Corbin D Jones

Corbin D Jones

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Corbin D Jones

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Combinations of DIPs and Dprs control organization of olfactory receptor neuron terminals in Drosophila.

PLoS Genet 2018 08 13;14(8):e1007560. Epub 2018 Aug 13.

Department of Biology, Duke University, Durham, NC, United States of America.

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http://dx.doi.org/10.1371/journal.pgen.1007560DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6107282PMC
August 2018

FMLRC: Hybrid long read error correction using an FM-index.

BMC Bioinformatics 2018 02 9;19(1):50. Epub 2018 Feb 9.

Department of Biology and Integrative Program for Biological and Genome Sciences, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.

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http://dx.doi.org/10.1186/s12859-018-2051-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5807796PMC
February 2018

Alterations in airway microbiota in patients with PaO2/FiO2 ratio ≤ 300 after burn and inhalation injury.

PLoS One 2017 30;12(3):e0173848. Epub 2017 Mar 30.

National Health and Environmental Effects Research Laboratory, U.S. Environmental Protection Agency, Chapel Hill, North Carolina, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0173848PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5373524PMC
August 2017

Plastic potential: how the phenotypes and adaptations of pathogens are influenced by microbial interactions within plants.

Curr Opin Plant Biol 2017 08 12;38:78-83. Epub 2017 May 12.

Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA; Curriculum for the Environment and Ecology, University of North Carolina, Chapel Hill, NC, USA.

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http://dx.doi.org/10.1016/j.pbi.2017.04.014DOI Listing
August 2017

A scalable and memory-efficient algorithm for de novo transcriptome assembly of non-model organisms.

BMC Genomics 2017 05 24;18(Suppl 4):387. Epub 2017 May 24.

Department of Entomology, Texas A&M University, College Station, 77843, TX, USA.

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http://dx.doi.org/10.1186/s12864-017-3735-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5461550PMC
May 2017

Selective single cell isolation for genomics using microraft arrays.

Nucleic Acids Res 2016 09 16;44(17):8292-301. Epub 2016 Aug 16.

Curriculum in Bioinformatics and Computational Biology, The University of North Carolina at Chapel Hill, Chapel Hill, NC 27599-3280, USA Department of Biology, Campus Box 3280, Coker Hall, UNC-Chapel Hill, Chapel Hill, NC 27599-3280, USA Department of Surgery, The University of North Carolina at Chapel Hill, Chapel Hill, NC 27599-3280, USA

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5041489PMC
http://dx.doi.org/10.1093/nar/gkw700DOI Listing
September 2016

Comprehensive Molecular Characterization of Papillary Renal-Cell Carcinoma.

