Yujun Han

Yujun Han

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Yujun Han

Yujun Han

Publications by authors named "Yujun Han"

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31Publications

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Rapid identification of a candidate nicosulfuron sensitivity gene (Nss) in maize (Zea mays L.) via combining bulked segregant analysis and RNA-seq.

Theor Appl Genet 2019 May 16;132(5):1351-1361. Epub 2019 Jan 16.

Department of Crop, Soil and Environmental Science, Auburn University, Auburn, AL, 36849, USA.

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http://dx.doi.org/10.1007/s00122-019-03282-8DOI Listing
May 2019

The Intolerance of Regulatory Sequence to Genetic Variation Predicts Gene Dosage Sensitivity.

PLoS Genet 2015 Sep 2;11(9):e1005492. Epub 2015 Sep 2.

Institute for Genomic Medicine, Columbia University, New York, New York, United States of America; Center for Human Genome Variation, Duke University, School of Medicine, Durham, North Carolina, United States of America.

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http://search.proquest.com/openview/8c0e2ff44fdb4211db064b3c
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http://dx.plos.org/10.1371/journal.pgen.1005492
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http://dx.doi.org/10.1371/journal.pgen.1005492DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4557908PMC
September 2015

Incorporating Functional Information in Tests of Excess De Novo Mutational Load.

Am J Hum Genet 2015 Aug 30;97(2):272-83. Epub 2015 Jul 30.

Department of Biostatistics and Bioinformatics, Duke University, Durham, NC 27710, USA. Electronic address:

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http://dx.doi.org/10.1016/j.ajhg.2015.06.013DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4573447PMC
August 2015

A Bayesian framework for de novo mutation calling in parents-offspring trios.

Bioinformatics 2015 May 21;31(9):1375-81. Epub 2014 Dec 21.

Department of Molecular Physiology and Biophysics, Vanderbilt University, Nashville, TN, USA, Quantitative Biomedical Research Center, University of Texas Southwestern Medical Center, Dallas, TX, USA, Center for Quantitative Sciences, Vanderbilt University, Nashville, TN, USA,Center for Human Genetic Variation, Duke University, Durham, NC, USA, School of Computer Science and Technology, Harbin Institute of Technology, Harbin, China and Department of Pediatrics, University of Pittsburgh, Pittsburgh, PA, USA Department of Molecular Physiology and Biophysics, Vanderbilt University, Nashville, TN, USA, Quantitative Biomedical Research Center, University of Texas Southwestern Medical Center, Dallas, TX, USA, Center for Quantitative Sciences, Vanderbilt University, Nashville, TN, USA,Center for Human Genetic Variation, Duke University, Durham, NC, USA, School of Computer Science and Technology, Harbin Institute of Technology, Harbin, China and Department of Pediatrics, University of Pittsburgh, Pittsburgh, PA, USA.

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http://bioinformatics.oxfordjournals.org/content/early/2014/
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http://bioinformatics.oxfordjournals.org/content/early/2015/
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http://bioinformatics.oxfordjournals.org/cgi/doi/10.1093/bio
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http://dx.doi.org/10.1093/bioinformatics/btu839DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4410659PMC
May 2015

Utilizing population controls in rare-variant case-parent association tests.

Am J Hum Genet 2014 Jun 15;94(6):845-53. Epub 2014 May 15.

Department of Biostatistics and Bioinformatics, Duke University, Durham, NC 27710, USA; Center for Human Genome Variation, Duke University School of Medicine, Durham, NC 27708, USA. Electronic address:

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http://dx.doi.org/10.1016/j.ajhg.2014.04.014DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4121482PMC
June 2014

De novo mutations in epileptic encephalopathies.

Nature 2013 Sep 11;501(7466):217-21. Epub 2013 Aug 11.

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http://dx.doi.org/10.1038/nature12439DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3773011PMC
September 2013

Comparison of class 2 transposable elements at superfamily resolution reveals conserved and distinct features in cereal grass genomes.

BMC Genomics 2013 Jan 31;14:71. Epub 2013 Jan 31.

Department of Plant Biology, University of Georgia, Athens, GA 30602, USA.

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http://dx.doi.org/10.1186/1471-2164-14-71DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3579700PMC
January 2013

MITE-Hunter: a program for discovering miniature inverted-repeat transposable elements from genomic sequences.

Nucleic Acids Res 2010 Dec 29;38(22):e199. Epub 2010 Sep 29.

Department of Plant Biology, University of Georgia, Athens, GA 30602, USA.

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https://academic.oup.com/nar/article-lookup/doi/10.1093/nar/
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http://dx.doi.org/10.1093/nar/gkq862DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3001096PMC
December 2010

The B73 maize genome: complexity, diversity, and dynamics.

