M
Matthew W. Vaughn
Researcher at University of Texas at Austin
Publications - 89
Citations - 11531
Matthew W. Vaughn is an academic researcher from University of Texas at Austin. The author has contributed to research in topics: DNA methylation & Gene. The author has an hindex of 33, co-authored 84 publications receiving 10553 citations. Previous affiliations of Matthew W. Vaughn include University of Illinois at Urbana–Champaign & Watson School of Biological Sciences.
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Journal ArticleDOI
The B73 Maize Genome: Complexity, Diversity, and Dynamics
Patrick S. Schnable,Doreen Ware,Robert S. Fulton,Joshua C. Stein,Fusheng Wei,Shiran Pasternak,Chengzhi Liang,Jianwei Zhang,Lucinda Fulton,Tina Graves,Patrick Minx,Amy Denise Reily,Laura Courtney,Scott Kruchowski,Chad Tomlinson,Cindy Strong,Kim D. Delehaunty,Catrina Fronick,Bill Courtney,Susan M. Rock,Eddie Belter,Feiyu Du,Kyung Kim,Rachel Abbott,Marc Cotton,Andrew 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 L. Kanchi,T. K. Thane,Adam Scimone,Nay Thane,Jessica Henke,Thomas J. Wang,Jessica Ruppert,Neha Shah,Kelsi Rotter,Jennifer S. Hodges,Elizabeth Ingenthron,Matt Cordes,Sara Kohlberg,Jennifer Sgro,Brandon Delgado,Kelly Mead,Asif T. 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,William 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,Scott J. Emrich,Yi Jia,Ananth Kalyanaraman,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,Hye-Ran Lee,Pinghua Li,Damon Lisch,Sanzhen Liu,Zhijie Liu,Dawn H. Nagel,Maureen C. McCann,Phillip SanMiguel,Alan M. Myers,Dan Nettleton,John D. Nguyen,Bryan W. Penning,Lalit Ponnala,Kevin L. Schneider,David C. Schwartz,Anupma Sharma,Carol Soderlund,Nathan M. Springer,Qi Sun,Hao Wang,Michael S. Waterman,Richard P. 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,Srinivas Aluru,Robert A. Martienssen,Sandra W. Clifton,W. Richard McCombie,Rod A. Wing,Richard K. Wilson +159 more
TL;DR: The sequence of the maize genome reveals it to be the most complex genome known to date and the correlation of methylation-poor regions with Mu transposon insertions and recombination and how uneven gene losses between duplicated regions were involved in returning an ancient allotetraploid to a genetically diploid state is reported.
Journal ArticleDOI
Role of transposable elements in heterochromatin and epigenetic control
Zachary B. Lippman,Anne Valérie Gendrel,Michael A. Black,Michael A. Black,Matthew W. Vaughn,Neilay Dedhia,W. Richard McCombie,Kimberly Lavine,Vivek Mittal,Bruce May,Kristin B. Kasschau,James C. Carrington,Rebecca W. Doerge,Vincent Colot,Robert A. Martienssen +14 more
TL;DR: Using microarray analysis, it is shown that heterochromatin in Arabidopsis is determined by transposable elements and related tandem repeats, under the control of the chromatin remodelling ATPase DDM1 (Decrease in DNA Methylation 1).
Journal ArticleDOI
Epigenetic Reprogramming and Small RNA Silencing of Transposable Elements in Pollen
R. K. Slotkin,Matthew W. Vaughn,Filipe Borges,Milos Tanurdzic,Jörg Becker,José A. Feijó,José A. Feijó,Robert A. Martienssen +7 more
TL;DR: A conserved role for reprogramming in germline companion cells, such as nurse cells in insects and vegetative nuclei in plants, is proposed to reveal intact TEs in the genome and regulate their activity in gametes.
Journal ArticleDOI
Comparative functional genomics of the fission yeasts
Nicholas Rhind,Zehua Chen,Moran Yassour,Moran Yassour,Dawn Thompson,Brian J. Haas,Naomi Habib,Ilan Wapinski,Ilan Wapinski,Sushmita Roy,Michael F. Lin,David I. Heiman,Sarah Young,Kanji Furuya,Yabin Guo,Alison L. Pidoux,Huei Mei Chen,Barbara Robbertse,Jonathan M. Goldberg,Keita Aoki,Elizabeth H. Bayne,Aaron M. Berlin,Christopher A. Desjardins,Edward Dobbs,Livio Dukaj,Lin Fan,Michael Fitzgerald,Courtney French,Sharvari Gujja,Klavs R. Hansen,Daniel Keifenheim,Joshua Z. Levin,Rebecca A. Mosher,Carolin A. Müller,Jenna Pfiffner,Margaret Priest,Carsten Russ,Agata Smialowska,Agata Smialowska,Peter Swoboda,Sean M. Sykes,Matthew W. Vaughn,Sonya Vengrova,Ryan J. Yoder,Qiandong Zeng,Robin C. Allshire,David C. Baulcombe,Bruce W. Birren,William Brown,Karl Ekwall,Karl Ekwall,Manolis Kellis,Janet Leatherwood,Henry L. Levin,Hanah Margalit,Robert A. Martienssen,Conrad A. Nieduszynski,Joseph W. Spatafora,Nir Friedman,Jacob Z. Dalgaard,Peter Baumann,Peter Baumann,Peter Baumann,Hironori Niki,Aviv Regev,Aviv Regev,Chad Nusbaum +66 more
TL;DR: Differences in gene content and regulation explain why, unlike the budding yeast of Saccharomycotina, fission yeasts cannot use ethanol as a primary carbon source and provide tools for investigation across the Schizosaccharomyces clade.
Journal ArticleDOI
The iPlant Collaborative: Cyberinfrastructure for Plant Biology.
Stephen A. Goff,Matthew W. Vaughn,Sheldon J. McKay,Eric Lyons,Ann E. Stapleton,Damian D. G. Gessler,Naim Matasci,Liya Wang,Matthew R. Hanlon,Andrew Lenards,Andy Muir,Nirav Merchant,Sonya Lowry,Stephen Mock,Matthew Helmke,Adam Kubach,Martha L. Narro,Nicole Hopkins,David A. Micklos,Uwe Hilgert,Michael Gonzales,Chris Jordan,Edwin Skidmore,Rion Dooley,John Cazes,Robert McLay,Zhenyuan Lu,Shiran Pasternak,Lars Koesterke,William H. Piel,Ruth Grene,Christos Noutsos,Karla C Gendler,X. Feng,Chunlao Tang,Monica Lent,Seung Jin Kim,Kristian Kvilekval,B.S. Manjunath,Val Tannen,Alexandros Stamatakis,Michael J. Sanderson,Stephen Welch,Karen Cranston,Pamela S. Soltis,D. E. Soltis,Brian C. O'Meara,Cécile Ané,Thomas P. Brutnell,Daniel J. Kleibenstein,Jeffery W. White,Jim Leebens-Mack,Michael J. Donoghue,Edgar P. Spalding,Christopher R. Myers,David K. Lowenthal,Brian J. Enquist,Brad Boyle,Ali Akoglu,Greg Andrews,Sudha Ram,Doreen Ware,Lincoln Stein,Dan Stanzione +63 more
TL;DR: These workshops teach researchers how to add bioinformatics tools and/or datasets into the iPlant cyberinfrastructure enabling plant scientists to perform complex analyses on large datasets without the need to master the command-line or high-performance computational services.