Authors:
W Marston Linehan Paul T Spellman Christopher J Ricketts Chad J Creighton Suzanne S Fei Caleb Davis David A Wheeler Bradley A Murray Laura Schmidt Cathy D Vocke Myron Peto Abu Amar M Al Mamun Eve Shinbrot Anurag Sethi Samira Brooks W Kimryn Rathmell Angela N Brooks Katherine A Hoadley A Gordon Robertson Denise Brooks Reanne Bowlby Sara Sadeghi Hui Shen Daniel J Weisenberger Moiz Bootwalla Stephen B Baylin Peter W Laird Andrew D Cherniack Gordon Saksena Scott Haake Jun Li Han Liang Yiling Lu Gordon B Mills Rehan Akbani Mark D M Leiserson Benjamin J Raphael Pavana Anur Donald Bottaro Laurence Albiges Nandita Barnabas Toni K Choueiri Bogdan Czerniak Andrew K Godwin A Ari Hakimi Thai H Ho James Hsieh Michael Ittmann William Y Kim Bhavani Krishnan Maria J Merino Kenna R Mills Shaw Victor E Reuter Ed Reznik Carl S Shelley Brian Shuch Sabina Signoretti Ramaprasad Srinivasan Pheroze Tamboli George Thomas Satish Tickoo Kenneth Burnett Daniel Crain Johanna Gardner Kevin Lau David Mallery Scott Morris Joseph D Paulauskis Robert J Penny Candace Shelton W Troy Shelton Mark Sherman Eric Thompson Peggy Yena Melissa T Avedon Jay Bowen Julie M Gastier-Foster Mark Gerken Kristen M Leraas Tara M Lichtenberg Nilsa C Ramirez Tracie Santos Lisa Wise Erik Zmuda John A Demchok Ina Felau Carolyn M Hutter Margi Sheth Heidi J Sofia Roy Tarnuzzer Zhining Wang Liming Yang Jean C Zenklusen Jiashan Zhang Brenda Ayala Julien Baboud Sudha Chudamani Jia Liu Laxmi Lolla Rashi Naresh Todd Pihl Qiang Sun Yunhu Wan Ye Wu Adrian Ally Miruna Balasundaram Saianand Balu Rameen Beroukhim Tom Bodenheimer Christian Buhay Yaron S N Butterfield Rebecca Carlsen Scott L Carter Hsu Chao Eric Chuah Amanda Clarke Kyle R Covington Mahmoud Dahdouli Ninad Dewal Noreen Dhalla Harsha V Doddapaneni Jennifer A Drummond Stacey B Gabriel Richard A Gibbs Ranabir Guin Walker Hale Alicia Hawes D Neil Hayes Robert A Holt Alan P Hoyle Stuart R Jefferys Steven J M Jones Corbin D Jones Divya Kalra Christie Kovar Lora Lewis Jie Li Yussanne Ma Marco A Marra Michael Mayo Shaowu Meng Matthew Meyerson Piotr A Mieczkowski Richard A Moore Donna Morton Lisle E Mose Andrew J Mungall Donna Muzny Joel S Parker Charles M Perou Jeffrey Roach Jacqueline E Schein Steven E Schumacher Yan Shi Janae V Simons Payal Sipahimalani Tara Skelly Matthew G Soloway Carrie Sougnez Angela Tam Donghui Tan Nina Thiessen Umadevi Veluvolu Min Wang Matthew D Wilkerson Tina Wong Junyuan Wu Liu Xi Jane Zhou Jason Bedford Fengju Chen Yao Fu Mark Gerstein David Haussler Katayoon Kasaian Phillip Lai Shiyun Ling Amie Radenbaugh David Van Den Berg John N Weinstein Jingchun Zhu Monique Albert Iakovina Alexopoulou Jeremiah J Andersen J Todd Auman John Bartlett Sheldon Bastacky Julie Bergsten Michael L Blute Lori Boice Roni J Bollag Jeff Boyd Erik Castle Ying-Bei Chen John C Cheville Erin Curley Benjamin Davies April DeVolk Rajiv Dhir Laura Dike John Eckman Jay Engel Jodi Harr Ronald Hrebinko Mei Huang Lori Huelsenbeck-Dill Mary Iacocca Bruce Jacobs Michael Lobis Jodi K Maranchie Scott McMeekin Jerome Myers Joel Nelson Jeremy Parfitt Anil Parwani Nicholas Petrelli Brenda Rabeno Somak Roy Andrew L Salner Joel Slaton Melissa Stanton R Houston Thompson Leigh Thorne Kelinda Tucker Paul M Weinberger Cynthia Winemiller Leigh Anne Zach Rosemary Zuna

A Functionally Conserved Gene Regulatory Network Module Governing Olfactory Neuron Diversity.

PLoS Genet 2016 Jan 14;12(1):e1005780. Epub 2016 Jan 14.

Department of Biology, Duke University, Durham, North Carolina, United States of America.

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http://dx.doi.org/10.1371/journal.pgen.1005780DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4713227PMC
January 2016

PLANT MICROBIOME. Salicylic acid modulates colonization of the root microbiome by specific bacterial taxa.

Science 2015 Aug 16;349(6250):860-4. Epub 2015 Jul 16.

