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Owen White

Research Profile

Genes & Molecular Sequences

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Konstantinos Liolios; Bahador Nosrat; Ioanna Pagani; Philippe Rocca-Serra; Susanna-Assunta Sansone; Lynn M Schriml; Peter Sterk; Chris Taylor; Owen R White; Lynette Hirschman; Nikos C Kyrpides; Dawn Field
The Metadata Coverage Index (MCI): A standardized metric for quantifying database metadata richness.
Jack A Gilbert; Rob Knight; Charlie Catlett; Narayan Desai; Dawn Field; Robert Robbins; Rajesh Sankaran; Susanna-Assunta Sansone; Owen R White; Folker Meyer
Conceptualizing a Genomics Software Institute (GSI).
Sahar Abubucker; Brandi L Cantarel; Dirk Gevers; Johannes Goll; Bernard Henrissat; Jacques Izard; Scott T Kelley; Barbara A Methé; Makedonka Mitreva; Beltran Rodriguez-Mueller; Patrick D Schloss; Alyxandria M Schubert; Nicola Segata; Mathangi Thiagarajan; Owen R White; Jeremy Zucker; Curtis Huttenhower
Metabolic reconstruction for metagenomic data and its application to the human microbiome.

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All Publications

2012: Konstantinos Liolios; Bahador Nosrat; Ioanna Pagani; Philippe Rocca-Serra; Susanna-Assunta Sansone; Lynn M Schriml; Peter Sterk; Chris Taylor; Owen R White; Lynette Hirschman; Nikos C Kyrpides; Dawn Field
The Metadata Coverage Index (MCI): A standardized metric for quantifying database metadata richness.
Standards in genomic sciences 2012;6(3):438-47.
2012: Jack A Gilbert; Rob Knight; Charlie Catlett; Narayan Desai; Dawn Field; Robert Robbins; Rajesh Sankaran; Susanna-Assunta Sansone; Owen R White; Folker Meyer
Conceptualizing a Genomics Software Institute (GSI).
Standards in genomic sciences 2012;6(1):136-44.
2012: Sahar Abubucker; Brandi L Cantarel; Dirk Gevers; Johannes Goll; Bernard Henrissat; Jacques Izard; Scott T Kelley; Barbara A Methé; Makedonka Mitreva; Beltran Rodriguez-Mueller; Patrick D Schloss; Alyxandria M Schubert; Nicola Segata; Mathangi Thiagarajan; Owen R White; Jeremy Zucker; Curtis Huttenhower
Metabolic reconstruction for metagenomic data and its application to the human microbiome.
PLoS computational biology 2012;8(6):e1002358.
2011: William Klimke; J Rodney Brister; Ilene Mizrachi; Karen Clark; Kim D Pruitt; Claire O'Donovan; Boris Fedorov; Owen R White; Tatiana Tatusova
Solving the Problem: Genome Annotation Standards before the Data Deluge.
Standards in genomic sciences 2011;5(1):168-93.
2011: Dawn Field; George M Garrity; Jack Gilbert; Frank Oliver Glöckner; Lynette Hirschman; Ilene Karsch-Mizrachi; Hans-Peter Klenk; Rob Knight; Renzo Kottmann; Nikos Kyrpides; Folker Meyer; Inigo San Gil; Susanna-Assunta Sansone; Lynn M Schriml; Peter Sterk; Tatiana Tatusova; David W Ussery; Owen R White; Linda Amaral-Zettler; Guy Cochrane; James R Cole; Peter Dawyndt; John Wooley
The Genomic Standards Consortium.
PLoS biology 2011;9(6):e1001088.
2011: Pelin Yilmaz; Linda Amaral-Zettler; Manimozhiyan Arumugam; Susanna Assunta-Sansone; Mark Bailey; Laura Baumgartner; Bruce W Birren; Martin J Blaser; Vivien Bonazzi; Tim Booth; Peer Bork; Frederic D Bushman; Pier Luigi Buttigieg; Patrick S G Chain; Emily Charlson; Guy Cochrane; James R Cole; Elizabeth K Costello; Peter Dawyndt; Todd DeSantis; Dawn Field; Noah Fierer; Jed A Fuhrman; Rachel E Gallery; Dirk Gevers; Richard A Gibbs; Jack A Gilbert; Antonio Gonzalez; Jeffrey I Gordon; Robert Guralnick; Wolfgang Hankeln; Sarah Highlander; Philip Hugenholtz; Christopher Hunter; Heather Huot-Creasy; Janet Jansson; Anjanette Johnston; Ilene Karsch-Mizrachi; Andrew L Kau; Scott T Kelley; Jerry Kennedy; Rob Knight; Dan Knights; Omry Koren; Renzo Kottmann; Justin Kuczynski; Nikos Kyrpides; Robert Larsen; Christian L Lauber; Teresa Legg; Ruth E Ley; Catherine A Lozupone; Wolfgang Ludwig; Donna Lyons; Eamonn Maguire; Barbara A Methé; Folker Meyer; Norman Morrison; Brian Muegge; Sara Nakielny; Karen E Nelson; Diana Nemergut; Josh D Neufeld; Lindsay K Newbold; Anna E Oliver; Norman R Pace; Giriprakash Palanisamy; Joonhong Park; Jörg Peplies; Joseph Petrosino; Lita Proctor; Elmar Pruesse; Christian Quast; Jeroen Raes; Sujeevan Ratnasingham; Jacques Ravel; David A Relman; Philippe Rocca-Serra; Inigo San Gil; Patrick D Schloss; Lynn M Schriml; Rohini Sinha; Michelle I Smith; Erica Sodergren; Aymé Spo; Peter Sterk; Jesse Stombaugh; James M Tiedje; Robert Vaughan; Doyle V Ward; George M Weinstock; Doug Wendel; Owen R White; Andrew Whiteley; Andreas Wilke; Jennifer Wortman; Tanya Yatsunenko; Frank Oliver Glöckner
Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications.
Nature biotechnology 2011;29(5):415-20.
2011: Kevin Galens; Samuel V Angiuoli; Heather H Creasy; Sean Daugherty; Anup Mahurkar; Joshua Orvis; Owen R White; Jennifer Wortman; Michelle G Giglio
The IGS Standard Operating Procedure for Automated Prokaryotic Annotation.
Standards in genomic sciences 2011;4(2):244-51.
2011: Samuel V Angiuoli; Malcolm Matalka; James R White; Owen R White; W. Florian Fricke
Resources and costs for microbial sequence analysis evaluated using virtual machines and cloud computing.
PloS one 2011;6(10):e26624.
2011: Samuel V Angiuoli; Cesar Arze; Kevin Galens; Aaron Gussman; Malcolm Matalka; David R Riley; Mahesh Vangala; James R White; Owen R White; W. Florian Fricke
CloVR: a virtual machine for automated and portable sequence analysis from the desktop using cloud computing.
BMC bioinformatics 2011;12():356.
2011: Pascale Gaudet; Amos Bairoch; Dawn Field; Susanna-Assunta Sansone; Chris Taylor; Teresa K Attwood; Alex Bateman; Judith A Blake; Carol Bult; J Michael Cherry; Rex Chisholm; Guy Cochrane; Charles E Cook; Janan T Eppig; Michael Galperin; Robert Gentleman; Carole A Goble; Takashi Gojobori; John M Hancock; Douglas G Howe; Tadashi Imanishi; Janet Kelso; David Landsman; Suzanna E Lewis; Ilene Karsch Mizrachi; Sandra Orchard; B F Francis Ouellette; Shoba Ranganathan; Lorna Richardson; Philippe Rocca-Serra; Paul N Schofield; Damian Smedley; Christopher Southan; Tin W Tan; Tatiana Tatusova; Patricia L Whetzel; Owen R White; Chisato Yamasaki
Towards BioDBcore: a community-defined information specification for biological databases.
Database : the journal of biological databases and curation 2011;2011():baq027.
2011: Pascale Gaudet; Amos Bairoch; Dawn Field; Susanna-Assunta Sansone; Chris Taylor; Teresa K Attwood; Alex Bateman; Judith A Blake; Carol Bult; J Michael Cherry; Rex Chisholm; Guy Cochrane; Charles E Cook; Janan T Eppig; Michael Galperin; Robert Gentleman; Carole Goble; Takashi Gojobori; John M Hancock; Douglas G Howe; Tadashi Imanishi; Janet Kelso; David Landsman; Suzanna E Lewis; Ilene Karsch Mizrachi; Sandra Orchard; B F Francis Ouellette; Shoba Ranganathan; Lorna Richardson; Philippe Rocca-Serra; Paul N Schofield; Damian Smedley; Christopher Southan; Tin Wee Tan; Tatiana Tatusova; Patricia L Whetzel; Owen R White; Chisato Yamasaki
Towards BioDBcore: a community-defined information specification for biological databases.
Nucleic acids research 2011;39(Database issue):D7-10.
2010: Peter Arensburger; Karine Megy; Robert Waterhouse; Jenica Abrudan; Paolo Amedeo; Beatriz Antelo; Lyric Bartholomay; Shelby Bidwell; Elisabet Caler; Francisco Camara; Corey L Campbell; Kathryn S Campbell; Claudio Casola; Marta T Castro; Ishwar Chandramouliswaran; Sinéad B Chapman; Scott Christley; Javier Costas; Eric Eisenstadt; Cedric Feschotte; Claire M Fraser-Liggett; Roderic Guigo; Brian Haas; Martin Hammond; Bill S Hansson; Janet Hemingway; Sharon R Hill; Clint Howarth; Rickard Ignell; Ryan C Kennedy; Chinnappa D Kodira; Neil F Lobo; Chunhong Mao; George Mayhew; Kristin Michel; Akio Mori; Nannan Liu; Horacio Naveira; Vishvanath Nene; Nam Nguyen; Matthew D Pearson; Ellen J Pritham; Daniela Puiu; Yumin Qi; Hilary Ranson; Jose M C Ribeiro; Hugh M Roberston; David W Severson; Martin Shumway; Mario Stanke; Robert L Strausberg; Cheng Sun; Granger Sutton; Zhijian Jake Tu; Jose Manuel C Tubio; Maria F Unger; Dana L Vanlandingham; Albert J Vilella; Owen R White; Jared R White; Charles S Wondji; Jennifer Wortman; Evgeny M Zdobnov; Bruce Birren; Bruce M Christensen; Frank H Collins; Anthony Cornel; George Dimopoulos; Linda I Hannick; Stephen Higgs; Gregory C Lanzaro; Daniel Lawson; Norman H Lee; Marc A T Muskavitch; Alexander S Raikhel; Peter W Atkinson
Sequencing of Culex quinquefasciatus establishes a platform for mosquito comparative genomics.
Science (New York, N.Y.) 2010;330(6000):86-8.
2010: Joshua Orvis; Jonathan Crabtree; Kevin Galens; Aaron Gussman; Jason M Inman; Eduardo Lee; Sreenath Nampally; David Riley; Jaideep P Sundaram; Victor Felix; Brett Whitty; Anup Mahurkar; Jennifer Wortman; Owen R White; Samuel V Angiuoli
Ergatis: a web interface and scalable software system for bioinformatics workflows.
