lin Fan Anna Maria Fausto Nathalie Feiner Mariko Forconi Junaid Gamieldien Sante Gnerre Andreas Gnirke Jared V Goldstone Wilfried Haerty Mark E Hahn Uljana Hesse Steve Hoffmann Jeremy Johnson Sibel I Karchner Shigehiro Kuraku Marcia Lara Joshua Z Levin Gary W Litman Evan Mauceli Tsutomu Miyake M Gail Mueller David R Nelson Anne Nitsche Ettore Olmo Tatsuya Ota Alberto Pallavicini Sumir Panji Barbara Picone Chris P Ponting Sonja J Prohaska Dariusz Przybylski Nil Ratan Saha Vydianathan Ravi Filipe J Ribeiro Tatjana Sauka-Spengler Giuseppe Scapigliati Stephen M J Searle Ted Sharpe Oleg Simakov Peter F Stadler John J Stegeman Kenta Sumiyama Diana Tabbaa Hakim Tafer Jason Turner-Maier Peter van Heusden Simon White Louise Williams Mark Yandell Henner Brinkmann Jean-Nicolas Volff Clifford J Tabin Neil Shubin Manfred Schartl David B Jaffe John H Postlethwait Byrappa Venkatesh Federica Di Palma Eric S Lander Axel Meyer Kerstin Lindblad-Toh

Nature 2013 Apr;496(7445):311-6

Molecular Genetics Program, Benaroya Research Institute, Seattle, Washington 98101, USA.

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April 2013

Rapid evolution of Beta-keratin genes contribute to phenotypic differences that distinguish turtles and birds from other reptiles.

Authors:

Yang I Li Lesheng Kong Chris P Ponting Wilfried Haerty

Genome Biol Evol 2013 ;5(5):923-33

Department of Physiology, Anatomy and Genetics, MRC Functional Genomics Unit, University of Oxford, United Kingdom.

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December 2013

The western painted turtle genome, a model for the evolution of extreme physiological adaptations in a slowly evolving lineage.

Authors:

H Bradley Shaffer Patrick Minx Daniel E Warren Andrew M Shedlock Robert C Thomson Nicole Valenzuela John Abramyan Chris T Amemiya Daleen Badenhorst Kyle K Biggar Glen M Borchert Christopher W Botka Rachel M Bowden Edward L Braun Anne M Bronikowski Benoit G Bruneau Leslie T Buck Blanche Capel Todd A Castoe Mike Czerwinski Kim D Delehaunty Scott V Edwards Catrina C Fronick Matthew K Fujita Lucinda Fulton Tina A Graves Richard E Green Wilfried Haerty Ramkumar Hariharan Omar Hernandez LaDeana W Hillier Alisha K Holloway Daniel Janes Fredric J Janzen Cyriac Kandoth Lesheng Kong A P Jason de Koning Yang Li Robert Literman Suzanne E McGaugh Lindsey Mork Michelle O'Laughlin Ryan T Paitz David D Pollock Chris P Ponting Srihari Radhakrishnan Brian J Raney Joy M Richman John St John Tonia Schwartz Arun Sethuraman Phillip Q Spinks Kenneth B Storey Nay Thane Tomas Vinar Laura M Zimmerman Wesley C Warren Elaine R Mardis Richard K Wilson

Genome Biol 2013 Mar 28;14(3):R28. Epub 2013 Mar 28.

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March 2013

Identification and properties of 1,119 candidate lincRNA loci in the Drosophila melanogaster genome.

Authors:

Robert S Young Ana C Marques Charlotte Tibbit Wilfried Haerty Andrew R Bassett Ji-Long Liu Chris P Ponting

Genome Biol Evol 2012 8;4(4):427-42. Epub 2012 Mar 8.

MRC Functional Genomics Unit, Department of Physiology, Anatomy and Genetics, University of Oxford, United Kingdom.

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July 2012

Is speciation accompanied by rapid evolution? Insights from comparing reproductive and nonreproductive transcriptomes in Drosophila.

Authors:

Santosh Jagadeeshan Wilfried Haerty Rama S Singh

Int J Evol Biol 2011 22;2011:595121. Epub 2011 Aug 22.

Department of Biology, McMaster University, Hamilton, ON, Canada L8S 4KI.

