A comprehensive non-redundant gene catalog reveals extensive within-community intraspecies diversity in the human vagina

by Bing Ma, Michael T. France, Jonathan Crabtree, Johanna B. Holm, Michael S. Humphrys, Rebecca M. Brotman, Jacques Ravel
Published 2020-02-01

Interactive exploratory data analysis of Integrative Human Microbiome Project data using Metaviz [version 1; peer review: 2 approved]

by Justin Wagner, Jayaram Kancherla, Domenick Braccia, James Matsumara, Victor Felix, Jonathan Crabtree, Anup Mahurkar, Héctor Corrada Bravo
Published 2020-06-01

Interactive exploratory data analysis of Integrative Human Microbiome Project data using Metaviz [version 2; peer review: 3 approved]

by Justin Wagner, Jayaram Kancherla, Domenick Braccia, James Matsumara, Victor Felix, Jonathan Crabtree, Anup Mahurkar, Héctor Corrada Bravo
Published 2021-06-01

CloVR-Comparative: automated, cloud-enabled comparative microbial genome sequence analysis pipeline

by Sonia Agrawal, Cesar Arze, Ricky S. Adkins, Jonathan Crabtree, David Riley, Mahesh Vangala, Kevin Galens, Claire M. Fraser, Hervé Tettelin, Owen White, Samuel V. Angiuoli, Anup Mahurkar, W. Florian Fricke
Published 2017-04-01

Sub-telomere directed gene expression during initiation of invasive aspergillosis.

by Andrew McDonagh, Natalie D Fedorova, Jonathan Crabtree, Yan Yu, Stanley Kim, Dan Chen, Omar Loss, Timothy Cairns, Gustavo Goldman, Darius Armstrong-James, Ken Haynes, Hubertus Haas, Markus Schrettl, Gregory May, William C Nierman, Elaine Bignell
Published 2008-09-01

Capture-based enrichment of Theileria parva DNA enables full genome assembly of first buffalo-derived strain and reveals exceptional intra-specific genetic diversity.

by Nicholas C Palmateer, Kyle Tretina, Joshua Orvis, Olukemi O Ifeonu, Jonathan Crabtree, Elliott Drabék, Roger Pelle, Elias Awino, Hanzel T Gotia, James B Munro, Luke Tallon, W Ivan Morrison, Claudia A Daubenberger, Vish Nene, Donald P Knowles, Richard P Bishop, Joana C Silva
Published 2020-10-01

An integrated genomic and transcriptomic survey of mucormycosis-causing fungi

by Marcus C. Chibucos, Sameh Soliman, Teclegiorgis Gebremariam, Hongkyu Lee, Sean Daugherty, Joshua Orvis, Amol C. Shetty, Jonathan Crabtree, Tracy H. Hazen, Kizee A. Etienne, Priti Kumari, Timothy D. O’Connor, David A. Rasko, Scott G. Filler, Claire M. Fraser, Shawn R. Lockhart, Christopher D. Skory, Ashraf S. Ibrahim, Vincent M. Bruno
Published 2016-07-01

Genome sequence of Babesia bovis and comparative analysis of apicomplexan hemoprotozoa.

by 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 M Howell, Hoda Khouri, Hean Koo, David J Mann, Junzo Norimine, Ian T Paulsen, Diana Radune, Qinghu Ren, Roger K Smith, Carlos E Suarez, Owen White, Jennifer R Wortman, Donald P Knowles, Terry F McElwain, Vishvanath M Nene
Published 2007-10-01

Correction: Comparative Genomics of Emerging Human Ehrlichiosis Agents

by Julie C Dunning Hotopp, Mingqun Lin, Ramana Madupu, Jonathan Crabtree, Samuel V Angiuoli, Jonathan A 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 Gwinn, Daniel H Haft, Jeremy D Selengut, Steven A Sullivan, Nikhat Zafar, Liwei Zhou, Faiza Benahmed, Heather Forberger, Rebecca Halpin, Stephanie Mulligan, Jeffrey Robinson, Owen White, Yasuko Rikihisa, Hervé Tettelin
Published 2006-12-01

Strains used in whole organism Plasmodium falciparum vaccine trials differ in genome structure, sequence, and immunogenic potential

by Kara A. Moser, Elliott F. Drábek, Ankit Dwivedi, Emily M. Stucke, Jonathan Crabtree, Antoine Dara, Zalak Shah, Matthew Adams, Tao Li, Priscila T. Rodrigues, Sergey Koren, Adam M. Phillippy, James B. Munro, Amed Ouattara, Benjamin C. Sparklin, Julie C. Dunning Hotopp, Kirsten E. Lyke, Lisa Sadzewicz, Luke J. Tallon, Michele D. Spring, Krisada Jongsakul, Chanthap Lon, David L. Saunders, Marcelo U. Ferreira, Myaing M. Nyunt, Miriam K. Laufer, Mark A. Travassos, Robert W. Sauerwein, Shannon Takala-Harrison, Claire M. Fraser, B. Kim Lee Sim, Stephen L. Hoffman, Christopher V. Plowe, Joana C. Silva
Published 2020-01-01

Correction: Comparative Genomics of Emerging Human Ehrlichiosis Agents.

by Julie C Dunning Hotopp, Mingqun Lin, Ramana Madupu, Jonathan Crabtree, Samuel V Angiuoli, Jonathan A 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 Gwinn, Daniel H Haft, Jeremy D Selengut, Steven A Sullivan, Nikhat Zafar, Liwei Zhou, Faiza Benahmed, Heather Forberger, Rebecca Halpin, Stephanie Mulligan, Jeffrey Robinson, Owen White, Yasuko Rikihisa, Hervé Tettelin
Published 2006-12-01

Comparative genomics of emerging human ehrlichiosis agents.

by Julie C Dunning Hotopp, Mingqun Lin, Ramana Madupu, Jonathan Crabtree, Samuel V Angiuoli, Jonathan A 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 Gwinn, Daniel H Haft, Jeremy D Selengut, Steven A Sullivan, Nikhat Zafar, Liwei Zhou, Faiza Benahmed, Heather Forberger, Rebecca Halpin, Stephanie Mulligan, Jeffrey Robinson, Owen White, Yasuko Rikihisa, Hervé Tettelin
Published 2006-02-01

Genomic islands in the pathogenic filamentous fungus Aspergillus fumigatus.

by Natalie D Fedorova, Nora Khaldi, Vinita S Joardar, Rama Maiti, Paolo Amedeo, Michael J Anderson, Jonathan Crabtree, Joana C 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 R Whitty, Phil Youngman, Kenneth H Wolfe, Gustavo H Goldman, Jennifer R Wortman, Bo Jiang, David W Denning, William C Nierman
Published 2008-04-01