Scenario driven data modelling: a method for integrating diverse sources of data and data streams

by Griffith, Shelton D, Quest, Daniel J, Brettin, Thomas S, Cottingham, Robert W
Published 2011

RegPrecise web services interface: programmatic access to the transcriptional regulatory interactions in bacteria reconstructed by comparative genomics

by Novichkov, Pavel S., Brettin, Thomas S., Novichkova, Elena S., Dehal, Paramvir S., Arkin, Adam P., Dubchak, Inna, Rodionov, Dmitry A.
Published 2012

Yersinia pestis Evolution on a Small Timescale: Comparison of Whole Genome Sequences from North America

by Auerbach, Raymond K., Tuanyok, Apichai, Probert, William S., Kenefic, Leo, Vogler, Amy J., Bruce, David C., Munk, Christine, Brettin, Thomas S., Eppinger, Mark, Ravel, Jacques, Wagner, David M., Keim, Paul
Published 2007

Complete genome sequence of Arthrobacter sp. strain FB24

by Nakatsu, Cindy H., Barabote, Ravi, Thompson, Sue, Bruce, David, Detter, Chris, Brettin, Thomas, Han, Cliff, Beasley, Federico, Chen, Weimin, Konopka, Allan, Xie, Gary
Published 2013

Detection of Bacillus anthracis DNA in Complex Soil and Air Samples Using Next-Generation Sequencing

by Be, Nicholas A., Thissen, James B., Gardner, Shea N., McLoughlin, Kevin S., Fofanov, Viacheslav Y., Koshinsky, Heather, Ellingson, Sally R., Brettin, Thomas S., Jackson, Paul J., Jaing, Crystal J.
Published 2013

Antimicrobial Resistance Prediction in PATRIC and RAST

by Davis, James J., Boisvert, Sébastien, Brettin, Thomas, Kenyon, Ronald W., Mao, Chunhong, Olson, Robert, Overbeek, Ross, Santerre, John, Shukla, Maulik, Wattam, Alice R., Will, Rebecca, Xia, Fangfang, Stevens, Rick
Published 2016

Genome Sequence of Porphyromonas gingivalis Strain A7436

by Chastain-Gross, Ryan P., Xie, Gary, Bélanger, Myriam, Kumar, Dibyendu, Whitlock, Joan A., Liu, Li, Farmerie, William G., Daligault, Hajnalka E., Han, Cliff S., Brettin, Thomas S., Progulske-Fox, Ann
Published 2015

Genome Sequence of Porphyromonas gingivalis Strain AJW4

by Xie, Gary, Chastain-Gross, Ryan P., Bélanger, Myriam, Kumar, Dibyendu, Whitlock, Joan A., Liu, Li, Farmerie, William G., Daligault, Hajnalka E., Han, Cliff S., Brettin, Thomas S., Progulske-Fox, Ann
Published 2015

Complete genome sequence of Parvibaculum lavamentivorans type strain (DS-1T)

by Schleheck, David, Weiss, Michael, Pitluck, Sam, Bruce, David, Land, Miriam L., Han, Shunsheng, Saunders, Elizabeth, Tapia, Roxanne, Detter, Chris, Brettin, Thomas, Han, James, Woyke, Tanja, Goodwin, Lynne, Pennacchio, Len, Nolan, Matt, Cook, Alasdair M., Kjelleberg, Staffan, Thomas, Torsten
Published 2011

Analysis of the Neurotoxin Complex Genes in Clostridium botulinum A1-A4 and B1 Strains: BoNT/A3, /Ba4 and /B1 Clusters Are Located within Plasmids

by Smith, Theresa J., Hill, Karen K., Foley, Brian T., Detter, John C., Munk, A. Christine, Bruce, David C., Doggett, Norman A., Smith, Leonard A., Marks, James D., Xie, Gary, Brettin, Thomas S.
Published 2007

The Fast Changing Landscape of Sequencing Technologies and Their Impact on Microbial Genome Assemblies and Annotation

by Mavromatis, Konstantinos, Land, Miriam L., Brettin, Thomas S., Quest, Daniel J., Copeland, Alex, Clum, Alicia, Goodwin, Lynne, Woyke, Tanja, Lapidus, Alla, Klenk, Hans Peter, Cottingham, Robert W., Kyrpides, Nikos C.
Published 2012

RASTtk: A modular and extensible implementation of the RAST algorithm for building custom annotation pipelines and annotating batches of genomes

by Brettin, Thomas, Davis, James J., Disz, Terry, Edwards, Robert A., Gerdes, Svetlana, Olsen, Gary J., Olson, Robert, Overbeek, Ross, Parrello, Bruce, Pusch, Gordon D., Shukla, Maulik, Thomason, James A., Stevens, Rick, Vonstein, Veronika, Wattam, Alice R., Xia, Fangfang
Published 2015