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November 2011

The LysR-type PcaQ protein regulates expression of a protocatechuate-inducible ABC-type transport system in Sinorhizobium meliloti.

Authors:

Allyson M MacLean Wilfried Haerty G Brian Golding Turlough M Finan

Microbiology (Reading) 2011 Sep 23;157(Pt 9):2522-2533. Epub 2011 Jun 23.

Center for Environmental Genomics, Department of Biology, McMaster University, Hamilton L8S 4K1, Canada.

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September 2011

Increased polymorphism near low-complexity sequences across the genomes of Plasmodium falciparum isolates.

Authors:

Wilfried Haerty G Brian Golding

Genome Biol Evol 2011 21;3:539-50. Epub 2011 May 21.

Department of Biology, McMaster University, Hamilton, Ontario, Canada.

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October 2011

Low-complexity sequences and single amino acid repeats: not just "junk" peptide sequences.

Authors:

Wilfried Haerty G Brian Golding

Genome 2010 Oct;53(10):753-62

Biology Department, McMaster University, Hamilton, ON, Canada.

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October 2010

Genome-wide evidence for selection acting on single amino acid repeats.

Authors:

Wilfried Haerty G Brian Golding

Genome Res 2010 Jun 7;20(6):755-60. Epub 2010 Jan 7.

Biology Department, McMaster University, Hamilton, Ontario L8S4L8, Canada.

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June 2010

Ontogeny and phylogeny: molecular signatures of selection, constraint, and temporal pleiotropy in the development of Drosophila.

Authors:

Carlo G Artieri Wilfried Haerty Rama S Singh

BMC Biol 2009 Jul 21;7:42. Epub 2009 Jul 21.

Department of Biology, McMaster University, Hamilton, Ontario, Canada.

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July 2009

Similar selective factors affect both between-gene and between-exon divergence in Drosophila.

Authors:

Wilfried Haerty Brian Golding

Mol Biol Evol 2009 Apr 15;26(4):859-66. Epub 2009 Jan 15.

Biology Department, McMaster University.

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April 2009

Comparative analysis of function and interaction of transcription factors in nematodes: extensive conservation of orthology coupled to rapid sequence evolution.

Authors:

Wilfried Haerty Carlo Artieri Navid Khezri Rama S Singh Bhagwati P Gupta

BMC Genomics 2008 Aug 27;9:399. Epub 2008 Aug 27.

Department of Biology, McMaster University, Hamilton, ON L8S 4K1, Canada.

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August 2008

Sexual selection and maintenance of sex: evidence from comparisons of rates of genomic accumulation of mutations and divergence of sex-related genes in sexual and hermaphroditic species of Caenorhabditis.

Authors:

Carlo G Artieri Wilfried Haerty Bhagwati P Gupta Rama S Singh

Mol Biol Evol 2008 May 14;25(5):972-9. Epub 2008 Feb 14.

Department of Biology, McMaster University, Hamilton, Ontario, Canada.

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May 2008

Evolution in the fast lane: rapidly evolving sex-related genes in Drosophila.

Authors:

Wilfried Haerty Santosh Jagadeeshan Rob J Kulathinal Alex Wong Kristipati Ravi Ram Laura K Sirot Lisa Levesque Carlo G Artieri Mariana F Wolfner Alberto Civetta Rama S Singh

Genetics 2007 Nov;177(3):1321-35

Department of Biology, McMaster University, Hamilton, Ontario L8S 4K1, Canada.

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November 2007

Association between levels of coding sequence divergence and gene misregulation in Drosophila male hybrids.

Authors:

Carlo G Artieri Wilfried Haerty Rama S Singh

J Mol Evol 2007 Dec 20;65(6):697-704. Epub 2007 Nov 20.

Department of Biology, McMaster University, Life Science Building 540, 1280 Main Street West, L8S 4K1 Hamilton, Ontario, Canada.

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December 2007

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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November 2007

Gene regulation divergence is a major contributor to the evolution of Dobzhansky-Muller incompatibilities between species of Drosophila.

Authors:

Wilfried Haerty Rama S Singh

Mol Biol Evol 2006 Sep 6;23(9):1707-14. Epub 2006 Jun 6.

Department of Biology, McMaster University, Hamilton, Ontario, Canada.

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September 2006

Publications by authors named "Wilfried Haerty"

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