Department of Biology, University of North Carolina, Chapel Hill, NC 27599-3280, USA. Howard Hughes Medical Institute, University of North Carolina, Chapel Hill, NC 27599-3280, USA. Curriculum in Bioinformatics and Computational Biology, University of North Carolina, Chapel Hill, NC 27599-3280, USA. Curriculum in Genetics and Molecular Biology, University of North Carolina, Chapel Hill, NC 27599-3280, USA. Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, NC 27599-3280, USA. Department of Microbiology and Immunology, University of North Carolina, Chapel Hill, NC 27599-3280, USA.

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http://dx.doi.org/10.1126/science.aaa8764DOI Listing
August 2015

CIB1 depletion impairs cell survival and tumor growth in triple-negative breast cancer.

Breast Cancer Res Treat 2015 Jul 24;152(2):337-46. Epub 2015 Jun 24.

Department of Biochemistry and Biophysics, University of North Carolina, 120 Mason Farm Rd Ste 3010, Chapel Hill, NC, 27599, USA.

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http://dx.doi.org/10.1007/s10549-015-3458-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4516161PMC
July 2015

Comprehensive, Integrative Genomic Analysis of Diffuse Lower-Grade Gliomas.

Authors:
Daniel J Brat Roel G W Verhaak Kenneth D Aldape W K Alfred Yung Sofie R Salama Lee A D Cooper Esther Rheinbay C Ryan Miller Mark Vitucci Olena Morozova A Gordon Robertson Houtan Noushmehr Peter W Laird Andrew D Cherniack Rehan Akbani Jason T Huse Giovanni Ciriello Laila M Poisson Jill S Barnholtz-Sloan Mitchel S Berger Cameron Brennan Rivka R Colen Howard Colman Adam E Flanders Caterina Giannini Mia Grifford Antonio Iavarone Rajan Jain Isaac Joseph Jaegil Kim Katayoon Kasaian Tom Mikkelsen Bradley A Murray Brian Patrick O'Neill Lior Pachter Donald W Parsons Carrie Sougnez Erik P Sulman Scott R Vandenberg Erwin G Van Meir Andreas von Deimling Hailei Zhang Daniel Crain Kevin Lau David Mallery Scott Morris Joseph Paulauskis Robert Penny Troy Shelton Mark Sherman Peggy Yena Aaron Black Jay Bowen Katie Dicostanzo Julie Gastier-Foster Kristen M Leraas Tara M Lichtenberg Christopher R Pierson Nilsa C Ramirez Cynthia Taylor Stephanie Weaver Lisa Wise Erik Zmuda Tanja Davidsen John A Demchok Greg Eley Martin L Ferguson Carolyn M Hutter Kenna R Mills Shaw Bradley A Ozenberger Margi Sheth Heidi J Sofia Roy Tarnuzzer Zhining Wang Liming Yang Jean Claude Zenklusen Brenda Ayala Julien Baboud Sudha Chudamani Mark A Jensen Jia Liu Todd Pihl Rohini Raman Yunhu Wan Ye Wu Adrian Ally J Todd Auman Miruna Balasundaram Saianand Balu Stephen B Baylin Rameen Beroukhim Moiz S Bootwalla Reanne Bowlby Christopher A Bristow Denise Brooks Yaron Butterfield Rebecca Carlsen Scott Carter Lynda Chin Andy Chu Eric Chuah Kristian Cibulskis Amanda Clarke Simon G Coetzee Noreen Dhalla Tim Fennell Sheila Fisher Stacey Gabriel Gad Getz Richard Gibbs Ranabir Guin Angela Hadjipanayis D Neil Hayes Toshinori Hinoue Katherine Hoadley Robert A Holt Alan P Hoyle Stuart R Jefferys Steven Jones Corbin D Jones Raju Kucherlapati Phillip H Lai Eric Lander Semin Lee Lee Lichtenstein Yussanne Ma Dennis T Maglinte Harshad S Mahadeshwar