Bioinformatics (Oxford, England) 2010;26(12):1488-92.
2010: Karen E Nelson; George M Weinstock; Sarah Katherine Highlander; Kim C Worley; Heather Huot Creasy; Jennifer Wortman; Douglas B Rusch; Makedonka Mitreva; Erica Sodergren; Asif T Chinwalla; Michael Feldgarden; Dirk Gevers; Brian J Haas; Ramana Madupu; Doyle V Ward; Bruce W Birren; Richard A Gibbs; Barbara Methe; Joseph F Petrosino; Robert L Strausberg; Granger G Sutton; Owen R White; Richard K Wilson; Scott Durkin; Michelle G Giglio; Sharvari Gujja; Clint Howarth; Chinnappa D Kodira; Nikos Kyrpides; Teena Mehta; Donna M Muzny; Matthew Pearson; Kymberlie Pepin; Amrita Pati; Xiang Qin; Chandri Yandava; Qiandong Zeng; Lan Zhang; Aaron M Berlin; Lei Chen; Theresa A Hepburn; Justin Johnson; Jamison McCorrison; Jason Miller; Pat Minx; Chad Nusbaum; Carsten Russ; Sean M Sykes; Chad M Tomlinson; Sarah Young; Wesley C Warren; Jonathan Badger; Jonathan Crabtree; Victor M Markowitz; Joshua Orvis; Andrew Cree; Steve Ferriera; Lucinda L Fulton; Robert S Fulton; Marcus Gillis; Lisa D Hemphill; Vandita Joshi; Christie Kovar; Manolito Torralba; Kris A Wetterstrand; Amr Abouellleil; Aye M Wollam; Christian J Buhay; Yan Ding; Shannon Dugan; Michael G FitzGerald; Mike Holder; Jessica Hostetler; Sandra W Clifton; Emma Allen-Vercoe; Ashlee M Earl; Candace N Farmer; Konstantinos Liolios; Michael G Surette; Qiang Xu; Craig Pohl; Katarzyna Wilczek-Boney; Dianhui Zhu
A catalog of reference genomes from the human microbiome.
Science (New York, N.Y.) 2010;328(5981):994-9.
2010: Dawn Field; Susanna Sansone; Edward F Delong; Peter Sterk; Iddo Friedberg; Pascale Gaudet; Susanna Lewis; Renzo Kottmann; Lynette Hirschman; George M Garrity; Guy Cochrane; John Wooley; Folker Meyer; Sarah Hunter; Owen R White; Brian Bramlett; Susan Gregurick; Hilmar Lapp; Sandra Orchard; Philippe Rocca-Serra; Alan Ruttenberg; Nigam Shah; Chris Taylor; Anne Thessen
Meeting Report: BioSharing at ISMB 2010.
Standards in genomic sciences 2010;3(3):254-8.
2010: Owen R White; Nikos Kyrpides
Meeting Report: Towards a Critical Assessment of Functional Annotation Experiment (CAFAE) for bacterial genome annotation.
Standards in genomic sciences 2010;3(3):240-2.
2010: Dawn Field; Susanna Sansone; Edward F Delong; Peter Sterk; Iddo Friedberg; Renzo Kottmann; Lynette Hirschman; George M Garrity; Guy Cochrane; John Wooley; Folker Meyer; Sarah Hunter; Owen R White
Meeting Report: Metagenomics, Metadata and MetaAnalysis (M3) at ISMB 2010.
Standards in genomic sciences 2010;3(3):232-4.
2010: Elizabeth Glass; Folker Meyer; Jack A Gilbert; Dawn Field; Sarah Hunter; Renzo Kottmann; Nikos Kyrpides; Susanna Sansone; Lynn M Schriml; Peter Sterk; Owen R White; John Wooley
Meeting Report from the Genomic Standards Consortium (GSC) Workshop 10.
Standards in genomic sciences 2010;3(3):225-31.
2010: Lynette Hirschman; Peter Sterk; Dawn Field; John Wooley; Guy Cochrane; Jack Gilbert; Eugene Kolker; Nikos Kyrpides; Folker Meyer; Ilene Mizrachi; Yasukazu Nakamura; Susanna-Assunta Sansone; Lynn M Schriml; Tatiana Tatusova; Owen R White; Pelin Yilmaz
Meeting Report: "Metagenomics, Metadata and Meta-analysis" (M3) Workshop at the Pacific Symposium on Biocomputing 2010.
Standards in genomic sciences 2010;2(3):357-60.
2010: Tanja Davidsen; Erin Beck; Anuradha Ganapathy; Robert Montgomery; Nikhat Zafar; Qi Yang; Ramana Madupu; Phil Goetz; Kevin Galinsky; Owen R White; Granger Sutton
The comprehensive microbial resource.
Nucleic acids research 2010;38(Database issue):D340-5.
2010: Lynn M Schriml; Cesar Arze; Suvarna Nadendla; Anu Ganapathy; Victor Felix; Anup Mahurkar; Katherine Phillippy; Aaron Gussman; Samuel V Angiuoli; Elodie Ghedin; Owen R White; Neil Hall
GeMInA, Genomic Metadata for Infectious Agents, a geospatial surveillance pathogen database.
Nucleic acids research 2010;38(Database issue):D754-64.
2010: Lauren M Brinkac; Tanja Davidsen; Erin Beck; Anuradha Ganapathy; Elisabet Caler; Robert J Dodson; A Scott Durkin; Derek M Harkins; Hernan Lorenzi; Ramana Madupu; Yinong Sebastian; Susmita Shrivastava; Mathangi Thiagarajan; Joshua Orvis; Jaideep P Sundaram; Jonathon Crabtree; Kevin Galens; Yongmei Zhao; Jason M Inman; Robert Montgomery; Seth Schobel; Kevin Galinsky; David M Tanenbaum; Adam Resnick; Nikhat Zafar; Owen R White; Granger Sutton
Pathema: a clade-specific bioinformatics resource center for pathogen research.
Nucleic acids research 2010;38(Database issue):D408-14.
2009: Garry S A Myers; S A Mathews; Mark Eppinger; C Mitchell; K K O'Brien; Owen R White; F Benahmed; Robert brunham; Timothy D Read; Jacques Ravel; Patrik M Bavoil; Peter Timms
Evidence that human Chlamydia pneumoniae was zoonotically acquired.
Journal of bacteriology 2009;191(23):7225-33.
2009: Matthew Berriman; Brian J Haas; Philip T LoVerde; R Alan Wilson; Gary P Dillon; Gustavo C Cerqueira; Susan T Mashiyama; Bissan Al-Lazikani; Luiza F Andrade; Peter Ashton; Martin A Aslett; Daniella C Bartholomeu; Gaelle Blandin; Conor R Caffrey; Avril Coghlan; Richard Coulson; Tim A Day; Art Delcher; Ricardo DeMarco; Appolinaire Djikeng; Tina Eyre; John A Gamble; Elodie Ghedin; Yong Gu; Christiane Hertz-Fowler; Hirohisha Hirai; Yuriko Hirai; Robin Houston; Alasdair Ivens; David A Johnston; Daniela Lacerda; Camila D Macedo; Paul McVeigh; Zemin Ning; Guilherme Oliveira; John P Overington; Julian Parkhill; Mihaela Pertea; Raymond J Pierce; Anna V Protasio; Michael A Quail; Marie-Adèle Rajandream; Jane Rogers; Mohammed Sajid; Steven L Salzberg; Mario Stanke; Adrian R Tivey; Owen R White; David L Williams; Jennifer Wortman; Wenjie Wu; Mostafa Zamanian; Adhemar Zerlotini; Claire M Fraser-Liggett; Barclay G Barrell; Najib M El-Sayed
The genome of the blood fluke Schistosoma mansoni.
Nature 2009;460(7253):352-8.
2008: Jane M Carlton; John H Adams; Joana Carneiro Da Silva; Shelby L Bidwell; Hernan Lorenzi; Elisabet Caler; Jonathan Crabtree; Samuel V Angiuoli; Emilio F Merino; Paolo Amedeo; Qin Cheng; Richard M R Coulson; Brendan S Crabb; Hernando A Del Portillo; Kobby Essien; Tamara V Feldblyum; Carmen Fernandez-Becerra; Paul R Gilson; Amy H Gueye; Xiang Guo; Simon Kang'a; Taco W A Kooij; Michael Korsinczky; Esmeralda V-S Meyer; Vishvanath Nene; Ian Paulsen; Owen R White; Stuart A Ralph; Qinghu Ren; Tobias J Sargeant; Steven L Salzberg; Christian J Stoeckert; Steven A Sullivan; Marcio M Yamamoto; Stephen L Hoffman; Jennifer Wortman; Malcolm J Gardner; Mary R Galinski; John W Barnwell; Claire M Fraser-Liggett
Comparative genomics of the neglected human malaria parasite Plasmodium vivax.
Nature 2008;455(7214):757-63.
2008: Doug Howe; Maria Costanzo; Petra Fey; Takashi Gojobori; Linda Hannick; Winston Hide; David P Hill; Renate Kania; Mary Schaeffer; Susan St Pierre; Simon Twigger; Owen R White; Seung Yon Rhee
Big data: The future of biocuration.
Nature 2008;455(7209):47-50.
2008: George M Garrity; Dawn Field; Nikos Kyrpides; Lynette Hirschman; Susanna-Assunta Sansone; Samuel Angiuoli; James R Cole; Frank Oliver Glöckner; Eugene Kolker; George Kowalchuk; Mary Ann Moran; Dave Ussery; Owen R White
Toward a standards-compliant genomic and metagenomic publication record.
Omics : a journal of integrative biology 2008;12(2):157-60.
2008: Dawn Field; George M Garrity; Susanna-Assunta Sansone; Peter Sterk; Tanya Gray; Nikos Kyrpides; Lynette Hirschman; Frank Oliver Glöckner; Renzo Kottmann; Sam Angiuoli; Owen R White; Peter Dawyndt; Nick Thomson; Inigo San Gil; Norman Morrison; Tatiana Tatusova; Ilene Mizrachi; Robert Vaughan; Guy Cochrane; Leonid Kagan; Sean Murphy; Lynn M Schriml
Meeting report: the fifth Genomic Standards Consortium (GSC) workshop.
Omics : a journal of integrative biology 2008;12(2):109-13.
2008: Samuel V Angiuoli; Aaron Gussman; William Klimke; Guy Cochrane; Dawn Field; George M Garrity; Chinnappa D Kodira; Nikos Kyrpides; Ramana Madupu; Victor Markowitz; Tatiana Tatusova; Nick Thomson; Owen R White
Toward an online repository of Standard Operating Procedures (SOPs) for (meta)genomic annotation.
Omics : a journal of integrative biology 2008;12(2):137-41.
