The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST) von Overbeek, Ross, Olson, Robert, Pusch, Gordon D, Olsen, Gary J, Davis, James J, Disz, Terry, Edwards, Robert A, Gerdes, Svetlana, Parrello, Bruce, Shukla, Maulik, Vonstein, Veronika, Wattam, Alice R, Xia, Fangfang, Stevens, Rick

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Introducing the Bacterial and Viral Bioinformatics Resource Center (BV-BRC): a resource combining PATRIC, IRD and ViPR von Olson, Robert D, Assaf, Rida, Brettin, Thomas, Conrad, Neal, Cucinell, Clark, Davis, James J, Dempsey, Donald M, Dickerman, Allan, Dietrich, Emily M, Kenyon, Ronald W, Kuscuoglu, Mehmet, Lefkowitz, Elliot J, Lu, Jian, Machi, Dustin, Macken, Catherine, Mao, Chunhong, Niewiadomska, Anna, Nguyen, Marcus, Olsen, Gary J, Overbeek, Jamie C, Parrello, Bruce, Parrello, Victoria, Porter, Jacob S, Pusch, Gordon D, Shukla, Maulik, Singh, Indresh, Stewart, Lucy, Tan, Gene, Thomas, Chris, VanOeffelen, Margo, Vonstein, Veronika, Wallace, Zachary S, Warren, Andrew S, Wattam, Alice R, Xia, Fangfang, Yoo, Hyunseung, Zhang, Yun, Zmasek, Christian M, Scheuermann, Richard H, Stevens, Rick L

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

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Improvements to PATRIC, the all-bacterial Bioinformatics Database and Analysis Resource Center von Wattam, Alice R, Davis, James J, Assaf, Rida, Boisvert, Sébastien, Brettin, Thomas, Bun, Christopher, Conrad, Neal, Dietrich, Emily M, Disz, Terry, Gabbard, Joseph L, Gerdes, Svetlana, Henry, Christopher S, Kenyon, Ronald W, Machi, Dustin, Mao, Chunhong, Nordberg, Eric K, Olsen, Gary J, Murphy-Olson, Daniel E, Olson, Robert, Overbeek, Ross, Parrello, Bruce, Pusch, Gordon D, Shukla, Maulik, Vonstein, Veronika, Warren, Andrew, Xia, Fangfang, Yoo, Hyunseung, Stevens, Rick L

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SEED servers: high-performance access to the SEED genomes, annotations, and metabolic models von Aziz, Ramy K, Devoid, Scott, Disz, Terrence, Edwards, Robert A, Henry, Christopher S, Olsen, Gary J, Olson, Robert, Overbeek, Ross, Parrello, Bruce, Pusch, Gordon D, Stevens, Rick L, Vonstein, Veronika, Xia, Fangfang

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PATRIC, the bacterial bioinformatics database and analysis resource von Wattam, Alice R, Abraham, David, Dalay, Oral, Disz, Terry L, Driscoll, Timothy, Gabbard, Joseph L, Gillespie, Joseph J, Gough, Roger, Hix, Deborah, Kenyon, Ronald, Machi, Dustin, Mao, Chunhong, Nordberg, Eric K, Olson, Robert, Overbeek, Ross, Pusch, Gordon D, Shukla, Maulik, Schulman, Julie, Stevens, Rick L, Sullivan, Daniel E, Vonstein, Veronika, Warren, Andrew, Will, Rebecca, Wilson, Meredith J C, Yoo, Hyun Seung, Zhang, Chengdong, Zhang, Yan, Sobral, Bruno W

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PATtyFams: Protein Families for the Microbial Genomes in the PATRIC Database von Davis, James J, Gerdes, Svetlana, Olsen, Gary J, Olson, Robert, Pusch, Gordon D, Shukla, Maulik, Vonstein, Veronika, Wattam, Alice R, Yoo, Hyunseung

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Supervised extraction of near-complete genomes from metagenomic samples: A new service in PATRIC von Parrello, Bruce, Butler, Rory, Chlenski, Philippe, Pusch, Gordon D, Overbeek, Ross

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The RAST Server: rapid annotations using subsystems technology von Aziz, Ramy K, Bartels, Daniela, Best, Aaron A, DeJongh, Matthew, Disz, Terrence, Edwards, Robert A, Formsma, Kevin, Gerdes, Svetlana, Glass, Elizabeth M, Kubal, Michael, Meyer, Folker, Olsen, Gary J, Olson, Robert, Osterman, Andrei L, Overbeek, Ross A, McNeil, Leslie K, Paarmann, Daniel, Paczian, Tobias, Parrello, Bruce, Pusch, Gordon D, Reich, Claudia, Stevens, Rick, Vassieva, Olga, Vonstein, Veronika, Wilke, Andreas, Zagnitko, Olga

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A machine learning-based service for estimating quality of genomes using PATRIC von Parrello, Bruce, Butler, Rory, Chlenski, Philippe, Olson, Robert, Overbeek, Jamie, Pusch, Gordon D, Vonstein, Veronika, Overbeek, Ross

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Assembly, Annotation, and Comparative Genomics in PATRIC, the All Bacterial Bioinformatics Resource Center von Wattam, Alice R., Brettin, Thomas, Davis, James J., Gerdes, Svetlana, Kenyon, Ronald, Machi, Dustin, Mao, Chunhong, Olson, Robert, Overbeek, Ross, Pusch, Gordon D., Shukla, Maulik P., Stevens, Rick, Vonstein, Veronika, Warren, Andrew, Xia, Fangfang, Yoo, Hyunseung

