The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST)
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
Published in Nucleic acids research (01.01.2014)
Published in Nucleic acids research (01.01.2014)
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Introducing the Bacterial and Viral Bioinformatics Resource Center (BV-BRC): a resource combining PATRIC, IRD and ViPR
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
Published in Nucleic acids research (06.01.2023)
Published in Nucleic acids research (06.01.2023)
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Journal Article
The PATRIC Bioinformatics Resource Center: expanding data and analysis capabilities
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
Published in Nucleic acids research (08.01.2020)
Published in Nucleic acids research (08.01.2020)
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RASTtk: a modular and extensible implementation of the RAST algorithm for building custom annotation pipelines and annotating batches of genomes
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, 3rd, James A, Stevens, Rick, Vonstein, Veronika, Wattam, Alice R, Xia, Fangfang
Published in Scientific reports (10.02.2015)
Published in Scientific reports (10.02.2015)
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Improvements to PATRIC, the all-bacterial Bioinformatics Database and Analysis Resource Center
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
Published in Nucleic acids research (04.01.2017)
Published in Nucleic acids research (04.01.2017)
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Journal Article
PATRIC, the bacterial bioinformatics database and analysis resource
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
Published in Nucleic acids research (01.01.2014)
Published in Nucleic acids research (01.01.2014)
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Journal Article
PATtyFams: Protein Families for the Microbial Genomes in the PATRIC Database
Davis, James J, Gerdes, Svetlana, Olsen, Gary J, Olson, Robert, Pusch, Gordon D, Shukla, Maulik, Vonstein, Veronika, Wattam, Alice R, Yoo, Hyunseung
Published in Frontiers in microbiology (08.02.2016)
Published in Frontiers in microbiology (08.02.2016)
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Searching for signatures across microbial communities: Metagenomic analysis of soil samples from mangrove and other ecosystems
Imchen, Madangchanok, Kumavath, Ranjith, Barh, Debmalya, Azevedo, Vasco, Ghosh, Preetam, Viana, Marcus, Wattam, Alice R
Published in Scientific reports (18.08.2017)
Published in Scientific reports (18.08.2017)
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Journal Article
Assembly, Annotation, and Comparative Genomics in PATRIC, the All Bacterial Bioinformatics Resource Center
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
Published in Methods in molecular biology (Clifton, N.J.) (01.01.2018)
Published in Methods in molecular biology (Clifton, N.J.) (01.01.2018)
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Journal Article
Helicobacter pylori Infections in the Bronx, New York: Surveying Antibiotic Susceptibility and Strain Lineage by Whole-Genome Sequencing
Saranathan, Rajagopalan, Levi, Michael H, Wattam, Alice R, Malek, Adel, Asare, Emmanuel, Behin, Daniel S, Pan, Debra H, Jacobs, Jr, William R, Szymczak, Wendy A
Published in Journal of clinical microbiology (24.02.2020)
Published in Journal of clinical microbiology (24.02.2020)
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Insight of Genus Corynebacterium : Ascertaining the Role of Pathogenic and Non-pathogenic Species
Oliveira, Alberto, Oliveira, Leticia C, Aburjaile, Flavia, Benevides, Leandro, Tiwari, Sandeep, Jamal, Syed B, Silva, Arthur, Figueiredo, Henrique C P, Ghosh, Preetam, Portela, Ricardo W, De Carvalho Azevedo, Vasco A, Wattam, Alice R
Published in Frontiers in microbiology (12.10.2017)
