High-throughput generation, optimization and analysis of genome-scale metabolic models
Henry, Christopher S, DeJongh, Matthew, Best, Aaron A, Frybarger, Paul M, Linsay, Ben, Stevens, Rick L
Published in Nature biotechnology (01.09.2010)
Published in Nature biotechnology (01.09.2010)
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Journal Article
Predicting variable gene content in Escherichia coli using conserved genes
Nguyen, Marcus, Elmore, Zachary, Ihle, Clay, Moen, Francesco S, Slater, Adam D, Turner, Benjamin N, Parrello, Bruce, Best, Aaron A, Davis, James J
Published in mSystems (14.06.2023)
Published in mSystems (14.06.2023)
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Journal Article
Evaluating the efficacy of point-of-use water filtration units in Fiji
Tintle, Nathan, Heynen, Adam, Van De Griend, Kristin, Ulrich, Rachel, Ojo, Matthew, Boven, Emma, Brokus, Sarah, Wade, Randall, Best, Aaron A
Published in Tropical medicine and health (07.08.2019)
Published in Tropical medicine and health (07.08.2019)
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Journal Article
Comparative genomics and functional analysis of rhamnose catabolic pathways and regulons in bacteria
Rodionova, Irina A, Li, Xiaoqing, Thiel, Vera, Stolyar, Sergey, Stanton, Krista, Fredrickson, James K, Bryant, Donald A, Osterman, Andrei L, Best, Aaron A, Rodionov, Dmitry A
Published in Frontiers in microbiology (2013)
Published in Frontiers in microbiology (2013)
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Journal Article
Cautions about the reliability of pairwise gene correlations based on expression data
Powers, Scott, DeJongh, Matt, Best, Aaron A, Tintle, Nathan L
Published in Frontiers in microbiology (26.06.2015)
Published in Frontiers in microbiology (26.06.2015)
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Journal Article
Inference of the Transcriptional Regulatory Network in Staphylococcus aureus by Integration of Experimental and Genomics-Based Evidence
RAVCHEEV, Dmitry A, BEST, Aaron A, TINTLE, Nathan, DEJONGH, Matthew, OSTERMAN, Andrei L, NOVICHKOV, Pavel S, RODIONOV, Dmitry A
Published in Journal of Bacteriology (01.07.2011)
Published in Journal of Bacteriology (01.07.2011)
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Journal Article
Diversity and Versatility of the Thermotoga maritima Sugar Kinome
Rodionova, Irina A, Yang, Chen, Li, Xiaoqing, Kurnasov, Oleg V, Best, Aaron A, Osterman, Andrei L, Rodionov, Dmitry A
Published in Journal of Bacteriology (01.10.2012)
Published in Journal of Bacteriology (01.10.2012)
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Journal Article
Providing a Safe, In-Person, Residential College Experience During the COVID-19 Pandemic
Travis, Scott A, Best, Aaron A, Bochniak, Kristyn S, Dunteman, Nicole D, Fellinger, Jennifer, Folkert, Peter D, Koberna, Timothy, Kopek, Benjamin G, Krueger, Brent P, Pestun, Jeff, Pikaart, Michael J, Sabo, Cindy, Schuitema, Alex J
Published in Frontiers in public health (23.06.2021)
Published in Frontiers in public health (23.06.2021)
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Journal Article
Cluster J mycobacteriophages: intron splicing in capsid and tail genes
Pope, Welkin H, Jacobs-Sera, Deborah, Best, Aaron A, Broussard, Gregory W, Connerly, Pamela L, Dedrick, Rebekah M, Kremer, Timothy A, Offner, Susan, Ogiefo, Amenawon H, Pizzorno, Marie C, Rockenbach, Kate, Russell, Daniel A, Stowe, Emily L, Stukey, Joseph, Thibault, Sarah A, Conway, James F, Hendrix, Roger W, Hatfull, Graham F
Published in PloS one (09.07.2013)
Published in PloS one (09.07.2013)
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Journal Article
A Bayesian Framework for the Classification of Microbial Gene Activity States
Disselkoen, Craig, Greco, Brian, Cook, Kaitlyn, Koch, Kristin, Lerebours, Reginald, Viss, Chase, Cape, Joshua, Held, Elizabeth, Ashenafi, Yonatan, Fischer, Karen, Acosta, Allyson, Cunningham, Mark, Best, Aaron A, DeJongh, Matthew, Tintle, Nathan
Published in Frontiers in microbiology (09.08.2016)
Published in Frontiers in microbiology (09.08.2016)
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Journal Article
Computing and applying atomic regulons to understand gene expression and regulation
Faria, J., Davis, James J., Edirisinghe, Janaka N., Taylor, Ronald C., Weisenhorn, Pamela, Olson, Robert D., Stevens, Rick L., Rocha, Miguel, Rocha, Isabel, Best, Aaron A., DeJongh, Matthew, Tintle, Nathan L., Parrello, Bruce, Overbeek, Ross, Henry, Christopher S.
