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Richard D. Hayes
Researcher at Lawrence Berkeley National Laboratory
Publications - 18
Citations - 7285
Richard D. Hayes is an academic researcher from Lawrence Berkeley National Laboratory. The author has contributed to research in topics: Genome & Gene. The author has an hindex of 11, co-authored 15 publications receiving 5626 citations. Previous affiliations of Richard D. Hayes include University of California, Los Angeles & Joint Genome Institute.
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Journal ArticleDOI
Phytozome: a comparative platform for green plant genomics
David Goodstein,Shengqiang Shu,Russell Howson,Rochak Neupane,Richard D. Hayes,Joni Fazo,Therese Mitros,William Dirks,Uffe Hellsten,Nicholas H. Putnam,Daniel S. Rokhsar +10 more
TL;DR: Phytozome provides a view of the evolutionary history of every plant gene at the level of sequence, gene structure, gene family and genome organization, while at the same time providing access to the sequences and functional annotations of a growing number of complete plant genomes.
Journal ArticleDOI
Draft genome sequence of the sexually transmitted pathogen Trichomonas vaginalis
Jane M. Carlton,Robert P. Hirt,Joana C. Silva,Arthur L. Delcher,Michael C. Schatz,Qi Zhao,Jennifer R. Wortman,Shelby L. Bidwell,U. Cecilia M. Alsmark,Sébastien Besteiro,Thomas Sicheritz-Pontén,Christophe Noël,Joel B. Dacks,Peter G. Foster,Cedric Simillion,Yves Van de Peer,Diego Miranda-Saavedra,Geoffrey J. Barton,Gareth D. Westrop,Sylke Müller,Daniele Dessì,Pier Luigi Fiori,Qinghu Ren,Ian T. Paulsen,Hanbang Zhang,Felix D. Bastida-Corcuera,Augusto Simoes-Barbosa,Mark T. Brown,Richard D. Hayes,Mandira Mukherjee,Cheryl Y. M. Okumura,Rachel E. Schneider,Alias J. Smith,Stepanka Vanacova,Maria Villalvazo,Brian J. Haas,Mihaela Pertea,Tamara Feldblyum,T. Utterback,Chung-Li Shu,Kazutoyo Osoegawa,Pieter J. de Jong,Ivan Hrdy,Lenka Horváthová,Zuzana Zubáčová,Pavel Dolezal,Shehre-Banoo Malik,John M. Logsdon,Katrin Henze,Arti Gupta,Ching C. Wang,R. L. Dunne,Jacqueline A. Upcroft,Peter Upcroft,Owen White,Steven L. Salzberg,Petrus Tang,Cheng-Hsun Chiu,Ying-Shiung Lee,T. Martin Embley,Graham H. Coombs,Jeremy C. Mottram,Jan Tachezy,Claire M. Fraser-Liggett,Patricia J. Johnson +64 more
TL;DR: The genome sequence of the protist Trichomonas vaginalis predicts previously unknown functions for the hydrogenosome, which support a common evolutionary origin of this unusual organelle with mitochondria.
Journal ArticleDOI
The genome of Eucalyptus grandis
Alexander Andrew Myburg,Dario Grattapaglia,Dario Grattapaglia,Gerald A. Tuskan,Gerald A. Tuskan,Uffe Hellsten,Richard D. Hayes,Jane Grimwood,Jerry Jenkins,Erika Lindquist,Hope Tice,Diane Bauer,David Goodstein,Inna Dubchak,Alexandre Poliakov,Eshchar Mizrachi,Anand Raj Kumar Kullan,Steven G. Hussey,Desre Pinard,Karen Van der Merwe,Pooja Singh,Ida Van Jaarsveld,Orzenil B. Silva-Junior,Roberto C. Togawa,Marília de Castro Rodrigues Pappas,Danielle A. Faria,Carolina Sansaloni,Cesar Petroli,Xiaohan Yang,Priya Ranjan,Timothy J. Tschaplinski,Chu-Yu Ye,Ting Li,Lieven Sterck,Kevin Vanneste,Florent Murat,Marçal Soler,Hélène San Clemente,Naijib Saidi,Hua Cassan-Wang,Christophe Dunand,Charles A. Hefer,Charles A. Hefer,Erich Bornberg-Bauer,Anna R. Kersting,Anna R. Kersting,Kelly J. Vining,Vindhya Amarasinghe,Martin Ranik,Sushma Naithani,Justin Elser,Alexander Boyd,Aaron Liston,Joseph W. Spatafora,Palitha Dharmwardhana,Rajani Raja,Christopher M. Sullivan,Elisson Romanel,Elisson Romanel,Marcio Alves-Ferreira,Carsten Külheim,William J. Foley,Victor Carocha,Jorge A. P. Paiva,David Kudrna,Sérgio Hermínio Brommonschenkel,Giancarlo Pasquali,Margaret Byrne,Philippe Rigault,Josquin Tibbits,Antanas V. Spokevicius,Rebecca C. Jones,Dorothy A. Steane,Dorothy A. Steane,René E. Vaillancourt,Brad M. Potts,Fourie Joubert,Kerrie Barry,Georgios J. Pappas,Steven H. Strauss,Pankaj Jaiswal,Jacqueline Grima-Pettenati,Jérôme Salse,Yves Van de Peer,Yves Van de Peer,Daniel S. Rokhsar,Jeremy Schmutz,Jeremy Schmutz +87 more
TL;DR: Of 36,376 predicted protein-coding genes, 34% occur in tandem duplications, the largest proportion thus far in plant genomes, which shows the highest diversity of genes for specialized metabolites such as terpenes that act as chemical defence and provide unique pharmaceutical oils.
