Galaxy and Apollo as a biologist-friendly interface for high-quality cooperative phage genome annotation
Ramsey, Jolene, Rasche, Helena, Maughmer, Cory, Criscione, Anthony, Mijalis, Eleni, Liu, Mei, Hu, James C, Young, Ry, Gill, Jason J
Published in PLoS computational biology (01.11.2020)
Published in PLoS computational biology (01.11.2020)
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Journal Article
ECO, the Evidence & Conclusion Ontology: community standard for evidence information
Giglio, Michelle, Tauber, Rebecca, Nadendla, Suvarna, Munro, James, Olley, Dustin, Ball, Shoshannah, Mitraka, Elvira, Schriml, Lynn M, Gaudet, Pascale, Hobbs, Elizabeth T, Erill, Ivan, Siegele, Deborah A, Hu, James C, Mungall, Chris, Chibucos, Marcus C
Published in Nucleic acids research (08.01.2019)
Published in Nucleic acids research (08.01.2019)
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Journal Article
The Evidence and Conclusion Ontology (ECO): Supporting GO Annotations
Chibucos, Marcus C, Siegele, Deborah A, Hu, James C, Giglio, Michelle
Published in Methods in molecular biology (Clifton, N.J.) (01.01.2017)
Published in Methods in molecular biology (Clifton, N.J.) (01.01.2017)
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Journal Article
Baseline Sequencing Surveillance of Public Clinical Testing, Hospitals, and Community Wastewater Reveals Rapid Emergence of SARS-CoV-2 Omicron Variant of Concern in Arizona, USA
Smith, Matthew F, Holland, Steven C, Lee, Mihyun B, Hu, James C, Pham, Nghia C, Sullins, Regan A, Holland, LaRinda A, Mu, Tianchen, Thomas, Alexis W, Fitch, Remington, Driver, Erin M, Halden, Rolf U, Villegas-Gold, Michelle, Sanders, Sheri, Krauss, Jennifer L, Nordstrom, Lora, Mulrow, Mary, White, Michael, Murugan, Vel, Lim, Efrem S
Published in mBio (28.02.2023)
Published in mBio (28.02.2023)
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Journal Article
Digital PCR Discriminates between SARS-CoV-2 Omicron Variants and Immune Escape Mutations
Holland, Steven C, Holland, LaRinda A, Smith, Matthew F, Lee, Mihyun B, Hu, James C, Lim, Efrem S
Published in Microbiology spectrum (17.08.2023)
Published in Microbiology spectrum (17.08.2023)
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Journal Article
Insights from the reanalysis of high-throughput chemical genomics data for Escherichia coli K-12
Wu, Peter I-Fan, Ross, Curtis, Siegele, Deborah A, Hu, James C
Published in G3 : genes - genomes - genetics (01.01.2021)
Published in G3 : genes - genomes - genetics (01.01.2021)
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Journal Article
Phenotypic Associations Among Cell Cycle Genes in Saccharomyces cerevisiae
Bermudez, Rosa M, Wu, Peter I-Fan, Callerame, Deanna, Hammer, Staci, Hu, James C, Polymenis, Michael
Published in G3 : genes - genomes - genetics (01.07.2020)
Published in G3 : genes - genomes - genetics (01.07.2020)
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Journal Article
Microbial virus genome annotation—Mustering the troops to fight the sequence onslaught
Rodney Brister, J, Le Mercier, Phillippe, Hu, James C
Published in Virology (New York, N.Y.) (20.12.2012)
Published in Virology (New York, N.Y.) (20.12.2012)
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Journal Article
PortEco: a resource for exploring bacterial biology through high-throughput data and analysis tools