2008: Dawn Field; George M Garrity; Tanya Gray; Norman Morrison; Jeremy Selengut; Peter Sterk; Tatiana Tatusova; Nicholas Thomson; Michael Allen; Samuel V Angiuoli; Michael Ashburner; Nelson Axelrod; Sandra Baldauf; Stuart Ballard; Jeffrey Boore; Guy Cochrane; James Cole; Peter Dawyndt; Paul De Vos; Claude DePamphilis; Robert Edwards; Nadeem Faruque; Robert Feldman; Jack Gilbert; Paul Gilna; Frank Oliver Glöckner; Philip Goldstein; Robert Guralnick; Dan Haft; David Hancock; Henning Hermjakob; Christiane Hertz-Fowler; Phil Hugenholtz; Ian Joint; Leonid Kagan; Matthew Kane; Jessie Kennedy; George Kowalchuk; Renzo Kottmann; Eugene Kolker; Saul Kravitz; Nikos Kyrpides; Jim Leebens-Mack; Suzanna E Lewis; Kelvin Li; Allyson L Lister; Phillip Lord; Natalia Maltsev; Victor Markowitz; Jennifer Martiny; Barbara Methe; Ilene Mizrachi; Richard Moxon; Karen Nelson; Julian Parkhill; Lita Proctor; Owen R White; Susanna-Assunta Sansone; Andrew Spiers; Robert Stevens; Paul Swift; Chris Taylor; Yoshio Tateno; Adrian Tett; Sarah Turner; David Ussery; Bob Vaughan; Naomi Ward; Trish Whetzel; Ingio San Gil; Gareth Wilson; Anil Wipat
The minimum information about a genome sequence (MIGS) specification.
Nature biotechnology 2008;26(5):541-7.
2008: Natalie Fedorova Abrams; Nora Khaldi; Vinita S Joardar; Rama Maiti; Paolo Amedeo; Michael J Anderson; Jonathan Crabtree; Joana Carneiro Da Silva; Jonathan H Badger; Ahmed Albarraq; Sam Angiuoli; Howard Bussey; Paul Bowyer; Peter J Cotty; Paul S Dyer; Amy Egan; Kevin Galens; Claire M Fraser-Liggett; Brian J Haas; Jason M Inman; Richard Kent; Sebastien Lemieux; Iran Malavazi; Joshua Orvis; Terry Roemer; Catherine M Ronning; Jaideep P Sundaram; Granger Sutton; Geoff Turner; J Craig Venter; Owen R White; Brett Whitty; Phil Youngman; Kenneth H Wolfe; Gustavo H Goldman; Jennifer Wortman; Bo Jiang; David W Denning; William C Nierman
Genomic islands in the pathogenic filamentous fungus Aspergillus fumigatus.
PLoS genetics 2008;4(4):e1000046.
2008: Brian J Haas; Steven L Salzberg; Wei Zhu; Mihaela Pertea; Jonathan E Allen; Joshua Orvis; Owen R White; C Robin Buell; Jennifer Wortman
Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments.
Genome biology 2008;9(1):R7.
2007: Kelly A Brayton; Audrey O T Lau; David R Herndon; Linda Hannick; Lowell S Kappmeyer; Shawn J Berens; Shelby L Bidwell; Wendy C Brown; Jonathan Crabtree; Doug Fadrosh; Tamara Feldblum; Heather A Forberger; Brian J Haas; Jeanne Freeman; Hoda Khouri; Hean Koo; David J Mann; Junzo Norimine; Ian Paulsen; Diana Radune; Qinghu Ren; Roger K Smith; Carlos Suarez; Owen R White; Jennifer Wortman; Donald P Knowles; Terry F McElwain; Vishvanath Nene
Genome sequence of Babesia bovis and comparative analysis of apicomplexan hemoprotozoa.
PLoS pathogens 2007;3(10):1401-13.
2007: Elodie Ghedin; Shiliang Wang; David Spiro; Elisabet Caler; Qi Zhao; Jonathan Crabtree; Jonathan E Allen; Arthur L Delcher; David B Guiliano; Diego Miranda-Saavedra; Samuel V Angiuoli; Todd Creasy; Paolo Amedeo; Brian Haas; Najib M El-Sayed; Jennifer Wortman; Tamara Feldblyum; Luke Tallon; Michael Schatz; Martin Shumway; Hean Koo; Steven L Salzberg; Seth Schobel; Mihaela Pertea; Mihai Pop; Owen R White; Geoffrey J Barton; Clotilde K S Carlow; Michael J Crawford; Jennifer Daub; Matthew W Dimmic; Chris F Estes; Jeremy M Foster; Mehul Ganatra; William F Gregory; Nicholas M Johnson; Jinming Jin; Richard Komuniecki; Ian F Korf; Sanjay Kumar; Sandra Laney; Benwen Li; Wen Li; Tim H Lindblom; Sara Lustigman; Dong Ma; Claude V Maina; David M A Martin; James P McCarter; Larry McReynolds; Makedonka Mitreva; Thomas B Nutman; John Parkinson; José M Peregrín-Alvarez; Catherine Poole; Qinghu Ren; Lori Saunders; Ann E Sluder; Katherine Smith; Mario Stanke; Thomas R Unnasch; Jenna Ware; Aguan D Wei; Gary Weil; Deryck J Williams; Yinhua Zhang; Steven A Williams; Claire M Fraser-Liggett; Barton Slatko; Mark L Blaxter; Alan L Scott
Draft genome of the filarial nematode parasite Brugia malayi.
Science (New York, N.Y.) 2007;317(5845):1756-60.
2007: John M Greene; Frank Collins; Elliot J Lefkowitz; David Roos; Richard Scheuermann; Bruno Sobral; Rick Stevens; Owen R White; Valentina Di Francesco
National Institute of Allergy and Infectious Diseases bioinformatics resource centers: new assets for pathogen informatics.
Infection and immunity 2007;75(7):3212-9.
2007: Vishvanath Nene; Jennifer Wortman; Daniel Lawson; Brian Haas; Chinnappa Kodira; Zhijian Jake Tu; Brendan Loftus; Zhiyong Xi; Karyn Megy; Manfred Grabherr; Quinghu Ren; Evgeny M Zdobnov; Neil F Lobo; Kathryn S Campbell; Susan E Brown; Maria F Bonaldo; Jingsong Zhu; Steven P Sinkins; David G Hogenkamp; Paolo Amedeo; Peter Arensburger; Peter W Atkinson; Shelby Bidwell; Jim Biedler; Ewan Birney; Robert V Bruggner; Javier Costas; Monique R Coy; Jonathan Crabtree; Matt Crawford; Becky Debruyn; David Decaprio; Karin Eiglmeier; Eric Eisenstadt; Hamza El-Dorry; William M Gelbart; Suely L Gomes; Martin Hammond; Linda I Hannick; James R Hogan; Michael H Holmes; David Jaffe; J Spencer Johnston; Ryan C Kennedy; Hean Koo; Saul Kravitz; Evgenia Kriventseva; David Kulp; Kurt Labutti; Eduardo Lee; Song Li; Diane D Lovin; Chunhong Mao; Evan Mauceli; Carlos F M Menck; Jason R Miller; Philip Montgomery; Akio Mori; Ana L Nascimento; Horacio F Naveira; Chad Nusbaum; Sinéad O'leary; Joshua Orvis; Mihaela Pertea; Hadi Quesneville; Kyanne R Reidenbach; Yu-Hui Rogers; Charles W Roth; Jennifer R Schneider; Michael Schatz; Martin Shumway; Mario Stanke; Eric O Stinson; Jose M C Tubio; Janice P Vanzee; Sergio Verjovski-Almeida; Doreen Werner; Owen R White; Stefan Wyder; Qiandong Zeng; Qi Zhao; Yongmei Zhao; Catherine A Hill; Alexander S Raikhel; Marcelo B Soares; Dennis L Knudson; Norman H Lee; James Galagan; Steven L Salzberg; Ian Paulsen; George Dimopoulos; Frank H Collins; Bruce Birren; Claire M Fraser-Liggett; David Severson
Genome sequence of Aedes aegypti, a major arbovirus vector.
Science (New York, N.Y.) 2007;316(5832):1718-23.
2007: Jane M Carlton; Robert Hirt; Joana Carneiro Da Silva; Arthur L Delcher; Michael Schatz; Qi Zhao; Jennifer Wortman; Shelby L Bidwell; U Cecilia M Alsmark; Sébastien Besteiro; thomas sicheritz-ponten; Christophe Noel; Joel B Dacks; Peter G Foster; Cedric Simillion; Yves Van de Peer; Diego Miranda-Saavedra; Geoffrey J Barton; Gareth D Westrop; Sylke Müller; Daniele Dessi; Pier Luigi Fiori; Qinghu Ren; Ian Paulsen; Hanbang Zhang; Felix D Bastida-Corcuera; Augusto Simoes-Barbosa; Mark T Brown; Richard D Hayes; Mandira Mukherjee; Cheryl Y Okumura; Rachel Schneider; Alias J Smith; Stepanka Vanacova; Maria Villalvazo; Brian J Haas; Mihaela Pertea; Tamara V Feldblyum; Terry R Utterback; Chung-Li Shu; Kazutoyo Osoegawa; Pieter J de Jong; Ivan Hrdy; Lenka Horvathova; Zuzana Zubacova; Pavel Dolezal; Shehre-Banoo Malik; John M Logsdon; Katrin Henze; Arti Gupta; Ching C Wang; Rebecca L Dunne; Jacqueline A Upcroft; Peter Upcroft; Owen R 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
Draft genome sequence of the sexually transmitted pathogen Trichomonas vaginalis.
Science (New York, N.Y.) 2007;315(5809):207-12.
2007: Jonathan Crabtree; Samuel V Angiuoli; Jennifer Wortman; Owen R White
Sybil: methods and software for multiple genome comparison and visualization.
Methods in molecular biology (Clifton, N.J.) 2007;408():93-108.
2007: Darrell Hamill; Kathleen Washington; Owen R White
The effect of hippotherapy on postural control in sitting for children with cerebral palsy.
Physical & occupational therapy in pediatrics 2007;27(4):23-42.
2007: Sven Heinicke; Michael S Livstone; Charles Lu; Rose Oughtred; Fan Kang; Samuel V Angiuoli; Owen R White; David Botstein; Kara Dolinski
The Princeton Protein Orthology Database (P-POD): a comparative genomics analysis tool for biologists.
PloS one 2007;2(8):e766.
2007: Jeremy D Selengut; Daniel H Haft; Tanja M Davidsen; Anurhada Ganapathy; Michelle G Giglio; William C Nelson; Alexander R Richter; Owen R White
TIGRFAMs and Genome Properties: tools for the assignment of molecular function and biological process in prokaryotic genomes.
Nucleic acids research 2007;35(Database issue):D260-4.
2006: Julie C Hotopp; Mingqun Lin; Ramana Madupu; Jonathan Crabtree; Samuel V Angiuoli; Jonathan Eisen; Jonathan Eisen; Rekha Seshadri; Qinghu Ren; Martin Wu; Teresa R Utterback; Shannon Smith; Matthew Lewis; Hoda Khouri; Chunbin Zhang; Hua Niu; Quan Lin; Norio Ohashi; Ning Zhi; William Nelson; Lauren M Brinkac; Robert J Dodson; M J Rosovitz; Jaideep Sundaram; Sean C Daugherty; Tanja Davidsen; Anthony S Durkin; Michelle G Giglio; Daniel H Haft; Jeremy D Selengut; Steven A Sullivan; Nikhat Zafar; Liwei Zhou; Faiza Benahmed; Heather Forberger; Rebecca Halpin; Stephanie Mulligan; Jeffrey Robinson; Owen R White; Yasuko Rikihisa; Hervé Tettelin
Comparative genomics of emerging human ehrlichiosis agents.