Marco A Marra Michael Mayo Shaowu Meng Matthew L Meyerson Piotr A Mieczkowski Richard A Moore Lisle E Mose Andrew J Mungall Angeliki Pantazi Michael Parfenov Peter J Park Joel S Parker Charles M Perou Alexei Protopopov Xiaojia Ren Jeffrey Roach Thaís S Sabedot Jacqueline Schein Steven E Schumacher Jonathan G Seidman Sahil Seth Hui Shen Janae V Simons Payal Sipahimalani Matthew G Soloway Xingzhi Song Huandong Sun Barbara Tabak Angela Tam Donghui Tan Jiabin Tang Nina Thiessen Timothy Triche David J Van Den Berg Umadevi Veluvolu Scot Waring Daniel J Weisenberger Matthew D Wilkerson Tina Wong Junyuan Wu Liu Xi Andrew W Xu Lixing Yang Travis I Zack Jianhua Zhang B Arman Aksoy Harindra Arachchi Chris Benz Brady Bernard Daniel Carlin Juok Cho Daniel DiCara Scott Frazer Gregory N Fuller JianJiong Gao Nils Gehlenborg David Haussler David I Heiman Lisa Iype Anders Jacobsen Zhenlin Ju Sol Katzman Hoon Kim Theo Knijnenburg Richard Bailey Kreisberg Michael S Lawrence William Lee Kalle Leinonen Pei Lin Shiyun Ling Wenbin Liu Yingchun Liu Yuexin Liu Yiling Lu Gordon Mills Sam Ng Michael S Noble Evan Paull Arvind Rao Sheila Reynolds Gordon Saksena Zack Sanborn Chris Sander Nikolaus Schultz Yasin Senbabaoglu Ronglai Shen Ilya Shmulevich Rileen Sinha Josh Stuart S Onur Sumer Yichao Sun Natalie Tasman Barry S Taylor Doug Voet Nils Weinhold John N Weinstein Da Yang Kosuke Yoshihara Siyuan Zheng Wei Zhang Lihua Zou Ty Abel Sara Sadeghi Mark L Cohen Jenny Eschbacher Eyas M Hattab Aditya Raghunathan Matthew J Schniederjan Dina Aziz Gene Barnett Wendi Barrett Darell D Bigner Lori Boice Cathy Brewer Chiara Calatozzolo Benito Campos Carlos Gilberto Carlotti Timothy A Chan Lucia Cuppini Erin Curley Stefania Cuzzubbo Karen Devine Francesco DiMeco Rebecca Duell J Bradley Elder Ashley Fehrenbach Gaetano Finocchiaro William Friedman Jordonna Fulop Johanna Gardner Beth Hermes Christel Herold-Mende Christine Jungk Ady Kendler Norman L Lehman Eric Lipp Ouida Liu Randy Mandt Mary McGraw Roger Mclendon Christopher McPherson Luciano Neder Phuong Nguyen Ardene Noss Raffaele Nunziata Quinn T Ostrom Cheryl Palmer Alessandro Perin Bianca Pollo Alexander Potapov Olga Potapova W Kimryn Rathmell Daniil Rotin Lisa Scarpace Cathy Schilero Kelly Senecal Kristen Shimmel Vsevolod Shurkhay Suzanne Sifri Rosy Singh Andrew E Sloan Kathy Smolenski Susan M Staugaitis Ruth Steele Leigh Thorne Daniela P C Tirapelli Andreas Unterberg Mahitha Vallurupalli Yun Wang Ronald Warnick Felicia Williams Yingli Wolinsky Sue Bell Mara Rosenberg Chip Stewart Franklin Huang Jonna L Grimsby Amie J Radenbaugh Jianan Zhang
June 2015

Evolutionary genetics: you are what you evolve to eat.

Curr Biol 2015 Apr;25(8):R341-4

Department of Biology, University of North Carolina at Chapel Hill & Carolina Center for Genome Sciences, 120 South Rd Chapel Hill, NC, 25799-3280, USA.

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http://dx.doi.org/10.1016/j.cub.2015.01.044DOI Listing
April 2015

Hepatitis C Virus (HCV) NS3 sequence diversity and antiviral resistance-associated variant frequency in HCV/HIV coinfection.

Antimicrob Agents Chemother 2014 Oct 4;58(10):6079-92. Epub 2014 Aug 4.

