ALEdb 1.0: a database of mutations from adaptive laboratory evolution experimentation

por Phaneuf, Patrick V, Gosting, Dennis, Palsson, Bernhard O, Feist, Adam M
Publicado 2019

Synthetic Cross-Phyla Gene Replacement and Evolutionary Assimilation of Major Enzymes

por Sandberg, Troy E., Szubin, Richard, Phaneuf, Patrick V., Palsson, Bernhard O.
Publicado 2020

iModulonDB: a knowledgebase of microbial transcriptional regulation derived from machine learning

por Rychel, Kevin, Decker, Katherine, Sastry, Anand V, Phaneuf, Patrick V, Poudel, Saugat, Palsson, Bernhard O
Publicado 2020

Causal mutations from adaptive laboratory evolution are outlined by multiple scales of genome annotations and condition-specificity

por Phaneuf, Patrick V., Yurkovich, James T., Heckmann, David, Wu, Muyao, Sandberg, Troy E., King, Zachary A., Tan, Justin, Palsson, Bernhard O., Feist, Adam M.
Publicado 2020

Kinetic profiling of metabolic specialists demonstrates stability and consistency of in vivo enzyme turnover numbers

por Heckmann, David, Campeau, Anaamika, Lloyd, Colton J., Phaneuf, Patrick V., Hefner, Ying, Carrillo-Terrazas, Marvic, Feist, Adam M., Gonzalez, David J., Palsson, Bernhard O.
Publicado 2020

Laboratory evolution of synthetic electron transport system variants reveals a larger metabolic respiratory system and its plasticity

por Anand, Amitesh, Patel, Arjun, Chen, Ke, Olson, Connor A., Phaneuf, Patrick V., Lamoureux, Cameron, Hefner, Ying, Szubin, Richard, Feist, Adam M., Palsson, Bernhard O.
Publicado 2022

Reframing gene essentiality in terms of adaptive flexibility

por Guzmán, Gabriela I., Olson, Connor A., Hefner, Ying, Phaneuf, Patrick V., Catoiu, Edward, Crepaldi, Lais B., Micas, Lucas Goldschmidt, Palsson, Bernhard O., Feist, Adam M.
Publicado 2018

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 2020

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 2019

Escherichia coli Data-Driven Strain Design Using Aggregated Adaptive Laboratory Evolution Mutational Data

por Phaneuf, Patrick V., Zielinski, Daniel C., Yurkovich, James T., Johnsen, Josefin, Szubin, Richard, Yang, Lei, Kim, Se Hyeuk, Schulz, Sebastian, Wu, Muyao, Dalldorf, Christopher, Ozdemir, Emre, Lennen, Rebecca M., Palsson, Bernhard O., Feist, Adam M.
Publicado 2021

The genetic basis for adaptation of model-designed syntrophic co-cultures

por 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.
Publicado 2019