PLoS genetics 2006;2(2):e21.
2005: William C Nierman; Arnab Pain; Michael J Anderson; Jennifer Wortman; Heenam Stanley Kim; Javier Arroyo; Matthew Berriman; Keietsu Abe; David B Archer; Clara Bermejo; Joan Bennett; Paul Bowyer; Dan Chen; Matthew Collins; Richard Coulsen; Robert Davies; Paul S Dyer; Mark Farman; Natalie Fedorova Abrams; Natalie Fedorova; Tamara V Feldblyum; Reinhard Fischer; Nigel Fosker; Audrey Fraser; Jose L García; Maria J García; Arlette Goble; Gustavo H Goldman; Katsuya Gomi; Sam Griffith-Jones; Rhian Gwilliam; Brian Haas; Hubertus Haas; David Harris; H Horiuchi; Jiaqi Huang; Sean Humphray; Javier Jiménez; Nancy Keller; Hoda Khouri; Katsuhiko Kitamoto; Tetsuo Kobayashi; Sven Konzack; Resham Kulkarni; Toshitaka Kumagai; Anne Lafon; Anne Lafton; Jean-Paul Latgé; Weixi Li; Angela Lord; Charles Lu; William H Majoros; Gregory S May; Bruce L Miller; Yasmin Mohamoud; Maria Molina; Michel Monod; Isabelle Mouyna; Stephanie Mulligan; Lee Murphy; Susan O'Neil; Ian Paulsen; Miguel A Peñalva; Mihaela Pertea; Claire Price; Bethan L Pritchard; Michael A Quail; Ester Rabbinowitsch; Neil Rawlins; Marie-Adele Rajandream; Utz Reichard; Hubert Renauld; Geoff Robson; Santiago Rodriguez de Córdoba; Jose M Rodríguez-Peña; Catherine M Ronning; Simon Rutter; Steven L Salzberg; Miguel Sanchez; Juan C Sánchez-Ferrero; David Saunders; kathy seeger; Rob Squares; Steven Squares; Michio Takeuchi; Fredj Tekaia; Geoffrey Turner; Carlos Vazquez de Aldana; Janice Weidman; Owen R White; John Woodward; Jae-Hyuk Yu; Claire M Fraser-Liggett; James E Galagan; Kiyoshi Asai; Masayuki Machida; Neil Hall; Bart Barrell; David W Denning
Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus.
Nature 2005;438(7071):1151-6.
2005: Hervé Tettelin; Vega Masignani; Michael J Cieslewicz; Claudio Donati; Duccio Medini; Naomi L Ward; Samuel V Angiuoli; Jonathan Crabtree; Amanda L Jones; A Scott Durkin; Robert T Deboy; Tanja M Davidsen; Marirosa Mora; Maria Scarselli; Immaculada Margarit y Ros; Jeremy D Peterson; Christopher R Hauser; Jaideep P Sundaram; William C Nelson; Ramana Madupu; Lauren M Brinkac; Robert J Dodson; Mary J Rosovitz; Steven A Sullivan; Sean C Daugherty; Daniel H Haft; Jeremy Selengut; Michelle G Giglio; Liwei Zhou; Nikhat Zafar; Hoda Khouri; Diana Radune; George Dimitrov; Kisha Watkins; Kevin J B O'Connor; Shannon Smith; Teresa R Utterback; Owen R White; Craig E Rubens; Guido Grandi; Lawrence C Madoff; Dennis L Kasper; John L Telford; Michael R Wessels; Rino Rappuoli; Claire M Fraser-Liggett
Genome analysis of multiple pathogenic isolates of Streptococcus agalactiae: implications for the microbial "pan-genome".
Proceedings of the National Academy of Sciences of the United States of America 2005;102(39):13950-5.
2005: Vinita Joardar; Magdalen Lindeberg; Robert W Jackson; Jeremy Selengut; Robert Dodson; Lauren M Brinkac; Sean C Daugherty; Robert Deboy; A Scott Durkin; Michelle G Giglio; Ramana Madupu; William C Nelson; M J Rosovitz; Steven Sullivan; Jonathan Crabtree; Todd Creasy; Tanja Davidsen; Dan H Haft; Nikhat Zafar; Liwei Zhou; Rebecca Halpin; Tara Holley; Hoda Khouri; Tamara Feldblyum; Owen R White; Claire M Fraser-Liggett; Arun K Chatterjee; Sam Cartinhour; David J Schneider; John Mansfield; Alan Collmer; C Robin Buell
Whole-genome sequence analysis of Pseudomonas syringae pv. phaseolicola 1448A reveals divergence among pathovars in genes involved in virulence and transposition.
Journal of bacteriology 2005;187(18):6488-98.
2005: C Robin Buell; Qiaoping Yuan; Shu Ouyang; Jia Liu; Wei Zhu; Aihui Wang; Rama Maiti; Brian Haas; Jennifer Wortman; Mihaela Pertea; Kristine M Jones; Mary Kim; Larry Overton; Tamara Tsitrin; Douglas Fadrosh; Jayati Bera; Bruce Weaver; Shaohua Jin; Shivani Johri; Matt Reardon; Kristen Webb; Jessica Hill; Kelly Moffat; Luke Tallon; Susan Van Aken; Matthew Lewis; Teresa Utterback; Tamara Feldblyum; Victoria L Zismann; Stacey Iobst; Joseph Hsiao; Aymeric R de Vazeille; Steven L Salzberg; Owen R White; Claire M Fraser-Liggett; Yeisoo Yu; HeyRan Kim; Teri Rambo; Jennifer Currie; Kristi Collura; Shelly Kernodle-Thompson; Fusheng Wei; Kudrna Kudrna; Jetty Siva S Ammiraju; Meizhong Luo; Jose Luis Goicoechea; Rod A Wing; David Henry; Ryan Oates; Michael Palmer; Gina Pries; Christopher Saski; Jessica Simmons; Carol Soderlund; William Nelson; Melissa de la Bastide; Lori Spiegel; Lidia Nascimento; Emily Huang; Raymond Preston; Theresa Zutavern; Lance Palmer; Andrew O'Shaughnessy; Sujit Dike; W Richard McCombie; Pat Minx; Holly Cordum; Richard Wilson; Weiwei Jin; Hye-Ran Lee; Jiming Jiang; Scott Jackson
Sequence, annotation, and analysis of synteny between rice chromosome 3 and diverged grass species.
Genome research 2005;15(9):1284-91.
2005: Matthew Berriman; Elodie Ghedin; Christiane Hertz-Fowler; Gaëlle Blandin; Hubert Renauld; Daniella C Bartholomeu; Nicola J Lennard; Elisabet Caler; Nancy E Hamlin; Brian Haas; Ulrike Böhme; Linda Hannick; Martin A Aslett; Joshua Shallom; Lucio Marcello; Lihua Hou; Bill Wickstead; U Cecilia M Alsmark; Claire Arrowsmith; Rebecca J Atkin; Andrew J Barron; Frederic Bringaud; Karen Brooks; Mark Carrington; Inna Cherevach; Tracey-Jane Chillingworth; Carol Churcher; Louise N Clark; Craig H Corton; Ann Cronin; Rob M Davies; Jonathon Doggett; Appolinaire Djikeng; Tamara Feldblyum; Mark Field; Audrey Fraser; Ian Goodhead; Zahra Hance; David Harper; Barbara R Harris; Heidi Hauser; Jessica Hostetler; Alasdair Ivens; Kay Jagels; David Johnson; Justin Johnson; Kristine Jones; Arnaud Kerhornou; Hean Koo; Natasha Larke; Scott M Landfear; Christopher Larkin; Vanessa Leech; Alexandra Line; Angela Lord; Annette Macleod; Paul J Mooney; Sharon Moule; David M A Martin; Gareth W Morgan; Karen Mungall; Halina Norbertczak; Doug Ormond; Grace Pai; Chris S Peacock; Jeremy Peterson; Michael A Quail; Ester Rabbinowitsch; Marie-Adele Rajandream; Chris Reitter; Steven L Salzberg; Mandy Sanders; Seth Schobel; Sarah Sharp; Mark Simmonds; Anjana J Simpson; Luke Tallon; C Michael R Turner; Andrew Tait; Adrian R Tivey; Susan Van Aken; Danielle Walker; David Wanless; Shiliang Wang; Brian White; Owen R White; Sally Whitehead; John Woodward; Jennifer Wortman; Mark D Adams; T Martin Embley; Keith Gull; Elisabetta Ullu; J David Barry; Alan H Fairlamb; Fred Opperdoes; Barclay G Barrell; John E Donelson; Neil Hall; Claire M Fraser-Liggett; Sara E Melville; Najib M El-Sayed
The genome of the African trypanosome Trypanosoma brucei.
Science (New York, N.Y.) 2005;309(5733):416-22.
2005: Najib M El-Sayed; Peter J Myler; Daniella C Bartholomeu; Daniel Nilsson; Gautam Aggarwal; Anh-Nhi Tran; Elodie Ghedin; Elizabeth A Worthey; Arthur L Delcher; Gaëlle Blandin; Scott Westenberger; Elisabet Caler; Gustavo Cerqueira; Carole Branche; Brian Haas; Atashi Anupama; Erik Arner; Lena Aslund; Philip Attipoe; Esteban Bontempi; Frédéric Bringaud; Peter Burton; Eithon Cadag; David A Campbell; Mark Carrington; Jonathan Crabtree; Hamid Darban; Jose Franco da Silveira; Pieter de Jong; Kimberly Edwards; Paul T Englund; Gholam Fazelina; Tamara Feldblyum; Marcela Ferella; Alberto Carlos Frasch; Keith Gull; David Horn; Lihua Hou; Yiting Huang; Ellen Kindlund; Michele Klingbeil; Sindy Kluge; Hean Koo; Daniela Lacerda; Mariano J Levin; Hernan Lorenzi; Tin Louie; Carlos Renato Machado; Richard McCulloch; Alan McKenna; Yumi Mizuno; Jeremy C Mottram; Siri Nelson; Stephen Ochaya; Kazutoyo Osoegawa; Grace Pai; Marilyn Parsons; Martin Pentony; Ulf Pettersson; Mihai Pop; Jose Ramirez; Joel Rinta; Laura Robertson; Steven L Salzberg; Daniel O Sanchez; Amber Seyler; Reuben Sharma; Jyoti Shetty; Anjana J Simpson; Ellen Sisk; Martti T Tammi; Rick L Tarleton; Santuza Teixeira; Susan Van Aken; Christy Vogt; Pauline N Ward; Bill Wickstead; Jennifer Wortman; Owen R White; Claire M Fraser-Liggett; Kenneth D Stuart; Björn Andersson
The genome sequence of Trypanosoma cruzi, etiologic agent of Chagas disease.
Science (New York, N.Y.) 2005;309(5733):409-15.
