Using Genome-scale Models to Predict Biological Capabilities von O’Brien, Edward J., Monk, Jonathan M., Palsson, Bernhard O.

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COBRAme: A computational framework for genome-scale models of metabolism and gene expression von Lloyd, Colton J, Ebrahim, Ali, Yang, Laurence, King, Zachary A, Catoiu, Edward, O'Brien, Edward J, Liu, Joanne K, Palsson, Bernhard O

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Computing the functional proteome: recent progress and future prospects for genome-scale models von O’Brien, Edward J, Palsson, Bernhard O

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Genome‐scale models of metabolism and gene expression extend and refine growth phenotype prediction von O'Brien, Edward J, Lerman, Joshua A, Chang, Roger L, Hyduke, Daniel R, Palsson, Bernhard Ø

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Use of adaptive laboratory evolution to discover key mutations enabling rapid growth of Escherichia coli K-12 MG1655 on glucose minimal medium von LaCroix, Ryan A, Sandberg, Troy E, O'Brien, Edward J, Utrilla, Jose, Ebrahim, Ali, Guzman, Gabriela I, Szubin, Richard, Palsson, Bernhard O, Feist, Adam M

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Multi-omic data integration enables discovery of hidden biological regularities von Ebrahim, Ali, Brunk, Elizabeth, Tan, Justin, O'Brien, Edward J., Kim, Donghyuk, Szubin, Richard, Lerman, Joshua A., Lechner, Anna, Sastry, Anand, Bordbar, Aarash, Feist, Adam M., Palsson, Bernhard O.

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Can readers fully adopt the perspective of the protagonist? von Creer, Sarah D, Cook, Anne E, O’Brien, Edward J

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Processing real-world violations embedded within a fantasy-world narrative von Walsh, Erinn K, Cook, Anne E, O’Brien, Edward J

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Laboratory evolution reveals a two-dimensional rate-yield tradeoff in microbial metabolism von Cheng, Chuankai, O'Brien, Edward J, McCloskey, Douglas, Utrilla, Jose, Olson, Connor, LaCroix, Ryan A, Sandberg, Troy E, Feist, Adam M, Palsson, Bernhard O, King, Zachary A

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The genetic basis for adaptation of model-designed syntrophic co-cultures von Lloyd, Colton J, King, Zachary A, Sandberg, Troy E, Hefner, Ying, Olson, Connor A, Phaneuf, Patrick V, O'Brien, Edward J, Sanders, Jon G, Salido, Rodolfo A, Sanders, Karenina, Brennan, Caitriona, Humphrey, Gregory, Knight, Rob, Feist, Adam M

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Systems biology of the structural proteome von Brunk, Elizabeth, Mih, Nathan, Monk, Jonathan, Zhang, Zhen, O'Brien, Edward J, Bliven, Spencer E, Chen, Ke, Chang, Roger L, Bourne, Philip E, Palsson, Bernhard O

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Systems biology definition of the core proteome of metabolism and expression is consistent with high-throughput data von Yang, Laurence, Tan, Justin, O’Brien, Edward J., Monk, Jonathan M., Kim, Donghyuk, Li, Howard J., Charusanti, Pep, Ebrahim, Ali, Lloyd, Colton J., Yurkovich, James T., Du, Bin, Dräger, Andreas, Thomas, Alex, Sun, Yuekai, Saunders, Michael A., Palsson, Bernhard O.

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Quantification and Classification of E. coli Proteome Utilization and Unused Protein Costs across Environments von O'Brien, Edward J, Utrilla, Jose, Palsson, Bernhard O

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Deciphering Fur transcriptional regulatory network highlights its complex role beyond iron metabolism in Escherichia coli von Seo, Sang Woo, Kim, Donghyuk, Latif, Haythem, O’Brien, Edward J., Szubin, Richard, Palsson, Bernhard O.

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Thermosensitivity of growth is determined by chaperone-mediated proteome reallocation von Chen, Ke, Gao, Ye, Mih, Nathan, O’Brien, Edward J., Yang, Laurence, Palsson, Bernhard O.

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Updating during Reading Comprehension: Why Causality Matters von Kendeou, Panayiota, Smith, Emily R, O'Brien, Edward J

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SER-109, an Investigational Microbiome Drug to Reduce Recurrence After Clostridioides difficile Infection: Lessons Learned From a Phase 2 Trial von McGovern, Barbara H, Ford, Christopher B, Henn, Matthew R, Pardi, Darrell S, Khanna, Sahil, Hohmann, Elizabeth L, O’Brien, Edward J, Desjardins, Christopher A, Bernardo, Patricia, Wortman, Jennifer R, Lombardo, Mary-Jane, Litcofsky, Kevin D, Winkler, Jonathan A, McChalicher, Christopher W J, Li, Sunny S, Tomlinson, Amelia D, Nandakumar, Madhumitha, Cook, David N, Pomerantz, Roger J, Auninš, John G, Trucksis, Michele

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A Phase 1b Safety Study of SER-287, a Spore-Based Microbiome Therapeutic, for Active Mild to Moderate Ulcerative Colitis von Henn, Matthew R., O’Brien, Edward J., Diao, Liyang, Feagan, Brian G., Sandborn, William J., Huttenhower, Curtis, Wortman, Jennifer R., McGovern, Barbara H., Wang-Weigand, Sherry, Lichter, David I., Chafee, Meghan, Ford, Christopher B., Bernardo, Patricia, Zhao, Peng, Simmons, Sheri, Tomlinson, Amelia D., Cook, David N., Pomerantz, Roger J., Misra, Bharat K., Auninš, John G., Trucksis, Michele

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Decoding genome-wide GadEWX-transcriptional regulatory networks reveals multifaceted cellular responses to acid stress in Escherichia coli von Seo, Sang Woo, Kim, Donghyuk, O’Brien, Edward J., Szubin, Richard, Palsson, Bernhard O.

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Source credibility and the processing of refutation texts von Van Boekel, Martin, Lassonde, Karla A., O’Brien, Edward J., Kendeou, Panayiota

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