Authors:
Patrick S Schnable Doreen Ware Robert S Fulton Joshua C Stein Fusheng Wei Shiran Pasternak Chengzhi Liang Jianwei Zhang Lucinda Fulton Tina A Graves Patrick Minx Amy Denise Reily Laura Courtney Scott S Kruchowski Chad Tomlinson Cindy Strong Kim Delehaunty Catrina Fronick Bill Courtney Susan M Rock Eddie Belter Feiyu Du Kyung Kim Rachel M Abbott Marc Cotton Andy Levy Pamela Marchetto Kerri Ochoa Stephanie M Jackson Barbara Gillam Weizu Chen Le Yan Jamey Higginbotham Marco Cardenas Jason Waligorski Elizabeth Applebaum Lindsey Phelps Jason Falcone Krishna Kanchi Thynn Thane Adam Scimone Nay Thane Jessica Henke Tom Wang Jessica Ruppert Neha Shah Kelsi Rotter Jennifer Hodges Elizabeth Ingenthron Matt Cordes Sara Kohlberg Jennifer Sgro Brandon Delgado Kelly Mead Asif Chinwalla Shawn Leonard Kevin Crouse Kristi Collura Dave Kudrna Jennifer Currie Ruifeng He Angelina Angelova Shanmugam Rajasekar Teri Mueller Rene Lomeli Gabriel Scara Ara Ko Krista Delaney Marina Wissotski Georgina Lopez David Campos Michele Braidotti Elizabeth Ashley Wolfgang Golser HyeRan Kim Seunghee Lee Jinke Lin Zeljko Dujmic Woojin Kim Jayson Talag Andrea Zuccolo Chuanzhu Fan Aswathy Sebastian Melissa Kramer Lori Spiegel Lidia Nascimento Theresa Zutavern Beth Miller Claude Ambroise Stephanie Muller Will Spooner Apurva Narechania Liya Ren Sharon Wei Sunita Kumari Ben Faga Michael J Levy Linda McMahan Peter Van Buren Matthew W Vaughn Kai Ying Cheng-Ting Yeh Scott J Emrich Yi Jia Ananth Kalyanaraman An-Ping Hsia W Brad Barbazuk Regina S Baucom Thomas P Brutnell Nicholas C Carpita Cristian Chaparro Jer-Ming Chia Jean-Marc Deragon James C Estill Yan Fu Jeffrey A Jeddeloh Yujun Han Hyeran Lee Pinghua Li Damon R Lisch Sanzhen Liu Zhijie Liu Dawn Holligan Nagel Maureen C McCann Phillip SanMiguel Alan M Myers Dan Nettleton John Nguyen Bryan W Penning Lalit Ponnala Kevin L Schneider David C Schwartz Anupma Sharma Carol Soderlund Nathan M Springer Qi Sun Hao Wang Michael Waterman Richard Westerman Thomas K Wolfgruber Lixing Yang Yeisoo Yu Lifang Zhang Shiguo Zhou Qihui Zhu Jeffrey L Bennetzen R Kelly Dawe Jiming Jiang Ning Jiang Gernot G Presting Susan R Wessler Srinivas Aluru Robert A Martienssen Sandra W Clifton W Richard McCombie Rod A Wing Richard K Wilson

Science 2009 Nov;326(5956):1112-5

Center for Plant Genomics, Iowa State University, Ames, IA 50011, USA.

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http://www.dawelab.org/wp-content/uploads/2011/03/schnable-2
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http://www.sciencemag.org/cgi/doi/10.1126/science.1178534
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http://dx.doi.org/10.1126/science.1178534DOI Listing
November 2009

TARGeT: a web-based pipeline for retrieving and characterizing gene and transposable element families from genomic sequences.

Nucleic Acids Res 2009 Jun 8;37(11):e78. Epub 2009 May 8.

Department of Plant Biology, University of Georgia, Athens, GA 30602, USA.

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http://dx.doi.org/10.1093/nar/gkp295DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2699529PMC
June 2009

ReAS: Recovery of ancestral sequences for transposable elements from the unassembled reads of a whole genome shotgun.

PLoS Comput Biol 2005 Sep 23;1(4):e43. Epub 2005 Sep 23.

James D. Watson Institute of Genome Sciences of Zhejiang University, Hangzhou, China.

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http://dx.doi.org/10.1371/journal.pcbi.0010043DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1232128PMC
September 2005

Applications of the double-barreled data in whole-genome shotgun sequence assembly and analysis.

Sci China C Life Sci 2005 Jun;48(3):300-6

College of Life Sciences, Peking University, Beijing 100871, China.

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http://dx.doi.org/10.1007/bf03183625DOI Listing
June 2005

The Genomes of Oryza sativa: a history of duplications.

PLoS Biol 2005 Feb 1;3(2):e38. Epub 2005 Feb 1.

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

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http://dx.doi.org/10.1371/journal.pbio.0030038DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC546038PMC
February 2005

Evolution and variation of the SARS-CoV genome.

Genomics Proteomics Bioinformatics 2003 Aug;1(3):216-25

College of Life Sciences, Peking University, Beijing 100871, China.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5172238PMC
http://dx.doi.org/10.1016/s1672-0229(03)01027-1DOI Listing
August 2003

Genome organization of the SARS-CoV.

Genomics Proteomics Bioinformatics 2003 Aug;1(3):226-35

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

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5172239PMC
http://dx.doi.org/10.1016/s1672-0229(03)01028-3DOI Listing
August 2003

RePS: a sequence assembler that masks exact repeats identified from the shotgun data.

Genome Res 2002 May;12(5):824-31

Hangzhou Genomics Institute, Institute of Bioinformatics of Zhejiang University, Key Laboratory of Bioinformatics of Zhejiang Province, Hangzhou 310007, China.

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http://dx.doi.org/10.1101/gr.165102DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC186573PMC
May 2002