Ashlee M Earl (A M Earl)

Publication Activity (10 Years)

Years Active: 2017-2024
Publications (10 Years): 41

Top Topics

Escherichia Coli

Convolutional Neural Network

Top Venues

bioRxiv : the preprint server for biology

Nature microbiology

Genome medicine

This page only lists publications with an associated author ORCID identifier.

Publications

Mark G Young, Timothy J Straub, Colin J Worby, Hayden C Metsky, Andreas Gnirke, Ryan A Bronson, Lucas R van Dijk, Christopher A Desjardins, Christian Matranga, James Qu, Karen L Dodson, Henry Louis Schreiber, Abigail L Manson, Scott J Hultgren, Ashlee M Earl
Distinct Escherichia coli transcriptional profiles in the guts of recurrent UTI sufferers revealed by pan-genome hybrid selection. bioRxiv : the preprint server for biology (2024)
Mark G Young, Timothy J Straub, Colin J Worby, Hayden C Metsky, Andreas Gnirke, Ryan A Bronson, Lucas R van Dijk, Christopher A Desjardins, Christian Matranga, James Qu, Jesús Bazan Villicana, Philippe Azimzadeh, Andrew L Kau, Karen L Dodson, Henry Louis Schreiber, Abigail L Manson, Scott J Hultgren, Ashlee M Earl
Distinct Escherichia coli transcriptional profiles in the guts of recurrent UTI sufferers revealed by pangenome hybrid selection. bioRxiv : the preprint server for biology (2024)
Mark G Young, Timothy J Straub, Colin J Worby, Hayden C Metsky, Andreas Gnirke, Ryan A Bronson, Lucas R van Dijk, Christopher A Desjardins, Christian Matranga, James Qu, Karen L Dodson, Henry Louis Schreiber, Abigail L Manson, Scott J Hultgren, Ashlee M Earl
Distinct Escherichia coli transcriptional profiles in the guts of recurrent UTI sufferers revealed by pan-genome hybrid selection. bioRxiv : the preprint server for biology (2024)
Mark G Young, Timothy J Straub, Colin J Worby, Hayden C Metsky, Andreas Gnirke, Ryan A Bronson, Lucas R van Dijk, Christopher A Desjardins, Christian Matranga, James Qu, Jesús Bazan Villicana, Philippe Azimzadeh, Andrew L Kau, Karen L Dodson, Henry Louis Schreiber, Abigail L Manson, Scott J Hultgren, Ashlee M Earl
Distinct Escherichia coli transcriptional profiles in the guts of recurrent UTI sufferers revealed by pangenome hybrid selection. bioRxiv : the preprint server for biology (2024)
Mark G Young, Timothy J Straub, Colin J Worby, Hayden C Metsky, Andreas Gnirke, Ryan A Bronson, Lucas R van Dijk, Christopher A Desjardins, Christian Matranga, James Qu, Karen L Dodson, Henry Louis Schreiber, Abigail L Manson, Scott J Hultgren, Ashlee M Earl
Distinct Escherichia coli transcriptional profiles in the guts of recurrent UTI sufferers revealed by pan-genome hybrid selection. bioRxiv : the preprint server for biology (2024)
Mark G Young, Timothy J Straub, Colin J Worby, Hayden C Metsky, Andreas Gnirke, Ryan A Bronson, Lucas R van Dijk, Christopher A Desjardins, Christian Matranga, James Qu, Jesús Bazan Villicana, Philippe Azimzadeh, Andrew L Kau, Karen L Dodson, Henry Louis Schreiber, Abigail L Manson, Scott J Hultgren, Ashlee M Earl