2005: Najib M El-Sayed; Peter J Myler; Gaëlle Blandin; Matthew Berriman; Jonathan Crabtree; Gautam Aggarwal; Elisabet Caler; Hubert Renauld; Elizabeth A Worthey; Christiane Hertz-Fowler; Elodie Ghedin; Christopher Peacock; Daniella C Bartholomeu; Brian J Haas; Anh-Nhi Tran; Jennifer Wortman; U Cecilia M Alsmark; Samuel Angiuoli; Atashi Anupama; Jonathan Badger; Frederic Bringaud; Eithon Cadag; Jane M Carlton; Gustavo Cerqueira; Todd Creasy; Arthur L Delcher; Appolinaire Djikeng; T Martin Embley; Christopher Hauser; Alasdair Ivens; Sarah K Kummerfeld; Jose Pereira-Leal; Daniel Nilsson; Jeremy Peterson; Steven L Salzberg; Joshua Shallom; Joana Carneiro Da Silva; Jaideep Sundaram; Scott Westenberger; Owen R White; Sara E Melville; John E Donelson; Björn Andersson; Kenneth D Stuart; Neil Hall
Comparative genomics of trypanosomatid parasitic protozoa.
Science (New York, N.Y.) 2005;309(5733):404-9.
2005: Malcolm J Gardner; Richard Bishop; Trushar Shah; Etienne de Villiers; Jane M Carlton; Neil Hall; Qinghu Ren; Ian Paulsen; Arnab Pain; Matthew Berriman; Robert J M Wilson; Shigeharu Sato; Stuart A Ralph; David J Mann; Zikai Xiong; Shamira J Shallom; Janice Weidman; Lingxia Jiang; Jeffery Lynn; Bruce Weaver; Azadeh Shoaibi; Alexander R Domingo; Delia Wasawo; Jonathan Crabtree; Jennifer Wortman; Brian Haas; Samuel V Angiuoli; Todd H Creasy; Charles Lu; Bernard Suh; Joana Carneiro Da Silva; Teresa R Utterback; Tamara V Feldblyum; Mihaela Pertea; Jonathan Allen; William C Nierman; Evans L N Taracha; Steven L Salzberg; Owen R White; Henry A Fitzhugh; Subhash Morzaria; J Craig Venter; Claire M Fraser-Liggett; Vishvanath Nene
Genome sequence of Theileria parva, a bovine pathogen that transforms lymphocytes.
Science (New York, N.Y.) 2005;309(5731):134-7.
2005: Mulu Ayele; Brian J Haas; Nikhil Kumar; Hank Wu; Yongli Xiao; Susan Van Aken; Teresa Utterback; Jennifer Wortman; Owen R White; Christopher D Town
Whole genome shotgun sequencing of Brassica oleracea and its application to gene discovery and annotation in Arabidopsis.
Genome research 2005;15(4):487-95.
2005: Daniel H Haft; Jeremy D Selengut; Lauren M Brinkac; Nikhat Zafar; Owen R White
Genome Properties: a system for the investigation of prokaryotic genetic content for microbiology, genome annotation and comparative genomics.
Bioinformatics (Oxford, England) 2005;21(3):293-306.
2005: Richard Bishop; Trushar Shah; Roger Pelle; David C Hoyle; Terry Pearson; Lee Haines; Andrew Brass; Helen Hulme; Simon P Graham; Evans L N Taracha; Simon Kanga; Charles Lu; Brian Hass; Jennifer Wortman; Owen R White; Malcolm J Gardner; Vishvanath Nene; Etienne de Villiers
Analysis of the transcriptome of the protozoan Theileria parva using MPSS reveals that the majority of genes are transcriptionally active in the schizont stage.
Nucleic acids research 2005;33(17):5503-11.
2005: Brian J Haas; Jennifer Wortman; Catherine M Ronning; Linda I Hannick; Roger K Smith; Rama Maiti; Agnes P Chan; Chunhui Yu; Maryam Farzad; Dongying Wu; Owen R White; Christopher D Town
Complete reannotation of the Arabidopsis genome: methods, tools, protocols and the final release.
BMC biology 2005;3():7.
2004: William C Nierman; David DeShazer; Heenam Stanley Kim; Hervé Tettelin; Karen E Nelson; Tamara Feldblyum; Ricky L Ulrich; Catherine M Ronning; Lauren M Brinkac; Sean C Daugherty; Tanja D Davidsen; Robert T Deboy; George Dimitrov; Robert J Dodson; A Scott Durkin; Michelle G Giglio; Daniel H Haft; Hoda Khouri; James F Kolonay; Ramana Madupu; Yasmin Mohammoud; William C Nelson; Diana Radune; Claudia M Romero; Saul Sarria; Jeremy Selengut; Christine Shamblin; Steven A Sullivan; Owen R White; Yan Yu; Nikhat Zafar; Liwei Zhou; Claire M Fraser-Liggett
Structural flexibility in the Burkholderia mallei genome.
Proceedings of the National Academy of Sciences of the United States of America 2004;101(39):14246-51.
2004: J Craig Venter; Karin Remington; John F Heidelberg; Aaron L Halpern; Douglas B Rusch; Jonathan Eisen; Dongying Wu; Ian Paulsen; Karen E Nelson; William Nelson; Derrick E Fouts; Samuel Levy; Anthony H Knap; Michael W Lomas; Ken Nealson; Owen R White; Jeremy Peterson; Jeff Hoffman; Rachel Parsons; Holly Baden-Tillson; Cynthia Pfannkoch; Yu-Hui Rogers; Hamilton O Smith
Environmental genome shotgun sequencing of the Sargasso Sea.
Science (New York, N.Y.) 2004;304(5667):66-74.
2004: Elodie Ghedin; Frédéric Bringaud; Jeremy Peterson; Peter J Myler; Matthew Berriman; Alasdair Ivens; Björn Andersson; Esteban Bontempi; Jonathan Eisen; Samuel V Angiuoli; David Wanless; Anna Von Arx; Lee Murphy; Nicola Lennard; Steven L Salzberg; Mark D Adams; Owen R White; Neil Hall; Kenneth Stuart; Claire M Fraser-Liggett; Najib M El-Sayed
Gene synteny and evolution of genome architecture in trypanosomatids.
Molecular and biochemical parasitology 2004;134(2):183-91.
2004: Karen E Nelson; Derrick E Fouts; Emmanuel F Mongodin; Jacques Ravel; Robert T DeBoy; James F Kolonay; David Rasko; Samuel V Angiuoli; Steven R Gill; Ian Paulsen; Jeremy Peterson; Owen R White; William C Nelson; William Nierman; Maureen J Beanan; Lauren M Brinkac; Sean C Daugherty; Robert J Dodson; A Scott Durkin; Ramana Madupu; Daniel H Haft; Jeremy Selengut; Susan Van Aken; Hoda Khouri; Nadia Fedorova; Heather Forberger; Bao Tran; Sophia Kathariou; Laura D Wonderling; Gaylen A Uhlich; Darrell O Bayles; John B Luchansky; Claire M Fraser-Liggett
Whole genome comparisons of serotype 4b and 1/2a strains of the food-borne pathogen Listeria monocytogenes reveal new insights into the core genome components of this species.
Nucleic acids research 2004;32(8):2386-95.
2003: B A Methé; K E Nelson; Jonathan Eisen; Ian Paulsen; W Nelson; J F Heidelberg; D Wu; M Wu; N Ward; M J Beanan; R J Dodson; R Madupu; L M Brinkac; S C Daugherty; R T DeBoy; A S Durkin; Michelle G Giglio; J F Kolonay; S A Sullivan; D H Haft; J Selengut; T M Davidsen; N Zafar; Owen R White; B Tran; C Romero; H A Forberger; J Weidman; H Khouri; T V Feldblyum; T R Utterback; S E Van Aken; D R Lovley; Claire M Fraser-Liggett
Genome of Geobacter sulfurreducens: metal reduction in subsurface environments.
Science (New York, N.Y.) 2003;302(5652):1967-9.
2003: Brian J Haas; Arthur L Delcher; Steve Mount; Jennifer Wortman; Roger K Smith; Linda I Hannick; Rama Maiti; Catherine M Ronning; Douglas B Rusch; Christopher D Town; Steven L Salzberg; Owen R White
Improving the Arabidopsis genome annotation using maximal transcript alignment assemblies.
Nucleic acids research 2003;31(19):5654-66.
2003: C Robin Buell; Vinita Joardar; Magdalen Lindeberg; Jeremy Selengut; Ian Paulsen; Michelle G Giglio; Robert J Dodson; Robert T Deboy; A Scott Durkin; James F Kolonay; Ramana Madupu; Sean Daugherty; Lauren Brinkac; Maureen J Beanan; Daniel H Haft; William C Nelson; Tanja Davidsen; Nikhat Zafar; Liwei Zhou; Jia Liu; Qiaoping Yuan; Hoda Khouri; Nadia Fedorova; Bao Tran; Daniel Russell; Kristi Berry; Teresa Utterback; Susan E Van Aken; Tamara V Feldblyum; Mark D'Ascenzo; Wen-Ling Deng; Adela R Ramos; James R Alfano; Samuel Cartinhour; Arun K Chatterjee; Terrence P Delaney; Sondra G Lazarowitz; Gregory B Martin; David J Schneider; Xiaoyan Tang; Carol Bender; Owen R White; Claire M Fraser-Liggett; Alan Collmer
The complete genome sequence of the Arabidopsis and tomato pathogen Pseudomonas syringae pv. tomato DC3000.
Proceedings of the National Academy of Sciences of the United States of America 2003;100(18):10181-6.
2003: Eric S Miller; John F Heidelberg; Jonathan Eisen; William C Nelson; A Scott Durkin; Ann Ciecko; Tamara Feldblyum; Owen R White; Ian Paulsen; William C Nierman; Jong Lee; Bridget Szczypinski; Claire M Fraser-Liggett
Complete genome sequence of the broad-host-range vibriophage KVP40: comparative genomics of a T4-related bacteriophage.
Journal of bacteriology 2003;185(17):5220-33.
2003: Najib M A El-Sayed; Elodie Ghedin; Jinming Song; Annette MacLeod; Frederic Bringaud; Christopher Larkin; David Wanless; Jeremy Peterson; Lihua Hou; Sonya Taylor; Alison Tweedie; Nicolas Biteau; Hanif Khalak; Xiaoying Lin; Tanya Mason; Linda Hannick; Elisabet Caler; Gaëlle Blandin; Daniella Bartholomeu; Anjana J Simpson; Samir Kaul; Hong Zhao; Grace Pai; Susan Van Aken; Teresa Utterback; Brian Haas; Hean L Koo; Lowell Umayam; Bernard Suh; Caroline Gerrard; Vanessa Leech; Rong Qi; Shiguo Zhou; David Schwartz; Tamara Feldblyum; Steven L Salzberg; Andrew Tait; C Michael R Turner; Elisabetta Ullu; Owen R White; Sara Melville; Mark D Adams; Claire M Fraser-Liggett; John E Donelson
The sequence and analysis of Trypanosoma brucei chromosome II.
Nucleic acids research 2003;31(16):4856-63.