Hu, James C, Sherlock, Gavin, Siegele, Deborah A, Aleksander, Suzanne A, Ball, Catherine A, Demeter, Janos, Gouni, Sushanth, Holland, Timothy A, Karp, Peter D, Lewis, John E, Liles, Nathan M, McIntosh, Brenley K, Mi, Huaiyu, Muruganujan, Anushya, Wymore, Farrell, Thomas, Paul D, Altman, Tomer
Published in Nucleic acids research (01.01.2014)
Published in Nucleic acids research (01.01.2014)
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Journal Article
The Escherichia coli K-12 ORFeome: a resource for comparative molecular microbiology
Rajagopala, Seesandra V, Yamamoto, Natsuko, Zweifel, Adrienne E, Nakamichi, Tomoko, Huang, Hsi-Kuang, Mendez-Rios, Jorge David, Franca-Koh, Jonathan, Boorgula, Meher Preethi, Fujita, Kazutoshi, Suzuki, Ken-ichirou, Hu, James C, Wanner, Barry L, Mori, Hirotada, Uetz, Peter
Published in BMC genomics (11.08.2010)
Published in BMC genomics (11.08.2010)
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Journal Article
Primer on the Gene Ontology
Gaudet, Pascale, Škunca, Nives, Hu, James C, Dessimoz, Christophe
Published in Methods in molecular biology (Clifton, N.J.) (2017)
Published in Methods in molecular biology (Clifton, N.J.) (2017)
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Journal Article
What we can learn about Escherichia coli through application of Gene Ontology
Hu, James C, Karp, Peter D, Keseler, Ingrid M, Krummenacker, Markus, Siegele, Deborah A
Published in Trends in microbiology (Regular ed.) (01.07.2009)
Published in Trends in microbiology (Regular ed.) (01.07.2009)
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Journal Article
Wastewater and clinical surveillance of respiratory viral pathogens on a university campus
Holland, Steven C., Smith, Matthew F., Holland, LaRinda A., Maqsood, Rabia, Hu, James C., Murugan, Vel, Driver, Erin M., Halden, Rolf U., Lim, Efrem S.
Published in The Science of the total environment (20.10.2024)
Published in The Science of the total environment (20.10.2024)
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Journal Article
Bacteria-to-Human Protein Networks Reveal Origins of Endogenous DNA Damage
Xia, Jun, Chiu, Li-Ya, Nehring, Ralf B., Bravo Núñez, María Angélica, Mei, Qian, Perez, Mercedes, Zhai, Yin, Fitzgerald, Devon M., Pribis, John P., Wang, Yumeng, Hu, Chenyue W., Powell, Reid T., LaBonte, Sandra A., Jalali, Ali, Matadamas Guzmán, Meztli L., Lentzsch, Alfred M., Szafran, Adam T., Joshi, Mohan C., Richters, Megan, Gibson, Janet L., Frisch, Ryan L., Hastings, P.J., Bates, David, Queitsch, Christine, Hilsenbeck, Susan G., Coarfa, Cristian, Hu, James C., Siegele, Deborah A., Scott, Kenneth L., Liang, Han, Mancini, Michael A., Herman, Christophe, Miller, Kyle M., Rosenberg, Susan M.
Published in Cell (10.01.2019)
Published in Cell (10.01.2019)
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Journal Article
Chemical-genetic interrogation of RNA polymerase mutants reveals structure-function relationships and physiological tradeoffs
Shiver, Anthony L., Osadnik, Hendrik, Peters, Jason M., Mooney, Rachel A., Wu, Peter I., Henry, Kemardo K., Braberg, Hannes, Krogan, Nevan J., Hu, James C., Landick, Robert, Huang, Kerwyn Casey, Gross, Carol A.
Published in Molecular cell (20.05.2021)
Published in Molecular cell (20.05.2021)
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Journal Article
GONUTS: the Gene Ontology Normal Usage Tracking System
Renfro, Daniel P., McIntosh, Brenley K., Venkatraman, Anand, Siegele, Deborah A., Hu, James C.
Published in Nucleic acids research (01.01.2012)
Published in Nucleic acids research (01.01.2012)
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Journal Article