Distinct Escherichia coli transcriptional profiles in the guts of recurrent UTI sufferers revealed by pangenome hybrid selection. bioRxiv : the preprint server for biology (2024)
Felix Wong, Erica J Zheng, Jacqueline A Valeri, Nina M Donghia, Melis N Anahtar, Satotaka Omori, Alicia Li, Andres Cubillos-Ruiz, Aarti Krishnan, Wengong Jin, Abigail L Manson, Jens Friedrichs, Ralf Helbig, Behnoush Hajian, Dawid K Fiejtek, Florence F Wagner, Holly H Soutter, Ashlee M Earl, Jonathan M Stokes, Lars David Renner, James J Collins
Discovery of a structural class of antibiotics with explainable deep learning. Nature 626 (7997) (2023)
Felix Wong, Erica J Zheng, Jacqueline A Valeri, Nina M Donghia, Melis N Anahtar, Satotaka Omori, Alicia Li, Andres Cubillos-Ruiz, Aarti Krishnan, Wengong Jin, Abigail L Manson, Jens Friedrichs, Ralf Helbig, Behnoush Hajian, Dawid K Fiejtek, Florence F Wagner, Holly H Soutter, Ashlee M Earl, Jonathan M Stokes, Lars David Renner, James J Collins
Discovery of a structural class of antibiotics with explainable deep learning. Nature (2023)
Katherine M Kennedy, Marcus C de Goffau, Maria Elisa Perez-Munoz, Marie-Claire Arrieta, Fredrik Bäckhed, Peer Bork, Thorsten Braun, Frederic D Bushman, Joel Dore, Willem M de Vos, Ashlee M Earl, Jonathan A Eisen, Michal A Elovitz, Stephanie Christine Ganal-Vonarburg, Michael G Gaenzle, Wendy S Garrett, Lindsay J Hall, Mathias W Hornef, Curtis Huttenhower, Liza Konnikova, Sarah Lebeer, Andrew J Macpherson, Ruth C Massey, Alice Carolyn McHardy, Omry Koren, Trevor D Lawley, Ruth E Ley, Corina M Berset, Paul W O' Toole, Eric G Pamer, Julian Parkhill, Jeroen Raes, Thomas Rattei, Anne Salonen, Eran Segal, Nicola Segata, Fergus Shanahan, Deborah M Sloboda, Gordon C S Smith, Harry Sokol, Timothy D Spector, Michael G Surette, Gerald W Tannock, Alan William Walker, Moran Yassour, Jens Walter
Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies. Nature 613 (7945) (2023)
Alexis Jaramillo Cartagena, Kyra L Taylor, Joshua T Smith, Abigail L Manson, Virginia M Pierce, Ashlee M Earl, Roby P Bhattacharyya
The carbapenem inoculum effect provides insight into the molecular mechanisms underlying carbapenem resistance in Enterobacterales . bioRxiv : the preprint server for biology (2023)
Katherine M Kennedy, Marcus C de Goffau, Maria Elisa Perez-Munoz, Marie-Claire Arrieta, Fredrik Bäckhed, Peer Bork, Thorsten Braun, Frederic D Bushman, Joel Dore, Willem M de Vos, Ashlee M Earl, Jonathan A Eisen, Michal A Elovitz, Stephanie Christine Ganal-Vonarburg, Michael G Gaenzle, Wendy S Garrett, Lindsay J Hall, Mathias W Hornef, Curtis Huttenhower, Liza Konnikova, Sarah Lebeer, Andrew J Macpherson, Ruth C Massey, Alice Carolyn McHardy, Omry Koren, Trevor D Lawley, Ruth E Ley, Corina M Berset, Paul W O' Toole, Eric G Pamer, Julian Parkhill, Jeroen Raes, Thomas Rattei, Anne Salonen, Eran Segal, Nicola Segata, Fergus Shanahan, Deborah M Sloboda, Gordon C S Smith, Harry Sokol, Timothy D Spector, Michael G Surette, Gerald W Tannock, Alan William Walker, Moran Yassour, Jens Walter
Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies. Nature 613 (7945) (2023)
Felix Wong, Erica J Zheng, Jacqueline A Valeri, Nina M Donghia, Melis N Anahtar, Satotaka Omori, Alicia Li, Andres Cubillos-Ruiz, Aarti Krishnan, Wengong Jin, Abigail L Manson, Jens Friedrichs, Ralf Helbig, Behnoush Hajian, Dawid K Fiejtek, Florence F Wagner, Holly H Soutter, Ashlee M Earl, Jonathan M Stokes, Lars David Renner, James J Collins
Discovery of a structural class of antibiotics with explainable deep learning. Nature 626 (7997) (2023)
Felix Wong, Erica J Zheng, Jacqueline A Valeri, Nina M Donghia, Melis N Anahtar, Satotaka Omori, Alicia Li, Andres Cubillos-Ruiz, Aarti Krishnan, Wengong Jin, Abigail L Manson, Jens Friedrichs, Ralf Helbig, Behnoush Hajian, Dawid K Fiejtek, Florence F Wagner, Holly H Soutter, Ashlee M Earl, Jonathan M Stokes, Lars David Renner, James J Collins
Discovery of a structural class of antibiotics with explainable deep learning. Nature 626 (7997) (2023)
Katherine M Kennedy, Marcus C de Goffau, Maria Elisa Perez-Munoz, Marie-Claire Arrieta, Fredrik Bäckhed, Peer Bork, Thorsten Braun, Frederic D Bushman, Joel Dore, Willem M de Vos, Ashlee M Earl, Jonathan A Eisen, Michal A Elovitz, Stephanie Christine Ganal-Vonarburg, Michael G Gaenzle, Wendy S Garrett, Lindsay J Hall, Mathias W Hornef, Curtis Huttenhower, Liza Konnikova, Sarah Lebeer, Andrew J Macpherson, Ruth C Massey, Alice Carolyn McHardy, Omry Koren, Trevor D Lawley, Ruth E Ley, Corina M Berset, Paul W O' Toole, Eric G Pamer, Julian Parkhill, Jeroen Raes, Thomas Rattei, Anne Salonen, Eran Segal, Nicola Segata, Fergus Shanahan, Deborah M Sloboda, Gordon C S Smith, Harry Sokol, Timothy D Spector, Michael G Surette, Gerald W Tannock, Alan William Walker, Moran Yassour, Jens Walter
Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies. Nature 613 (7945) (2023)
Katherine M Kennedy, Marcus C de Goffau, Maria Elisa Perez-Munoz, Marie-Claire Arrieta, Fredrik Bäckhed, Peer Bork, Thorsten Braun, Frederic D Bushman, Joel Dore, Willem M de Vos, Ashlee M Earl, Jonathan A Eisen, Michal A Elovitz, Stephanie Christine Ganal-Vonarburg, Michael G Gaenzle, Wendy S Garrett, Lindsay J Hall, Mathias W Hornef, Curtis Huttenhower, Liza Konnikova, Sarah Lebeer, Andrew J Macpherson, Ruth C Massey, Alice Carolyn McHardy, Omry Koren, Trevor D Lawley, Ruth E Ley, Corina M Berset, Paul W O' Toole, Eric G Pamer, Julian Parkhill, Jeroen Raes, Thomas Rattei, Anne Salonen, Eran Segal, Nicola Segata, Fergus Shanahan, Deborah M Sloboda, Gordon C S Smith, Harry Sokol, Timothy D Spector, Michael G Surette, Gerald W Tannock, Alan William Walker, Moran Yassour, Jens Walter
Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies. Nature 613 (7945) (2023)