UNC Center for AIDS Research, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA Division of Infectious Diseases, Department of Medicine, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA Lineberger Comprehensive Cancer Center, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA

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http://dx.doi.org/10.1128/AAC.03466-14DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4187920PMC
October 2014

MT-Toolbox: improved amplicon sequencing using molecule tags.

BMC Bioinformatics 2014 Aug 22;15:284. Epub 2014 Aug 22.

Curriculum in Bioinformatics and Computational Biology, University of North Carolina, Chapel Hill 27599, USA.

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http://dx.doi.org/10.1186/1471-2105-15-284DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4153912PMC
August 2014

Parallel geographic variation in Drosophila melanogaster.

Genetics 2014 May 7;197(1):361-73. Epub 2014 Mar 7.

Department of Biology, University of North Carolina, Chapel Hill, North Carolina 27599.

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http://dx.doi.org/10.1534/genetics.114.161463DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4012493PMC
May 2014

De novo ORFs in Drosophila are important to organismal fitness and evolved rapidly from previously non-coding sequences.

PLoS Genet 2013 17;9(10):e1003860. Epub 2013 Oct 17.

Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America ; Department of Biology, University of Maryland at College Park, College Park, Maryland, United States of America.

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http://dx.doi.org/10.1371/journal.pgen.1003860DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3798262PMC
March 2014

Origin and spread of de novo genes in Drosophila melanogaster populations.

Science 2014 Feb 23;343(6172):769-72. Epub 2014 Jan 23.

Department of Evolution and Ecology, University of California, Davis, CA 95616, USA.

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http://dx.doi.org/10.1126/science.1248286DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4391638PMC
February 2014

Variable suites of non-effector genes are co-regulated in the type III secretion virulence regulon across the Pseudomonas syringae phylogeny.

PLoS Pathog 2014 Jan 2;10(1):e1003807. Epub 2014 Jan 2.

Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America ; Curriculum in Genetics and Molecular Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America.

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http://dx.doi.org/10.1371/journal.ppat.1003807DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3879358PMC
January 2014

Two rapidly evolving genes contribute to male fitness in Drosophila.

J Mol Evol 2013 Dec 13;77(5-6):246-59. Epub 2013 Nov 13.

Department of Biology, The University of North Carolina at Chapel Hill, CB# 3280, Coker Hall, Chapel Hill, NC, 27599-3280, USA,

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http://dx.doi.org/10.1007/s00239-013-9594-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3880551PMC
December 2013

A locus in Drosophila sechellia affecting tolerance of a host plant toxin.

Genetics 2013 Nov 13;195(3):1063-75. Epub 2013 Sep 13.

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

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http://dx.doi.org/10.1534/genetics.113.154773DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3813837PMC
November 2013

Suppressor analysis reveals a role for SecY in the SecA2-dependent protein export pathway of Mycobacteria.

J Bacteriol 2013 Oct 2;195(19):4456-65. Epub 2013 Aug 2.

Department of Microbiology and Immunology, School of Medicine, University of North Carolina, Chapel Hill, North Carolina, USA.

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http://dx.doi.org/10.1128/JB.00630-13DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3807457PMC
October 2013

Practical innovations for high-throughput amplicon sequencing.

Nat Methods 2013 Oct 1;10(10):999-1002. Epub 2013 Sep 1.

1] Department of Biology, University of North Carolina, Chapel Hill, North Carolina, USA. [2] Curriculum in Genetics and Molecular Biology, University of North Carolina, Chapel Hill, North Carolina, USA. [3].

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http://dx.doi.org/10.1038/nmeth.2634DOI Listing
October 2013

Phylogeny of Toll-like receptor signaling: adapting the innate response.

PLoS One 2013 11;8(1):e54156. Epub 2013 Jan 11.

Research Computing Center, University of North Carolina, Chapel Hill, North Carolina, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0054156PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3543326PMC
July 2013

A robust method for transcript quantification with RNA-seq data.

J Comput Biol 2013 Mar;20(3):167-87

Department of Computer Science, University of Kentucky , Lexington, KY 40506, USA.