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PATRIC as a unique resource for studying antimicrobial resistance von Antonopoulos, Dionysios A, Assaf, Rida, Aziz, Ramy Karam, Brettin, Thomas, Bun, Christopher, Conrad, Neal, Davis, James J, Dietrich, Emily M, Disz, Terry, Gerdes, Svetlana, Kenyon, Ronald W, Machi, Dustin, Mao, Chunhong, Murphy-Olson, Daniel E, Nordberg, Eric K, Olsen, Gary J, Olson, Robert, Overbeek, Ross, Parrello, Bruce, Pusch, Gordon D, Santerre, John, Shukla, Maulik, Stevens, Rick L, VanOeffelen, Margo, Vonstein, Veronika, Warren, Andrew S, Wattam, Alice R, Xia, Fangfang, Yoo, Hyunseung

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Complete sequence and comparative genome analysis of the dairy bacterium Streptococcus thermophilus von Bolotin, A, Quinquis, B, Renault, P, Sorokin, A, Ehrlich, S.D, Kulakauskas, S, Lapidus, A, Goltsman, E, Mazur, M, Pusch, G.D

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The Use of Gene Clusters to Infer Functional Coupling von Overbeek, Ross, Fonstein, Michael, D'Souza, Mark, Pusch, Gordon D., Maltsev, Natalia

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The PATRIC Bioinformatics Resource Center: expanding data and analysis capabilities von Davis, James J, Wattam, Alice R, Aziz, Ramy K, Brettin, Thomas, Butler, Ralph, Butler, Rory M, Chlenski, Philippe, Conrad, Neal, Dickerman, Allan, Dietrich, Emily M, Gabbard, Joseph L, Gerdes, Svetlana, Guard, Andrew, Kenyon, Ronald W, Machi, Dustin, Mao, Chunhong, Murphy-Olson, Dan, Nguyen, Marcus, Nordberg, Eric K, Olsen, Gary J, Olson, Robert D, Overbeek, Jamie C, Overbeek, Ross, Parrello, Bruce, Pusch, Gordon D, Shukla, Maulik, Thomas, Chris, VanOeffelen, Margo, Vonstein, Veronika, Warren, Andrew S, Xia, Fangfang, Xie, Dawen, Yoo, Hyunseung, Stevens, Rick

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Comparative supragenomic analyses among the pathogens Staphylococcus aureus, Streptococcus pneumoniae, and Haemophilus influenzae using a modification of the finite supragenome mod... von Boissy, Robert, Ahmed, Azad, Janto, Benjamin, Earl, Josh, Hall, Barry G, Hogg, Justin S, Pusch, Gordon D, Hiller, Luisa N, Powell, Evan, Hayes, Jay, Yu, Susan, Kathju, Sandeep, Stoodley, Paul, Post, J Christopher, Ehrlich, Garth D, Hu, Fen Z

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Phage Genome Annotation Using the RAST Pipeline von McNair, Katelyn, Aziz, Ramy Karam, Pusch, Gordon D., Overbeek, Ross, Dutilh, Bas E., Edwards, Robert

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Genome of Non-O1 Vibrio cholerae NRT36S Demonstrates the Presence of Pathogenic Mechanisms That Are Distinct from Those of O1 Vibrio cholerae von Chen, Yuansha, Johnson, Judith A, Pusch, Gordon D, Morris, J. Glenn Jr, Stine, O. Colin

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A genomic data resource for predicting antimicrobial resistance from laboratory-derived antimicrobial susceptibility phenotypes von VanOeffelen, Margo, Nguyen, Marcus, Aytan-Aktug, Derya, Brettin, Thomas, Dietrich, Emily M, Kenyon, Ronald W, Machi, Dustin, Mao, Chunhong, Olson, Robert, Pusch, Gordon D, Shukla, Maulik, Stevens, Rick, Vonstein, Veronika, Warren, Andrew S, Wattam, Alice R, Yoo, Hyunseung, Davis, James J

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The Subsystems Approach to Genome Annotation and its Use in the Project to Annotate 1000 Genomes von Overbeek, Ross, Begley, Tadhg, Butler, Ralph M., Choudhuri, Jomuna V., Chuang, Han-Yu, Cohoon, Matthew, de Crécy-Lagard, Valérie, Diaz, Naryttza, Disz, Terry, Edwards, Robert, Fonstein, Michael, Frank, Ed D., Gerdes, Svetlana, Glass, Elizabeth M., Goesmann, Alexander, Hanson, Andrew, Iwata-Reuyl, Dirk, Jensen, Roy, Jamshidi, Neema, Krause, Lutz, Kubal, Michael, Larsen, Niels, Linke, Burkhard, McHardy, Alice C., Meyer, Folker, Neuweger, Heiko, Olsen, Gary, Olson, Robert, Osterman, Andrei, Portnoy, Vasiliy, Pusch, Gordon D., Rodionov, Dmitry A., Rückert, Christian, Steiner, Jason, Stevens, Rick, Thiele, Ines, Vassieva, Olga, Ye, Yuzhen, Zagnitko, Olga, Vonstein, Veronika

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