Published in Frontiers in microbiology (12.10.2017)
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PATRIC as a unique resource for studying antimicrobial resistance
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
Published in Briefings in bioinformatics (19.07.2019)
Published in Briefings in bioinformatics (19.07.2019)
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Brucella spp. of amphibians comprise genomically diverse motile strains competent for replication in macrophages and survival in mammalian hosts
Al Dahouk, Sascha, Köhler, Stephan, Occhialini, Alessandra, Jiménez de Bagüés, María Pilar, Hammerl, Jens Andre, Eisenberg, Tobias, Vergnaud, Gilles, Cloeckaert, Axel, Zygmunt, Michel S, Whatmore, Adrian M, Melzer, Falk, Drees, Kevin P, Foster, Jeffrey T, Wattam, Alice R, Scholz, Holger C
Published in Scientific reports (16.03.2017)
Published in Scientific reports (16.03.2017)
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Journal Article
PATRIC: the Comprehensive Bacterial Bioinformatics Resource with a Focus on Human Pathogenic Species
GILLESPIE, Joseph J, WATTAM, Alice R, NORDBERG, Eric K, SCOTT, Mark, SCHULMAN, Julie R, SNYDER, Eric E, SULLIVAN, Daniel E, CHUNXIA WANG, WARREN, Andrew, WILLIAMS, Kelly P, TIAN XUE, HYUN SEUNG YOO, CAMMER, Stephen A, CHENGDONG ZHANG, YAN ZHANG, WILL, Rebecca, KENYON, Ronald W, SOBRAL, Bruno W, GABBARD, Joseph L, SHUKLA, Maulik P, DALAY, Oral, DRISCOLL, Timothy, HIX, Deborah, MANE, Shrinivasrao P, CHUNHONG MAO
Published in Infection and Immunity (01.11.2011)
Published in Infection and Immunity (01.11.2011)
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Identification and molecular epidemiology of methicillin resistant Staphylococcus pseudintermedius strains isolated from canine clinical samples in Argentina
Gagetti, Paula, Wattam, Alice R, Giacoboni, Gabriela, De Paulis, Adriana, Bertona, Eugenia, Corso, Alejandra, Rosato, Adriana E
Published in BMC veterinary research (27.07.2019)
Published in BMC veterinary research (27.07.2019)
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Comparative Phylogenomics and Evolution of the Brucellae Reveal a Path to Virulence
Wattam, Alice R, Foster, Jeffrey T, Mane, Shrinivasrao P, Beckstrom-Sternberg, Stephen M, Beckstrom-Sternberg, James M, Dickerman, Allan W, Keim, Paul, Pearson, Talima, Shukla, Maulik, Ward, Doyle V, Williams, Kelly P, Sobral, Bruno W, Tsolis, Renee M, Whatmore, Adrian M, O'Callaghan, David
Published in Journal of Bacteriology (01.03.2014)
Published in Journal of Bacteriology (01.03.2014)
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Isolation of Brucella inopinata from a White's tree frog ( Litoria caerulea ): pose exotic frogs a potential risk to human health?
Scholz, Holger C, Heckers, Kim O, Appelt, Sandra, Geier-Dömling, Dorothee, Schlegel, Patrick, Wattam, Alice R
Published in Frontiers in microbiology (08.06.2023)
Published in Frontiers in microbiology (08.06.2023)
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Comparative genomic analysis between Corynebacterium pseudotuberculosis strains isolated from buffalo
Viana, Marcus Vinicius Canário, Figueiredo, Henrique, Ramos, Rommel, Guimarães, Luis Carlos, Pereira, Felipe Luiz, Dorella, Fernanda Alves, Selim, Salah Abdel Karim, Salaheldean, Mohammad, Silva, Artur, Wattam, Alice R, Azevedo, Vasco
Published in PloS one (26.04.2017)
Published in PloS one (26.04.2017)
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The Complete Genome Sequence of the Emerging Pathogen Mycobacterium haemophilum Explains Its Unique Culture Requirements
Tufariello, JoAnn M, Kerantzas, Christopher A, Vilchèze, Catherine, Calder, R Brent, Nordberg, Eric K, Fischer, Jack A, Hartman, Travis E, Yang, Eva, Driscoll, Timothy, Cole, Laura E, Sebra, Robert, Maqbool, Shahina B, Wattam, Alice R, Jacobs, Jr, William R
Published in mBio (17.11.2015)
Published in mBio (17.11.2015)
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