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http://dx.doi.org/10.1089/cmb.2012.0230DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3590898PMC
March 2013

Evolution of an MCM complex in flies that promotes meiotic crossovers by blocking BLM helicase.

Science 2012 Dec;338(6112):1363-5

Curriculum in Genetics and Molecular Biology, University of North Carolina, Chapel Hill, NC 27599, USA.

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http://dx.doi.org/10.1126/science.1228190DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3599781PMC
December 2012

Relaxed genetic constraint is ancestral to the evolution of phenotypic plasticity.

Integr Comp Biol 2012 Jul 23;52(1):16-30. Epub 2012 Apr 23.

Department of Biology, University of North Carolina, Chapel Hill, NC 27599-3280, USA.

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http://dx.doi.org/10.1093/icb/ics049DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3381942PMC
July 2012

Next-generation mapping of complex traits with phenotype-based selection and introgression.

Genetics 2011 Dec 21;189(4):1203-9. Epub 2011 Sep 21.

Department of Biology and Carolina Center for the Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA.

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http://www.genetics.org/content/genetics/189/4/1203.full.pdf
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http://www.genetics.org/content/genetics/early/2011/09/19/ge
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http://www.genetics.org/cgi/doi/10.1534/genetics.111.129445
Publisher Site
http://dx.doi.org/10.1534/genetics.111.129445DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3241405PMC
December 2011

Accurate sampling and deep sequencing of the HIV-1 protease gene using a Primer ID.

Proc Natl Acad Sci U S A 2011 Dec 30;108(50):20166-71. Epub 2011 Nov 30.

Department of Biology, Lineberger Comprehensive Cancer Center, University of North Carolina Center for AIDS Research, Carolina Center for Genome Sciences, Chapel Hill, NC 27599, USA.

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http://www.pnas.org/cgi/doi/10.1073/pnas.1110064108
Publisher Site
http://dx.doi.org/10.1073/pnas.1110064108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3250168PMC
December 2011

FDM: a graph-based statistical method to detect differential transcription using RNA-seq data.

Bioinformatics 2011 Oct 8;27(19):2633-40. Epub 2011 Aug 8.

Department of Computer Science, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.

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http://dx.doi.org/10.1093/bioinformatics/btr458DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3179659PMC
October 2011

Overcoming redundancy: an RNAi enhancer screen for morphogenesis genes in Caenorhabditis elegans.

Genetics 2011 Jul 28;188(3):549-64. Epub 2011 Apr 28.

Department of Biology, University of North Carolina, Chapel Hill, North Carolina 27599, USA.

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http://dx.doi.org/10.1534/genetics.111.129486DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3176534PMC
July 2011

Evolution of a signaling nexus constrained by protein interfaces and conformational States.

PLoS Comput Biol 2010 Oct 14;6(10):e1000962. Epub 2010 Oct 14.

R. L. Juliano Structural Bioinformatics Core Facility, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA.

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http://dx.doi.org/10.1371/journal.pcbi.1000962DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2954821PMC
October 2010

Prediction of protein-protein interfaces on G-protein beta subunits reveals a novel phospholipase C beta2 binding domain.

J Mol Biol 2009 Oct 30;392(4):1044-54. Epub 2009 Jul 30.

Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA.

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http://dx.doi.org/10.1016/j.jmb.2009.07.076DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2767172PMC
October 2009

Genetic changes accompanying the evolution of host specialization in Drosophila sechellia.

Genetics 2009 Feb 24;181(2):721-36. Epub 2008 Nov 24.

Department of Biology and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA.

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http://dx.doi.org/10.1534/genetics.108.093419DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2644960PMC
February 2009

Patterns of amino acid evolution in the Drosophila ananassae chimeric gene, siren, parallel those of other Adh-derived chimeras.

Genetics 2008 Oct 9;180(2):1261-3. Epub 2008 Sep 9.

Department of Biology and Carolina Center for the Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA.

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http://www.genetics.org/cgi/doi/10.1534/genetics.108.090068
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http://dx.doi.org/10.1534/genetics.108.090068DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2567373PMC
October 2008

Evolution of gene expression in the Drosophila olfactory system.