Journal ArticleDOI
The BioMart community portal: an innovative alternative to large, centralized data repositories
Damian Smedley,Syed Haider,Steffen Durinck,Luca Pandini,Paolo Provero,Paolo Provero,James E. Allen,Olivier Arnaiz,Mohammad Awedh,Richard Baldock,Giulia Barbiera,Philippe Bardou,Tim Beck,Andrew Blake,Merideth Bonierbale,Anthony J. Brookes,Gabriele Bucci,Iwan Buetti,Sarah W. Burge,Cédric Cabau,Joseph W. Carlson,Claude Chelala,Charalambos Chrysostomou,Davide Cittaro,Olivier Collin,Raul Cordova,Rosalind J. Cutts,Erik Dassi,Alex Di Genova,Anis Djari,Anthony Esposito,Heather Estrella,Eduardo Eyras,Eduardo Eyras,Julio Fernandez-Banet,Simon A. Forbes,Robert C. Free,Takatomo Fujisawa,Emanuela Gadaleta,Jose Manuel Garcia-Manteiga,David Goodstein,Kristian Gray,José Afonso Guerra-Assunção,Bernard Haggarty,Dong Jin Han,Byung Woo Han,Todd W. Harris,Jayson Harshbarger,Robert K. Hastings,Richard D. Hayes,Claire Hoede,Shen Hu,Zhi-Liang Hu,Lucie N. Hutchins,Zhengyan Kan,Hideya Kawaji,Aminah Keliet,Arnaud Kerhornou,Sunghoon Kim,Rhoda Kinsella,Christophe Klopp,Lei Kong,Daniel Lawson,Dejan Lazarevic,Ji Hyun Lee,Thomas Letellier,Chuan-Yun Li,Pietro Liò,Chu Jun Liu,Jie Luo,Alejandro Maass,Jérôme Mariette,Thomas Maurel,Stefania Merella,Azza M. Mohamed,François Moreews,Ibounyamine Nabihoudine,Nelson Ndegwa,Céline Noirot,Cristian Perez-Llamas,Michael Primig,Alessandro Quattrone,Hadi Quesneville,Davide Rambaldi,James M. Reecy,Michela Riba,Steven Rosanoff,Amna A. Saddiq,Elisa Salas,Olivier Sallou,Rebecca Shepherd,Reinhard Simon,Linda Sperling,William Spooner,Daniel M. Staines,Delphine Steinbach,Kevin R. Stone,Elia Stupka,Jon W. Teague,Abu Z. Dayem Ullah,Jun Wang,Doreen Ware,Marie Wong-Erasmus,Ken Youens-Clark,Amonida Zadissa,Shi Jian Zhang,Arek Kasprzyk,Arek Kasprzyk +107 more
TL;DR: The latest version of the BioMart Community Portal comes with many new databases that have been created by the ever-growing community and comes with better support and extensibility for data analysis and visualization tools.
Journal ArticleDOI
JBrowse: a dynamic web platform for genome visualization and analysis
Robert Buels,Eric Yao,Colin Diesh,Richard D. Hayes,Richard D. Hayes,Monica Munoz-Torres,Gregg Helt,David Goodstein,David Goodstein,Christine G. Elsik,Suzanna E. Lewis,Lincoln Stein,Ian Holmes,Ian Holmes +13 more
TL;DR: Overall improvements to speed and scalability are accompanied by specific enhancements that support complex interactive queries on large track sets.