2003: Jennifer Wortman; Brian J Haas; Linda I Hannick; Roger K Smith; Rama Maiti; Catherine M Ronning; Agnes P Chan; Chunhui Yu; Mulu Ayele; Catherine A Whitelaw; Owen R White; Christopher D Town
Annotation of the Arabidopsis genome.
Plant physiology 2003;132(2):461-8.
2003: Timothy D Read; Scott N Peterson; Nicolas Tourasse; Les W Baillie; Ian Paulsen; Karen E Nelson; Hervé Tettelin; Derrick E Fouts; Jonathan Eisen; Steven R Gill; Erik K Holtzapple; Ole Andreas Okstad; Erlendur Helgason; Jennifer Rilstone; Martin Wu; James F Kolonay; Maureen J Beanan; Robert J Dodson; Lauren M Brinkac; Michelle G Giglio; Robert T DeBoy; Ramana Madpu; Sean C Daugherty; A Scott Durkin; Daniel H Haft; William C Nelson; Jeremy D Peterson; Mihai Pop; Hoda M Khouri; Diana Radune; Jonathan L Benton; Yasmin Mahamoud; Lingxia Jiang; Ioana R Hance; Janice F Weidman; Kristi J Berry; Roger D Plaut; Alex M Wolf; Kisha L Watkins; William C Nierman; Alyson Hazen; Robin Cline; Caroline Redmond; Joanne E Thwaite; Owen R White; Steven L Salzberg; Brendan Thomason; Arthur M Friedlander; Theresa Koehler; Philip C Hanna; Anne-Brit Kolstø; Claire M Fraser-Liggett
The genome sequence of Bacillus anthracis Ames and comparison to closely related bacteria.
Nature 2003;423(6935):81-6.
2003: Steven L Salzberg; Ewan Birney; Sean Eddy; Owen R White
Unrestricted free access works and must continue.
Nature 2003;422(6934):801.
2003: Timothy D Read; Garry S A Myers; Robert brunham; William C Nelson; Ian Paulsen; John F Heidelberg; Erik Holtzapple; Hoda Khouri; N B Federova; H A Carty; Lowell Umayam; Daniel H Haft; J Peterson; Maureen J Beanan; Owen R White; Steven L Salzberg; Ruching Hsia; Grant McClarty; Roger Rank; Patrik M Bavoil; Claire M Fraser-Liggett
Genome sequence of Chlamydophila caviae (Chlamydia psittaci GPIC): examining the role of niche-specific genes in the evolution of the Chlamydiaceae.
Nucleic acids research 2003;31(8):2134-47.
2003: Daniel H Haft; Jeremy D Selengut; Owen R White
The TIGRFAMs database of protein families.
Nucleic acids research 2003;31(1):371-3.
2002: K E Nelson; C Weinel; Ian Paulsen; R J Dodson; H Hilbert; V A P Martins dos Santos; D E Fouts; S R Gill; Mihai Pop; M Holmes; L Brinkac; M Beanan; R T DeBoy; S Daugherty; J Kolonay; R Madupu; W Nelson; Owen R White; J Peterson; H Khouri; I Hance; P Chris Lee; E Holtzapple; D Scanlan; K Tran; A Moazzez; T Utterback; M Rizzo; K Lee; D Kosack; D Moestl; Holger Wedler; J Lauber; D Stjepandic; J Hoheisel; M Straetz; S Heim; C Kiewitz; Jonathan Eisen; K N Timmis; A Düsterhöft; B Tümmler; Claire M Fraser-Liggett
Complete genome sequence and comparative analysis of the metabolically versatile Pseudomonas putida KT2440.
Environmental microbiology 2002;4(12):799-808.
2002: John F Heidelberg; Ian Paulsen; Karen E Nelson; Eric J Gaidos; William C Nelson; Timothy D Read; Jonathan Eisen; Rekha Seshadri; Naomi Ward; Barbara Methe; Rebecca A Clayton; Terry Meyer; Alexandre Tsapin; James Scott; Maureen Beanan; Lauren Brinkac; Sean Daugherty; Robert T DeBoy; Robert J Dodson; A Scott Durkin; Daniel H Haft; James F Kolonay; Ramana Madupu; Jeremy D Peterson; Lowell A Umayam; Owen R White; Alex M Wolf; Jessica Vamathevan; Janice Weidman; Marjorie Impraim; Kathy Lee; Kristy Berry; Chris Lee; Jacob Mueller; Hoda Khouri; John Gill; Terry R Utterback; Lisa A McDonald; Tamara V Feldblyum; Hamilton O Smith; J Craig Venter; Kenneth H Nealson; Claire M Fraser-Liggett
Genome sequence of the dissimilatory metal ion-reducing bacterium Shewanella oneidensis.
Nature biotechnology 2002;20(11):1118-23.
2002: Malcolm J Gardner; Shamira J Shallom; Jane M Carlton; Steven L Salzberg; Vishvanath Nene; Azadeh Shoaibi; Anne Ciecko; Jeffery Lynn; Michael Rizzo; Bruce Weaver; Behnam Jarrahi; Michael Brenner; Babak Parvizi; Luke Tallon; Azita Moazzez; David Granger; Claire Fujii; Cheryl Hansen; James Pederson; Tamara Feldblyum; Jeremy Peterson; Bernard Suh; Sam Angiuoli; Mihaela Pertea; Jonathan Allen; Jeremy Selengut; Owen R White; Leda M Cummings; Hamilton O Smith; Mark D Adams; J Craig Venter; Daniel J Carucci; Stephen L Hoffman; Claire M Fraser-Liggett
Sequence of Plasmodium falciparum chromosomes 2, 10, 11 and 14.
Nature 2002;419(6906):531-4.
2002: Jane M Carlton; Samuel V Angiuoli; Bernard B Suh; Taco W Kooij; Mihaela Pertea; Joana Carneiro Da Silva; Maria D Ermolaeva; Jonathan E Allen; Jeremy D Selengut; Hean L Koo; Jeremy D Peterson; Mihai Pop; Daniel S Kosack; Martin F Shumway; Shelby L Bidwell; Shamira J Shallom; Susan E van Aken; Steven B Riedmuller; Tamara V Feldblyum; Jennifer K Cho; John Quackenbush; Martha Sedegah; Azadeh Shoaibi; Leda M Cummings; Laurence Florens; John R Yates; J Dale Raine; Robert E Sinden; Michael A Harris; Deirdre A Cunningham; Peter R Preiser; Lawrence W Bergman; Akhil B Vaidya; Leo H van Lin; Chris J Janse; Andrew P Waters; Hamilton O Smith; Owen R White; Steven L Salzberg; J Craig Venter; Claire M Fraser-Liggett; Stephen L Hoffman; Malcolm J Gardner; Daniel J Carucci
Genome sequence and comparative analysis of the model rodent malaria parasite Plasmodium yoelii yoelii.
Nature 2002;419(6906):512-9.
2002: Malcolm J Gardner; Neil Hall; Eula Fung; Owen R White; Matthew Berriman; Richard W Hyman; Jane M Carlton; Arnab Pain; Karen E Nelson; Sharen Bowman; Ian Paulsen; Keith James; Jonathan Eisen; Kim Rutherford; Steven L Salzberg; Alister Craig; Sue Kyes; Man-Suen Chan; Vishvanath Nene; Shamira J Shallom; Bernard Suh; Jeremy Peterson; Sam Angiuoli; Mihaela Pertea; Jonathan Allen; Jeremy Selengut; Daniel Haft; Michael W Mather; Akhil B Vaidya; David M A Martin; Alan H Fairlamb; Martin J Fraunholz; David S Roos; Stuart A Ralph; Geoffrey I McFadden; Leda M Cummings; G. SUBRAMANIAN; Chris Mungall; J Craig Venter; Daniel J Carucci; Stephen L Hoffman; Chris Newbold; Ronald W Davis; Claire M Fraser-Liggett; Bart Barrell
Genome sequence of the human malaria parasite Plasmodium falciparum.
Nature 2002;419(6906):498-511.
2002: Ian Paulsen; Rekha Seshadri; Karen E Nelson; Jonathan Eisen; John F Heidelberg; Timothy D Read; Robert J Dodson; Lowell Umayam; Lauren M Brinkac; Maureen J Beanan; Sean C Daugherty; Robert T Deboy; A Scott Durkin; James F Kolonay; Ramana Madupu; William C Nelson; Bola Ayodeji; Margaret Kraul; Jyoti Shetty; Joel Malek; Susan E Van Aken; Steven Riedmuller; Hervé Tettelin; Steven R Gill; Owen R White; Steven L Salzberg; David L Hoover; Luther E Lindler; Shirley M Halling; Stephen M Boyle; Claire M Fraser-Liggett
The Brucella suis genome reveals fundamental similarities between animal and plant pathogens and symbionts.
Proceedings of the National Academy of Sciences of the United States of America 2002;99(20):13148-53.
2002: Robert D Fleischmann; David Alland; Jonathan Eisen; L Carpenter; Owen R White; J Peterson; Robert T Deboy; Robert J Dodson; Michelle G Giglio; Daniel H Haft; EK Hickey; James F Kolonay; William C Nelson; Lowell Umayam; Maria D Ermolaeva; Steven L Salzberg; Arthur L Delcher; Teresa Utterback; Janice Weidman; Hoda Khouri; J Gill; A Mikula; William R Bishai; W R Jacobs Jr; J Craig Venter; Claire M Fraser-Liggett
Whole-genome comparison of Mycobacterium tuberculosis clinical and laboratory strains.
Journal of bacteriology 2002;184(19):5479-90.
2002: Jonathan Eisen; Karen E Nelson; Ian Paulsen; John F Heidelberg; Martin Wu; Robert J Dodson; Robert Deboy; Michelle G Giglio; William C Nelson; Daniel H Haft; Erin K Hickey; Jeremy D Peterson; A Scott Durkin; James L Kolonay; Fan Yang; Ingeborg Holt; Lowell A Umayam; Tanya Mason; Michael Brenner; Terrance P Shea; Debbie Parksey; William C Nierman; Tamara V Feldblyum; Cheryl L Hansen; M Brook Craven; Diana Radune; Jessica Vamathevan; Hoda Khouri; Owen R White; Tanja M Gruber; Karen A Ketchum; J Craig Venter; Hervé Tettelin; Donald A Bryant; Claire M Fraser-Liggett
The complete genome sequence of Chlorobium tepidum TLS, a photosynthetic, anaerobic, green-sulfur bacterium.
Proceedings of the National Academy of Sciences of the United States of America 2002;99(14):9509-14.
2002: James E Galagan; Chad Nusbaum; Alice Roy; Matthew G Endrizzi; Pendexter Macdonald; Will FitzHugh; Sarah Calvo; Reinhard Engels; Serge Smirnov; DEVEN ATNOOR; Adam Brown; Nicole Allen; Jerome Naylor; Nicole Stange-Thomann; Kurt DeArellano; Robin Johnson; Lauren Linton; Paul McEwan; Kevin McKernan; Jessica Talamas; Andrea Tirrell; Wenjuan Ye; Andrew Zimmer; Rob Barber; Isaac Cann; David E Graham; David A Grahame; Adam M Guss; Reiner Hedderich; Cheryl Ingram-Smith; H Craig Kuettner; Joseph A Krzycki; John A Leigh; Weixi Li; Jinfeng Liu; Biswarup Mukhopadhyay; John N Reeve; Kerry S Smith; Timothy A Springer; Lowell A Umayam; Owen R White; Robert H White; Everly Conway de Macario; James G Ferry; Ken F Jarrell; Hua Jing; Alberto J L Macario; Ian Paulsen; Matthew Pritchett; Kevin R Sowers; Ron Swanson; Steven H Zinder; Eric Lander; William W Metcalf; Bruce Birren
The genome of M. acetivorans reveals extensive metabolic and physiological diversity.
