Publications by authors named "Josep M Comeron"

26Publications

Support for the Dominance Theory in Transcriptomes.

Genetics 2018 10 21;210(2):703-718. Epub 2018 Aug 21.

Interdisciplinary Graduate Program in Genetics, University of Iowa, Iowa 52242.

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October 2018

Background selection as null hypothesis in population genomics: insights and challenges from studies.

Authors:
Josep M Comeron

Philos Trans R Soc Lond B Biol Sci 2017 Dec;372(1736)

Department of Biology, University of Iowa, Iowa City, IA 52242, USA

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December 2017

Predictive Models of Recombination Rate Variation across the Drosophila melanogaster Genome.

Genome Biol Evol 2016 09 2;8(8):2597-612. Epub 2016 Sep 2.

Department of Biology, University of Iowa Interdisciplinary Graduate Program in Genetics, University of Iowa

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September 2016

Background selection as baseline for nucleotide variation across the Drosophila genome.

Authors:
Josep M Comeron

PLoS Genet 2014 Jun 26;10(6):e1004434. Epub 2014 Jun 26.

Department of Biology, University of Iowa, Iowa City, Iowa, United States of America; Interdisciplinary Program in Genetics, University of Iowa, Iowa City, Iowa, United States of America.

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June 2014

The Drosophila early ovarian transcriptome provides insight to the molecular causes of recombination rate variation across genomes.

BMC Genomics 2013 Nov 15;14:794. Epub 2013 Nov 15.

Department of Biology, University of Iowa, Iowa City, Iowa, USA.

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November 2013

The many landscapes of recombination in Drosophila melanogaster.

PLoS Genet 2012 11;8(10):e1002905. Epub 2012 Oct 11.

Department of Biology, University of Iowa, Iowa City, Iowa, USA.

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March 2013

Evolutionary toxicogenomics: diversification of the Cyp12d1 and Cyp12d3 genes in Drosophila species.

J Mol Evol 2012 Jun 19;74(5-6):281-96. Epub 2012 Jul 19.

Department of Entomology, University of Illinois at Urbana-Champaign, Urbana, IL, USA.

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June 2012

Local effects of limited recombination: historical perspective and consequences for population estimates of adaptive evolution.

J Hered 2010 Mar-Apr;101 Suppl 1:S127-34

Department of Biology, University of Iowa, Iowa, IA 52242, USA.

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September 2010

Why are sex and recombination so common?

Ann N Y Acad Sci 2008 ;1133:26-43

Department of Biology, University of Iowa, Iowa City, IA 52242, USA.

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August 2008

Recurrent events of positive selection in independent Drosophila lineages at the spermatogenesis gene roughex.

Genetics 2008 Jun 27;179(2):1009-20. Epub 2008 May 27.

Department of Biology, University of Iowa, Iowa City, Iowa 52242, USA.

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June 2008

EST analysis of Ostreococcus lucimarinus, the most compact eukaryotic genome, shows an excess of introns in highly expressed genes.

PLoS One 2008 May 14;3(5):e2171. Epub 2008 May 14.

Interdisciplinary Program in Genetics, University of Iowa, Iowa, United States of America.

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May 2008

A new test for selection applied to codon usage in Drosophila simulans and D. mauritiana.

J Mol Evol 2008 Mar 21;66(3):224-31. Epub 2008 Feb 21.

Department of Biological Sciences, University of Iowa, Iowa City, IA 52242, USA.

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March 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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November 2007

Establishment of endolithic populations of extremophilic Cyanidiales (Rhodophyta).

BMC Evol Biol 2006 Oct 5;6:78. Epub 2006 Oct 5.

Department of Biological Sciences and Roy J, Carver Center for Comparative Genomics, University of Iowa, Iowa City, Iowa 52242, USA.

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October 2006

First exons and introns--a survey of GC content and gene structure in the human genome.

In Silico Biol 2006 ;6(3):237-42

Center for Bioinformatics and Computational Biology, The University of Iowa, Iowa City, IA 52242, USA.

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February 2007

Weak selection and recent mutational changes influence polymorphic synonymous mutations in humans.

Authors:
Josep M Comeron

Proc Natl Acad Sci U S A 2006 May 21;103(18):6940-5. Epub 2006 Apr 21.

Department of Biological Sciences, University of Iowa, 212 Biology Building, Iowa City, IA 52242, USA.

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May 2006

Intragenic Hill-Robertson interference influences selection intensity on synonymous mutations in Drosophila.

Mol Biol Evol 2005 Dec 24;22(12):2519-30. Epub 2005 Aug 24.

Department of Biological Sciences, University of Iowa, USA.

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December 2005

Intragenic spatial patterns of codon usage bias in prokaryotic and eukaryotic genomes.

Genetics 2004 Dec;168(4):2245-60

Department of Ecology and Evolution, University of Chicago, Chicago, Illinois 60637, USA.

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December 2004

Selective and mutational patterns associated with gene expression in humans: influences on synonymous composition and intron presence.

Authors:
Josep M Comeron

Genetics 2004 Jul;167(3):1293-304

Department of Biological Sciences, University of Iowa, Iowa City, Iowa 52242, USA.

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July 2004

A test of the CoHR motif associated with meiotic double-strand breaks in Saccharomyces cerevisiae.

EMBO Rep 2004 Jan;5(1):41-6

Department of Biological Sciences, University of Iowa, 204 Biology Building East, Iowa City, Iowa 52242, USA.

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January 2004

On the power to detect SNP/phenotype association in candidate quantitative trait loci genomic regions: a simulation study.

Pac Symp Biocomput 2003 :478-89

Department of Ecology and Evolution, University of Chicago, 1101 East 57th Street, Chicago, IL 60637, USA.

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August 2003

Synonymous mutations in the human dopamine receptor D2 (DRD2) affect mRNA stability and synthesis of the receptor.

Hum Mol Genet 2003 Feb;12(3):205-16

Schizophrenia Genetics Research Program, Department of Psychiatry, The University of Chicago, Jules F. Knapp Medical Research Center, Chicago, IL 60637, USA.

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February 2003

Intron presence-absence polymorphism in Drosophila driven by positive Darwinian selection.

Proc Natl Acad Sci U S A 2002 Jun;99(12):8121-6

Department of Ecology and Evolution, University of Chicago, Chicago, IL 60637, USA.

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June 2002

Population, evolutionary and genomic consequences of interference selection.

Genetics 2002 May;161(1):389-410

Department of Ecology and Evolution, University of Chicago, Chicago, Illinois 60637, USA.

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May 2002