Complete genome sequence of Rhodospirillum rubrum type strain (S1T)

by Munk, A. Christine, Copeland, Alex, Lucas, Susan, Lapidus, Alla, Del Rio, Tijana Glavina, Barry, Kerrie, Detter, John C., Hammon, Nancy, Israni, Sanjay, Pitluck, Sam, Brettin, Thomas, Bruce, David, Han, Cliff, Tapia, Roxanne, Gilna, Paul, Schmutz, Jeremy, Larimer, Frank, Land, Miriam, Kyrpides, Nikos C., Mavromatis, Konstantinos, Richardson, Paul, Rohde, Manfred, Göker, Markus, Klenk, Hans-Peter, Zhang, Yaoping, Roberts, Gary P., Reslewic, Susan, Schwartz, David C.
Published 2011

Complete genome sequence of Ferroglobus placidus AEDII12DO

by Anderson, Iain, Risso, Carla, Holmes, Dawn, Lucas, Susan, Copeland, Alex, Lapidus, Alla, Cheng, Jan-Fang, Bruce, David, Goodwin, Lynne, Pitluck, Samuel, Saunders, Elizabeth, Brettin, Thomas, Detter, John C., Han, Cliff, Tapia, Roxanne, Larimer, Frank, Land, Miriam, Hauser, Loren, Woyke, Tanja, Lovley, Derek, Kyrpides, Nikos, Ivanova, Natalia
Published 2011

Expression capable library for studies of Neisseria gonorrhoeae, version 1.0

by Brettin, Thomas, Altherr, Michael R, Du, Ying, Mason, Roxie M, Friedrich, Alexandra, Potter, Laura, Langford, Chris, Keller, Thomas J, Jens, Jason, Howie, Heather, Weyand, Nathan J, Clary, Susan, Prichard, Kimberly, Wachocki, Susi, Sodergren, Erica, Dillard, Joseph P, Weinstock, George, So, Magdalene, Arvidson, Cindy Grove
Published 2005

Deinococcus geothermalis: The Pool of Extreme Radiation Resistance Genes Shrinks

by Makarova, Kira S., Omelchenko, Marina V., Gaidamakova, Elena K., Matrosova, Vera Y., Vasilenko, Alexander, Zhai, Min, Lapidus, Alla, Copeland, Alex, Kim, Edwin, Land, Miriam, Mavromatis, Konstantinos, Pitluck, Samuel, Richardson, Paul M., Detter, Chris, Brettin, Thomas, Saunders, Elizabeth, Lai, Barry, Ravel, Bruce, Kemner, Kenneth M., Wolf, Yuri I., Sorokin, Alexander, Gerasimova, Anna V., Gelfand, Mikhail S., Fredrickson, James K., Koonin, Eugene V., Daly, Michael J.
Published 2007

Complete Genomic Characterization of a Pathogenic A.II Strain of Francisella tularensis Subspecies tularensis

by Beckstrom-Sternberg, Stephen M., Auerbach, Raymond K., Godbole, Shubhada, Pearson, John V., Beckstrom-Sternberg, James S., Deng, Zuoming, Munk, Christine, Kubota, Kristy, Zhou, Yan, Bruce, David, Noronha, Jyothi, Scheuermann, Richard H., Wang, Aihui, Wei, Xianying, Wang, Jianjun, Hao, Jicheng, Wagner, David M., Brettin, Thomas S., Brown, Nancy, Gilna, Paul, Keim, Paul S.
Published 2007

Complete genome sequence of Paenibacillus sp. strain JDR-2

by Chow, Virginia, Nong, Guang, St. John, Franz J., Rice, John D., Dickstein, Ellen, Chertkov, Olga, Bruce, David, Detter, Chris, Brettin, Thomas, Han, James, Woyke, Tanja, Pitluck, Sam, Nolan, Matt, Pati, Amrita, Martin, Joel, Copeland, Alex, Land, Miriam L., Goodwin, Lynne, Jones, Jeffrey B., Ingram, Lonnie O., Shanmugam, Keelnathan T., Preston, James F.
Published 2012

Complete genome sequence of the filamentous gliding predatory bacterium Herpetosiphon aurantiacus type strain (114-95T)

by Kiss, Hajnalka, Nett, Markus, Domin, Nicole, Martin, Karin, Maresca, Julia A., Copeland, Alex, Lapidus, Alla, Lucas, Susan, Berry, Kerrie W., Glavina Del Rio, Tijana, Dalin, Eileen, Tice, Hope, Pitluck, Sam, Richardson, Paul, Bruce, David, Goodwin, Lynne, Han, Cliff, Detter, John C., Schmutz, Jeremy, Brettin, Thomas, Land, Miriam, Hauser, Loren, Kyrpides, Nikos C., Ivanova, Natalia, Göker, Markus, Woyke, Tanja, Klenk, Hans-Peter, Bryant, Donald A.
Published 2011

Complete genome sequence of Halorhodospira halophila SL1

by Challacombe, Jean F., Majid, Sophia, Deole, Ratnakar, Brettin, Thomas S., Bruce, David, Delano, Susana F., Detter, John C., Gleasner, Cheryl D., Han, Cliff S., Misra, Monica, Reitenga, Krista G., Mikhailova, Natalia, Woyke, Tanja, Pitluck, Sam, Nolan, Matt, Land, Miriam L., Saunders, Elizabeth, Tapia, Roxanne, Lapidus, Alla, Ivanova, Natalia, Hoff, Wouter D.
Published 2013