Genome research 2002;12(4):532-42.
2002: Brian J Haas; Natalia Volfovsky; Christopher D Town; Maxim Troukhan; Nickolai N Alexandrov; Kenneth A Feldmann; Richard B Flavell; Owen R White; Steven L Salzberg
Full-length messenger RNA sequences greatly improve genome annotation.
Genome biology 2002;3(6):RESEARCH0029.
2001: Hervé Tettelin; K E Nelson; Ian Paulsen; Jonathan Eisen; T D Read; S Peterson; J Heidelberg; R T DeBoy; D H Haft; R J Dodson; A S Durkin; Michelle G Giglio; J F Kolonay; W C Nelson; J D Peterson; L A Umayam; Owen R White; Steven L Salzberg; M R Lewis; D Radune; E Holtzapple; H Khouri; A M Wolf; T R Utterback; C L Hansen; L A McDonald; T V Feldblyum; S Angiuoli; T Dickinson; E K Hickey; I E Holt; B J Loftus; F Yang; Hamilton O Smith; J C Venter; B A Dougherty; Donald A Morrison; Susan Kay Hollingshead; Claire M Fraser-Liggett
Complete genome sequence of a virulent isolate of Streptococcus pneumoniae.
Science (New York, N.Y.) 2001;293(5529):498-506.
2001: Steven L Salzberg; Owen R White; J Peterson; Jonathan Eisen
Microbial genes in the human genome: lateral transfer or gene loss?
Science (New York, N.Y.) 2001;292(5523):1903-6.
2001: Michael Bevan; K Mayer; Owen R White; Jonathan Eisen; Daphne Preuss; T Bureau; Steven L Salzberg; H W Mewes
Sequence and analysis of the Arabidopsis genome.
Current opinion in plant biology 2001;4(2):105-10.
2001: W C Nierman; T V Feldblyum; M T Laub; Ian Paulsen; K E Nelson; Jonathan Eisen; J F Heidelberg; M R Alley; N Ohta; Janine R Maddock; I Potocka; W C Nelson; A Newton; C Stephens; N D Phadke; Bert Ely; R T DeBoy; R J Dodson; A S Durkin; Michelle G Giglio; D H Haft; J F Kolonay; J Smit; M B Craven; H Khouri; J Shetty; K Berry; T Utterback; K Tran; A Wolf; J Vamathevan; M Ermolaeva; Owen R White; Steven L Salzberg; J C Venter; L Shapiro; Claire M Fraser-Liggett; Jonathan Eisen
Complete genome sequence of Caulobacter crescentus.
Proceedings of the National Academy of Sciences of the United States of America 2001;98(7):4136-41.
2001: Maria D Ermolaeva; Owen R White; Steven L Salzberg
Prediction of operons in microbial genomes.
Nucleic acids research 2001;29(5):1216-21.
2001: J D Peterson; Lowell Umayam; T Dickinson; EK Hickey; Owen R White
The Comprehensive Microbial Resource.
Nucleic acids research 2001;29(1):123-5.
2001: Daniel H Haft; B J Loftus; D L Richardson; F Yang; Jonathan Eisen; Ian Paulsen; Owen R White
TIGRFAMs: a protein family resource for the functional identification of proteins.
Nucleic acids research 2001;29(1):41-3.
2000: M Salanoubat; K Lemcke; M Rieger; W Ansorge; M Unseld; B Fartmann; G Valle; H Blöcker; Manuel Perez-Alonso; B Obermaier; M Delseny; M Boutry; L A Grivell; R Mache; P Puigdomènech; V De Simone; N Choisne; F Artiguenave; C Robert; P Brottier; P Wincker; L Cattolico; J Weissenbach; W Saurin; F Quétier; M Schäfer; S Müller-Auer; C Gabel; M Fuchs; V Benes; E Wurmbach; H Drzonek; H Erfle; N Jordan; S Bangert; R Wiedelmann; H Kranz; H Voss; R Holland; P Brandt; G Nyakatura; A Vezzi; M D'Angelo; A Pallavicini; S Toppo; B Simionati; A Conrad; K Hornischer; G Kauer; T H Löhnert; G Nordsiek; J Reichelt; M Scharfe; O Schön; M Bargues; J Terol; Joan CLIMENT; P Navarro; C Collado; A Perez-Perez; B Ottenwälder; D Duchemin; R Cooke; M Laudie; C Berger-Llauro; B Purnelle; D Masuy; M de Haan; A C Maarse; J P Alcaraz; A Cottet; E Casacuberta; A Monfort; A Argiriou; M flores; R Liguori; D Vitale; G Mannhaupt; D Haase; H Schoof; S Rudd; P Zaccaria; H W Mewes; K F Mayer; S Kaul; C D Town; H L Koo; L J Tallon; J Jenkins; T Rooney; M Rizzo; A Walts; T Utterback; C Y Fujii; T P Shea; T H Creasy; B Haas; R Maiti; D Wu; J Peterson; S Van Aken; G Pai; J Militscher; P Sellers; J E Gill; T V Feldblyum; D Preuss; X Lin; W C Nierman; Steven L Salzberg; Owen R White; J C Venter; Claire M Fraser-Liggett; T Kaneko; Y Nakamura; S Sato; T Kato; E Asamizu; S Sasamoto; T Kimura; K Idesawa; K Kawashima; Y Kishida; C Kiyokawa; M Kohara; M Matsumoto; A Matsuno; A Muraki; S Nakayama; N Nakazaki; S Shinpo; C Takeuchi; T Wada; A Watanabe; M Yamada; M Yasuda; S Tabata
Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana.
Nature 2000;408(6814):820-2.
2000: A Theologis; J R Ecker; C J Palm; N A Federspiel; S Kaul; Owen R White; J Alonso; H Altafi; R Araujo; C L Bowman; S Y Brooks; E Buehler; A Chan; Q Chao; H Chen; R F Cheuk; C W Chin; M K Chung; L Conn; A B Conway; A R Conway; T H Creasy; K Dewar; P Dunn; P Etgu; T V Feldblyum; J Feng; B Fong; C Y Fujii; J E Gill; A D Goldsmith; B Haas; N F Hansen; B Hughes; L Huizar; J L Hunter; J Jenkins; C Johnson-Hopson; S Khan; E Khaykin; C J Kim; H L Koo; I Kremenetskaia; D B Kurtz; A Kwan; B Lam; S Langin-Hooper; A Lee; J M Lee; C A Lenz; J H Li; Y Li; X Lin; S X Liu; Z A Liu; J S Luros; R Maiti; A Marziali; J Militscher; M Miranda; M Nguyen; W C Nierman; B I Osborne; G Pai; J Peterson; P K Pham; M Rizzo; T Rooney; D Rowley; H Sakano; Steven L Salzberg; J R Schwartz; P Shinn; A M Southwick; H Sun; L J Tallon; G Tambunga; M J Toriumi; C D Town; T Utterback; S Van Aken; M Vaysberg; V S Vysotskaia; M Walker; D Wu; G Yu; Claire M Fraser-Liggett; J C Venter; R W Davis
Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana.
Nature 2000;408(6814):816-20.
2000: Maria D Ermolaeva; Hanif Khalak; Owen R White; Hamilton O Smith; Steven L Salzberg
Prediction of transcription terminators in bacterial genomes.
Journal of molecular biology 2000;301(1):27-33.
2000: J F Heidelberg; Jonathan Eisen; W C Nelson; R A Clayton; Michelle G Giglio; R J Dodson; D H Haft; E K Hickey; J D Peterson; L Umayam; S R Gill; K E Nelson; T D Read; Hervé Tettelin; D Richardson; M D Ermolaeva; J Vamathevan; S Bass; H Qin; I Dragoi; P Sellers; L McDonald; T Utterback; R D Fleishmann; W C Nierman; Owen R White; Steven L Salzberg; Hamilton O Smith; Rita R Colwell; J J Mekalanos; J C Venter; Claire M Fraser-Liggett
DNA sequence of both chromosomes of the cholera pathogen Vibrio cholerae.
Nature 2000;406(6795):477-83.
2000: Timothy D Read; Robert brunham; C Shen; Steven R Gill; John F Heidelberg; Owen R White; EK Hickey; J Peterson; Teresa Utterback; K Berry; S Bass; K Linher; Janice Weidman; Hoda Khouri; B Craven; C Bowman; Robert J Dodson; Michelle G Giglio; W Nelson; Robert T Deboy; James F Kolonay; Grant McClarty; Steven L Salzberg; Jonathan Eisen; Claire M Fraser-Liggett
Genome sequences of Chlamydia trachomatis MoPn and Chlamydia pneumoniae AR39.
Nucleic acids research 2000;28(6):1397-406.
2000: Hervé Tettelin; N J Saunders; J Heidelberg; A C Jeffries; K E Nelson; Jonathan Eisen; K A Ketchum; D W Hood; J F Peden; R J Dodson; W C Nelson; Michelle G Giglio; R DeBoy; J D Peterson; E K Hickey; D H Haft; Steven L Salzberg; Owen R White; R D Fleischmann; B A Dougherty; T Mason; A Ciecko; D S Parksey; E Blair; H Cittone; E B Clark; M D Cotton; T R Utterback; H Khouri; H Qin; J Vamathevan; J Gill; V Scarlato; V Masignani; M Pizza; G Grandi; L Sun; Hamilton O Smith; Claire M Fraser-Liggett; E R Moxon; R Rappuoli; J C Venter
Complete genome sequence of Neisseria meningitidis serogroup B strain MC58.
Science (New York, N.Y.) 2000;287(5459):1809-15.
2000: Sherwood Casjens; N Palmer; R van Vugt; Wai Mun Huang; Brian Stevenson; Patricia Rosa; Raju Lathigra; Granger Sutton; J Peterson; Robert J Dodson; Daniel H Haft; E Hickey; Michelle G Giglio; Owen R White; Claire M Fraser-Liggett
A bacterial genome in flux: the twelve linear and nine circular extrachromosomal DNAs in an infectious isolate of the Lyme disease spirochete Borrelia burgdorferi.
Molecular microbiology 2000;35(3):490-516.
2000: Jonathan Eisen; John F Heidelberg; Owen R White; Steven L Salzberg
Evidence for symmetric chromosomal inversions around the replication origin in bacteria.
Genome biology 2000;1(6):RESEARCH0011.
