Elucidation of Regulatory Modes for Five Two-Component Systems in Escherichia coli Reveals Novel Relationships

Por Choudhary, Kumari Sonal, Kleinmanns, Julia A., Decker, Katherine, Sastry, Anand V., Gao, Ye, Szubin, Richard, Seif, Yara, Palsson, Bernhard O.
Publicado no mSystems (2020)

Escherichia coli B2 strains prevalent in inflammatory bowel disease patients have distinct metabolic capabilities that enable colonization of intestinal mucosa

Por Fang, Xin, Monk, Jonathan M., Mih, Nathan, Du, Bin, Sastry, Anand V., Kavvas, Erol, Seif, Yara, Smarr, Larry, Palsson, Bernhard O.
Publicado no BMC Syst Biol (2018)

The Escherichia coli transcriptome mostly consists of independently regulated modules

Por Sastry, Anand V., Gao, Ye, Szubin, Richard, Hefner, Ying, Xu, Sibei, Kim, Donghyuk, Choudhary, Kumari Sonal, Yang, Laurence, King, Zachary A., Palsson, Bernhard O.
Publicado no Nat Commun (2019)

Revealing 29 sets of independently modulated genes in Staphylococcus aureus, their regulators, and role in key physiological response

Por Poudel, Saugat, Tsunemoto, Hannah, Seif, Yara, Sastry, Anand V., Szubin, Richard, Xu, Sibei, Machado, Henrique, Olson, Connor A., Anand, Amitesh, Pogliano, Joe, Nizet, Victor, Palsson, Bernhard O.
Publicado no Proc Natl Acad Sci U S A (2020)

The Bitome: digitized genomic features reveal fundamental genome organization

Por Lamoureux, Cameron R, Choudhary, Kumari Sonal, King, Zachary A, Sandberg, Troy E, Gao, Ye, Sastry, Anand V, Phaneuf, Patrick V, Choe, Donghui, Cho, Byung-Kwan, Palsson, Bernhard O
Publicado no Nucleic Acids Res (2020)

OxyR Is a Convergent Target for Mutations Acquired during Adaptation to Oxidative Stress-Prone Metabolic States

Por Anand, Amitesh, Chen, Ke, Catoiu, Edward, Sastry, Anand V, Olson, Connor A, Sandberg, Troy E, Seif, Yara, Xu, Sibei, Szubin, Richard, Yang, Laurence, Feist, Adam M, Palsson, Bernhard O
Publicado no Mol Biol Evol (2020)

BOFdat: Generating biomass objective functions for genome-scale metabolic models from experimental data

Por Lachance, Jean-Christophe, Lloyd, Colton J., Monk, Jonathan M., Yang, Laurence, Sastry, Anand V., Seif, Yara, Palsson, Bernhard O., Rodrigue, Sébastien, Feist, Adam M., King, Zachary A., Jacques, Pierre-Étienne
Publicado no PLoS Comput Biol (2019)

Adaptive evolution reveals a tradeoff between growth rate and oxidative stress during naphthoquinone-based aerobic respiration

Por Anand, Amitesh, Chen, Ke, Yang, Laurence, Sastry, Anand V., Olson, Connor A., Poudel, Saugat, Seif, Yara, Hefner, Ying, Phaneuf, Patrick V., Xu, Sibei, Szubin, Richard, Feist, Adam M., Palsson, Bernhard O.
Publicado no Proc Natl Acad Sci U S A (2019)

Adaptive laboratory evolution of Escherichia coli under acid stress

Por Du, Bin, Olson, Connor A., Sastry, Anand V., Fang, Xin, Phaneuf, Patrick V., Chen, Ke, Wu, Muyao, Szubin, Richard, Xu, Sibei, Gao, Ye, Hefner, Ying, Feist, Adam M., Palsson, Bernhard O.
Publicado no Microbiology (2020)

Systematic discovery of uncharacterized transcription factors in Escherichia coli K-12 MG1655

Por Gao, Ye, Yurkovich, James T, Seo, Sang Woo, Kabimoldayev, Ilyas, Dräger, Andreas, Chen, Ke, Sastry, Anand V, Fang, Xin, Mih, Nathan, Yang, Laurence, Eichner, Johannes, Cho, Byung-Kwan, Kim, Donghyuk, Palsson, Bernhard O
Publicado no Nucleic Acids Res (2018)

Cellular responses to reactive oxygen species are predicted from molecular mechanisms

Por Yang, Laurence, Mih, Nathan, Anand, Amitesh, Park, Joon Ho, Tan, Justin, Yurkovich, James T., Monk, Jonathan M., Lloyd, Colton J., Sandberg, Troy E., Seo, Sang Woo, Kim, Donghyuk, Sastry, Anand V., Phaneuf, Patrick, Gao, Ye, Broddrick, Jared T., Chen, Ke, Heckmann, David, Szubin, Richard, Hefner, Ying, Feist, Adam M., Palsson, Bernhard O.
Publicado no Proc Natl Acad Sci U S A (2019)