Mol Biol Evol 2008 Jun 23;25(6):1081-92. Epub 2008 Feb 23.

Section of Evolution and Ecology, University of California, Davis, USA.

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http://dx.doi.org/10.1093/molbev/msn055DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3299402PMC
June 2008

Coordinated evolution of co-expressed gene clusters in the Drosophila transcriptome.

BMC Evol Biol 2008 Jan 7;8. Epub 2008 Jan 7.

Department of Biological Statistics and Computational Biology, Cornell University, Ithaca, NY 14853, USA.

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http://dx.doi.org/10.1186/1471-2148-8-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2266709PMC
January 2008

The tardigrade Hypsibius dujardini, a new model for studying the evolution of development.

Dev Biol 2007 Dec 6;312(2):545-59. Epub 2007 Oct 6.

Biology Department, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA.

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http://dx.doi.org/10.1016/j.ydbio.2007.09.055DOI Listing
December 2007

Extending assembly of short DNA sequences to handle error.

Bioinformatics 2007 Nov 24;23(21):2942-4. Epub 2007 Sep 24.

Department of Biology, University of Carolina-Chapel Hill, Chapel Hill, NC 27599, USA.

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http://dx.doi.org/10.1093/bioinformatics/btm451DOI Listing
November 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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http://dx.doi.org/10.1038/nature06341DOI Listing
November 2007

Evidence for de novo evolution of testis-expressed genes in the Drosophila yakuba/Drosophila erecta clade.

Genetics 2007 Jun 15;176(2):1131-7. Epub 2007 Apr 15.

Section of Evolution and Ecology, University of California, Davis, California 95616, USA.

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http://dx.doi.org/10.1534/genetics.106.069245DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1894579PMC
June 2007

Gene transposition as a cause of hybrid sterility in Drosophila.

Science 2006 Sep;313(5792):1448-50

Department of Biology, University of Rochester, Rochester, NY 14627, USA.

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http://dx.doi.org/10.1126/science.1128721DOI Listing
September 2006

Novel genes derived from noncoding DNA in Drosophila melanogaster are frequently X-linked and exhibit testis-biased expression.

Proc Natl Acad Sci U S A 2006 Jun 15;103(26):9935-9. Epub 2006 Jun 15.

Center for Population Biology, University of California-Davis, Davis, CA 95616, USA.

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http://www.pnas.org/cgi/doi/10.1073/pnas.0509809103
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http://dx.doi.org/10.1073/pnas.0509809103DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1502557PMC
June 2006

Parallel evolution of chimeric fusion genes.

Proc Natl Acad Sci U S A 2005 Aug 2;102(32):11373-8. Epub 2005 Aug 2.

Department of Biology and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, NC 27599, USA.

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http://dx.doi.org/10.1073/pnas.0503528102DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1183565PMC
August 2005

Origin and evolution of a chimeric fusion gene in Drosophila subobscura, D. madeirensis and D. guanche.

Genetics 2005 May 21;170(1):207-19. Epub 2005 Mar 21.

Center for Population Biology, University of California, Davis, 95616, USA.

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http://dx.doi.org/10.1534/genetics.104.037283DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1449717PMC
May 2005

The genetics of adaptation in Drosophila sechellia.

Authors:
Corbin D Jones

Genetica 2005 Feb;123(1-2):137-45

Department of Biology, Carolina Center for Genome Science, University of North Carolina, Chapel Hill, NC 27599, USA.

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February 2005

Molecular population genetics of male accessory gland proteins in the Drosophila simulans complex.

Genetics 2004 Jun;167(2):725-35

Center for Population Biology, University of California, Davis, 95616, USA.

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http://dx.doi.org/10.1534/genetics.103.020883DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1470896PMC
June 2004

Genomic effects of nucleotide substitutions in Drosophila simulans.

Genetics 2002 Dec;162(4):1753-61

Center for Population Biology, University of California, Davis, California 95616, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1462383PMC
December 2002