1999: X Lin; S Kaul; S Rounsley; T P Shea; M I Benito; C D Town; C Y Fujii; T Mason; C L Bowman; M Barnstead; T V Feldblyum; C R Buell; K A Ketchum; J Lee; C M Ronning; H L Koo; K S Moffat; L A Cronin; M Shen; G Pai; S Van Aken; L Umayam; L J Tallon; J E Gill; M D Adams; A J Carrera; T H Creasy; H M Goodman; chris somerville; Gregory Paul Copenhaver; D Preuss; W C Nierman; Owen R White; Jonathan Eisen; Steven L Salzberg; Claire M Fraser-Liggett; J C Venter
Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana.
Nature 1999;402(6763):761-8.
1999: Clyde A Hutchison; Scott N Peterson; Steven R Gill; R T Cline; Owen R White; Claire M Fraser-Liggett; Hamilton O Smith; J Craig Venter
Global transposon mutagenesis and a minimal Mycoplasma genome.
Science (New York, N.Y.) 1999;286(5447):2165-9.
1999: Arthur L Delcher; D Harmon; S Kasif; Owen R White; Steven L Salzberg
Improved microbial gene identification with GLIMMER.
Nucleic acids research 1999;27(23):4636-41.
1999: Owen R White; Jonathan Eisen; J F Heidelberg; E K Hickey; J D Peterson; R J Dodson; D H Haft; Michelle G Giglio; W C Nelson; D L Richardson; K S Moffat; H Qin; L Jiang; W Pamphile; M Crosby; M Shen; J J Vamathevan; P Lam; L McDonald; T Utterback; C Zalewski; K S Makarova; L Aravind; Mark J Daly; K W Minton; R D Fleischmann; K A Ketchum; K E Nelson; Steven L Salzberg; Hamilton O Smith; J C Venter; Claire M Fraser-Liggett
Genome sequence of the radioresistant bacterium Deinococcus radiodurans R1.
Science (New York, N.Y.) 1999;286(5444):1571-7.
1999: Kira S Makarova; Yuri I Wolf; Owen R White; KW Minton; Michael J Daly
Short repeats and IS elements in the extremely radiation-resistant bacterium Deinococcus radiodurans and comparison to other bacterial species.
Research in microbiology 1999;150(9-10):711-24.
1999: J Lin; R Qi; C Aston; J Jing; Thomas S Anantharaman; Bud Mishra; Owen R White; Michael J Daly; KW Minton; J Craig Venter; David C Schwartz
Whole-genome shotgun optical mapping of Deinococcus radiodurans.
Science (New York, N.Y.) 1999;285(5433):1558-62.
1999: Arthur L Delcher; S Kasif; Robert D Fleischmann; J Peterson; Owen R White; Steven L Salzberg
Alignment of whole genomes.
Nucleic acids research 1999;27(11):2369-76.
1999: Karen E Nelson; RA Clayton; Steven R Gill; Michelle G Giglio; Robert J Dodson; Daniel H Haft; EK Hickey; J D Peterson; William C Nelson; KA Ketchum; L McDonald; Teresa Utterback; JA Malek; K D Linher; M M Garrett; A M Stewart; M D Cotton; M S Pratt; C A Phillips; D Richardson; John F Heidelberg; Granger Sutton; Robert D Fleischmann; Jonathan Eisen; Owen R White; Steven L Salzberg; Hamilton O Smith; J Craig Venter; Claire M Fraser-Liggett
Evidence for lateral gene transfer between Archaea and bacteria from genome sequence of Thermotoga maritima.
Nature 1999;399(6734):323-9.
1998: Malcolm J Gardner; Hervé Tettelin; Daniel J Carucci; LM Cummings; L Aravind; E V Koonin; S Shallom; T Mason; K Yu; C Fujii; J Pederson; K Shen; J Jing; C Aston; Z Lai; David C Schwartz; Mihaela Pertea; Steven L Salzberg; L Zhou; Granger Sutton; R Clayton; Owen R White; Hamilton O Smith; Claire M Fraser-Liggett; Mark D Adams; J Craig Venter; Stephen L Hoffman
Chromosome 2 sequence of the human malaria parasite Plasmodium falciparum.
Science (New York, N.Y.) 1998;282(5391):1126-32.
1998: RA Clayton; Owen R White; Claire M Fraser-Liggett
Findings emerging from complete microbial genome sequences.
Current opinion in microbiology 1998;1(5):562-6.
1998: Claire M Fraser-Liggett; S J Norris; G M Weinstock; Owen R White; G G Sutton; R Dodson; Michelle G Giglio; E K Hickey; R Clayton; K A Ketchum; E Sodergren; J M Hardham; M P McLeod; Steven L Salzberg; J Peterson; Hanif Khalak; D Richardson; J K Howell; M Chidambaram; T Utterback; L McDonald; P Artiach; C Bowman; M D Cotton; C Fujii; S Garland; B Hatch; K Horst; K Roberts; M Sandusky; J Weidman; Hamilton O Smith; J C Venter
Complete genome sequence of Treponema pallidum, the syphilis spirochete.
Science (New York, N.Y.) 1998;281(5375):375-88.
1998: Steven L Salzberg; Arthur L Delcher; S Kasif; Owen R White
Microbial gene identification using interpolated Markov models.
Nucleic acids research 1998;26(2):544-8.
1997: Claire M Fraser-Liggett; S Casjens; W M Huang; G G Sutton; R Clayton; Raju Lathigra; Owen R White; K A Ketchum; R Dodson; E K Hickey; Michelle G Giglio; B Dougherty; J F Tomb; R D Fleischmann; D Richardson; J Peterson; A R Kerlavage; John Quackenbush; Steven L Salzberg; Mark S Hanson; R van Vugt; N Palmer; M D Adams; J Gocayne; J Weidman; T Utterback; L Watthey; L McDonald; P Artiach; C Bowman; S Garland; C Fuji; M D Cotton; K Horst; K Roberts; B Hatch; Hamilton O Smith; J C Venter
Genomic sequence of a Lyme disease spirochaete, Borrelia burgdorferi.
Nature 1997;390(6660):580-6.
1997: H P Klenk; R A Clayton; J F Tomb; Owen R White; K E Nelson; K A Ketchum; R J Dodson; Michelle G Giglio; E K Hickey; J D Peterson; D L Richardson; A R Kerlavage; D E Graham; Nikos Kyrpides; R D Fleischmann; John Quackenbush; N H Lee; G G Sutton; S Gill; E F Kirkness; B A Dougherty; keith h mckenney; M D Adams; B Loftus; S Peterson; C I Reich; Leslie Klis McNeil; J H Badger; A Glodek; L Zhou; R Overbeek; J D Gocayne; J F Weidman; L McDonald; T Utterback; M D Cotton; T Spriggs; P Artiach; B P Kaine; S M Sykes; P W Sadow; K P D'Andrea; C Bowman; C Fujii; S A Garland; T M Mason; G J Olsen; Claire M Fraser-Liggett; Hamilton O Smith; C R Woese; J C Venter
The complete genome sequence of the hyperthermophilic, sulphate-reducing archaeon Archaeoglobus fulgidus.
Nature 1997;390(6658):364-70.
1997: J F Tomb; Owen R White; A R Kerlavage; R A Clayton; G G Sutton; R D Fleischmann; K A Ketchum; H P Klenk; S Gill; B A Dougherty; K Nelson; John Quackenbush; L Zhou; E F Kirkness; S Peterson; B Loftus; D Richardson; R Dodson; Hanif Khalak; A Glodek; keith h mckenney; L M Fitzegerald; N Lee; M D Adams; E K Hickey; D E Berg; J D Gocayne; T R Utterback; J D Peterson; J M Kelley; M D Cotton; J M Weidman; C Fujii; C Bowman; L Watthey; E Wallin; W S Hayes; Mark Borodovsky; Peter Karp; Hamilton O Smith; Claire M Fraser-Liggett; J C Venter
The complete genome sequence of the gastric pathogen Helicobacter pylori.
Nature 1997;388(6642):539-47.
1997: RA Clayton; Owen R White; KA Ketchum; J Craig Venter
The first genome from the third domain of life.
Nature 1997;387(6632):459-62.
1996: Carol Bult; Owen R White; Gary J Olsen; L Zhou; Robert D Fleischmann; Granger Sutton; J A Blake; L M FitzGerald; R A Clayton; J D Gocayne; A R Kerlavage; B A Dougherty; J F Tomb; Mark D Adams; C I Reich; Ross Overbeek; Ewen F Kirkness; K G Weinstock; J M Merrick; A Glodek; J L Scott; N S Geoghagen; J Craig Venter
Complete genome sequence of the methanogenic archaeon, Methanococcus jannaschii.
Science (New York, N.Y.) 1996;273(5278):1058-73.
1996: Nikos Kyrpides; Gary J Olsen; H P Klenk; Owen R White; Carl R Woese
Methanococcus jannaschii genome: revisited.
Microbial & comparative genomics 1996;1(4):329-38.
1996: Owen R White; A R Kerlavage
TDB: new databases for biological discovery.
Methods in enzymology 1996;266():27-40.
1995: Claire M Fraser-Liggett; J D Gocayne; Owen R White; Mark D Adams; R A Clayton; Robert D Fleischmann; Carol Bult; A R Kerlavage; G Sutton; J M Kelley; R D Fritchman; J F Weidman; K V Small; M Sandusky; J Fuhrmann; D Nguyen; T R Utterback; D M Saudek; C A Phillips; J M Merrick; J F Tomb; B A Dougherty; Kenneth Bott; P C Hu; T S Lucier; S N Peterson; Hamilton O Smith; Clyde A Hutchison; J Craig Venter
The minimal gene complement of Mycoplasma genitalium.
Science (New York, N.Y.) 1995;270(5235):397-403.
1995: Mark D Adams; A R Kerlavage; Robert D Fleischmann; R A Fuldner; Carol Bult; N H Lee; Ewen F Kirkness; K G Weinstock; J D Gocayne; Owen R White
Initial assessment of human gene diversity and expression patterns based upon 83 million nucleotides of cDNA sequence.
Nature 1995;377(6547 Suppl):3-174.
1995: Robert D Fleischmann; Mark D Adams; Owen R White; R A Clayton; Ewen F Kirkness; A R Kerlavage; Carol Bult; J F Tomb; B A Dougherty; J M Merrick
Whole-genome random sequencing and assembly of Haemophilus influenzae Rd.
Science (New York, N.Y.) 1995;269(5223):496-512.
1995: Owen R White; W FitzHugh
A rapid retrieval tool for operating on large, flat archive files.
Computer applications in the biosciences : CABIOS 1995;11(1):45-7.
1994: C Fields; Mark D Adams; Owen R White; J Craig Venter
How many genes in the human genome?
Nature genetics 1994;7(3):345-6.
1993: Owen R White; T Dunning; G Sutton; M Adams; J Craig Venter; C Fields
A quality control algorithm for DNA sequencing projects.
Nucleic acids research 1993;21(16):3829-38.
1992: Owen R White; C Soderlund; P Shanmugan; C Fields
Information contents and dinucleotide compositions of plant intron sequences vary with evolutionary origin.
Plant molecular biology 1992;19(6):1057-64.
1992: Steve Mount; C Burks; G Hertz; Gary stormo; Owen R White; C Fields
Splicing signals in Drosophila: intron size, information content, and consensus sequences.
Nucleic acids research 1992;20(16):4255-62.