Published in Frontiers in microbiology (24.11.2016)
Published in Frontiers in microbiology (24.11.2016)
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Journal Article
The ModelSEED Biochemistry Database for the integration of metabolic annotations and the reconstruction, comparison and analysis of metabolic models for plants, fungi and microbes
Seaver, Samuel M D, Liu, Filipe, Zhang, Qizhi, Jeffryes, James, Faria, José P, Edirisinghe, Janaka N, Mundy, Michael, Chia, Nicholas, Noor, Elad, Beber, Moritz E, Best, Aaron A, DeJongh, Matthew, Kimbrel, Jeffrey A, D’haeseleer, Patrik, McCorkle, Sean R, Bolton, Jay R, Pearson, Erik, Canon, Shane, Wood-Charlson, Elisha M, Cottingham, Robert W, Arkin, Adam P, Henry, Christopher S
Published in Nucleic acids research (08.01.2021)
Published in Nucleic acids research (08.01.2021)
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Journal Article
Characterization of Gut Microbiome Dynamics in Developing Pekin Ducks and Impact of Management System
Best, Aaron A, Porter, Amanda L, Fraley, Susan M, Fraley, Gregory S
Published in Frontiers in microbiology (04.01.2017)
Published in Frontiers in microbiology (04.01.2017)
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Journal Article
Gene set analyses for interpreting microarray experiments on prokaryotic organisms
Tintle, Nathan L, Best, Aaron A, DeJongh, Matthew, Van Bruggen, Dirk, Heffron, Fred, Porwollik, Steffen, Taylor, Ronald C
Published in BMC bioinformatics (05.11.2008)
Published in BMC bioinformatics (05.11.2008)
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Journal Article
Microbial Community Composition Dependence on Season, Site, and Flow Rate in the Macatawa Watershed
Currier, Jenna K, Dawson, Nicholas J, Horsburgh, Luke, Cooper, Carolyn E A, Slater, Adam D, Brokus, Sarah A, Wade, Randall D, Best, Aaron A, Pikaart, Michael J, Krueger, Brent P
Published in The FASEB journal (01.05.2022)
Published in The FASEB journal (01.05.2022)
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Journal Article
Genomic Minimalism in the Early Diverging Intestinal Parasite Giardia lamblia
Morrison, Hilary G, McArthur, Andrew G, Gillin, Frances D, Aley, Stephen B, Adam, Rodney D, Olsen, Gary J, Best, Aaron A, Cande, W. Zacheus, Chen, Feng, Cipriano, Michael J, Davids, Barbara J, Dawson, Scott C, Elmendorf, Heidi G, Hehl, Adrian B, Holder, Michael E, Huse, Susan M, Kim, Ulandt U, Lasek-Nesselquist, Erica, Manning, Gerard, Nigam, Anuranjini, Nixon, Julie E.J, Palm, Daniel, Passamaneck, Nora E, Prabhu, Anjali, Reich, Claudia I, Reiner, David S, Samuelson, John, Svard, Staffan G, Sogin, Mitchell L
Published in Science (American Association for the Advancement of Science) (28.09.2007)
Published in Science (American Association for the Advancement of Science) (28.09.2007)
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Journal Article
The ModelSEED Biochemistry Database for the integration of metabolic annotations and the reconstruction, comparison and analysis of metabolic models for plants, fungi and microbes
Seaver, Samuel M D, Liu, Filipe, Zhang, Qizhi, Jeffryes, James, Faria, José P, Edirisinghe, Janaka N, Mundy, Michael, Chia, Nicholas, Noor, Elad, Beber, Moritz E, Best, Aaron A, DeJongh, Matthew, Kimbrel, Jeffrey A, D’haeseleer, Patrik, McCorkle, Sean R, Bolton, Jay R, Pearson, Erik, Canon, Shane, Wood-Charlson, Elisha M, Cottingham, Robert W, Arkin, Adam P, Henry, Christopher S
Published in Nucleic acids research (08.01.2021)
Published in Nucleic acids research (08.01.2021)
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Journal Article