Katherine M Kennedy, Marcus C de Goffau, Maria Elisa Perez-Munoz, Marie-Claire Arrieta, Fredrik Bäckhed, Peer Bork, Thorsten Braun, Frederic D Bushman, Joel Dore, Willem M de Vos, Ashlee M Earl, Jonathan A Eisen, Michal A Elovitz, Stephanie Christine Ganal-Vonarburg, Michael G Gaenzle, Wendy S Garrett, Lindsay J Hall, Mathias W Hornef, Curtis Huttenhower, Liza Konnikova, Sarah Lebeer, Andrew J Macpherson, Ruth C Massey, Alice Carolyn McHardy, Omry Koren, Trevor D Lawley, Ruth E Ley, Corina M Berset, Paul W O' Toole, Eric G Pamer, Julian Parkhill, Jeroen Raes, Thomas Rattei, Anne Salonen, Eran Segal, Nicola Segata, Fergus Shanahan, Deborah M Sloboda, Gordon C S Smith, Harry Sokol, Timothy D Spector, Michael G Surette, Gerald W Tannock, Alan William Walker, Moran Yassour, Jens Walter
Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies. Nature 613 (7945) (2023)
Rauf Salamzade, Christi L McElheny, Abigail L Manson, Ashlee M Earl, Nader Shaikh, Yohei Doi
Genomic epidemiology and antibiotic susceptibility profiling of uropathogenic Escherichia coli among children in the United States. mSphere (2023)
Felix Wong, Erica J Zheng, Jacqueline A Valeri, Nina M Donghia, Melis N Anahtar, Satotaka Omori, Alicia Li, Andres Cubillos-Ruiz, Aarti Krishnan, Wengong Jin, Abigail L Manson, Jens Friedrichs, Ralf Helbig, Behnoush Hajian, Dawid K Fiejtek, Florence F Wagner, Holly H Soutter, Ashlee M Earl, Jonathan M Stokes, Lars David Renner, James J Collins
Discovery of a structural class of antibiotics with explainable deep learning. Nature 626 (7997) (2023)
Felix Wong, Erica J Zheng, Jacqueline A Valeri, Nina M Donghia, Melis N Anahtar, Satotaka Omori, Alicia Li, Andres Cubillos-Ruiz, Aarti Krishnan, Wengong Jin, Abigail L Manson, Jens Friedrichs, Ralf Helbig, Behnoush Hajian, Dawid K Fiejtek, Florence F Wagner, Holly H Soutter, Ashlee M Earl, Jonathan M Stokes, Lars David Renner, James J Collins
Discovery of a structural class of antibiotics with explainable deep learning. Nature 626 (7997) (2023)
Felix Wong, Erica J Zheng, Jacqueline A Valeri, Nina M Donghia, Melis N Anahtar, Satotaka Omori, Alicia Li, Andres Cubillos-Ruiz, Aarti Krishnan, Wengong Jin, Abigail L Manson, Jens Friedrichs, Ralf Helbig, Behnoush Hajian, Dawid K Fiejtek, Florence F Wagner, Holly H Soutter, Ashlee M Earl, Jonathan M Stokes, Lars David Renner, James J Collins
Discovery of a structural class of antibiotics with explainable deep learning. Nature 626 (7997) (2023)
Katherine M Kennedy, Marcus C de Goffau, Maria Elisa Perez-Munoz, Marie-Claire Arrieta, Fredrik Bäckhed, Peer Bork, Thorsten Braun, Frederic D Bushman, Joel Dore, Willem M de Vos, Ashlee M Earl, Jonathan A Eisen, Michal A Elovitz, Stephanie Christine Ganal-Vonarburg, Michael G Gaenzle, Wendy S Garrett, Lindsay J Hall, Mathias W Hornef, Curtis Huttenhower, Liza Konnikova, Sarah Lebeer, Andrew J Macpherson, Ruth C Massey, Alice Carolyn McHardy, Omry Koren, Trevor D Lawley, Ruth E Ley, Corina M Berset, Paul W O' Toole, Eric G Pamer, Julian Parkhill, Jeroen Raes, Thomas Rattei, Anne Salonen, Eran Segal, Nicola Segata, Fergus Shanahan, Deborah M Sloboda, Gordon C S Smith, Harry Sokol, Timothy D Spector, Michael G Surette, Gerald W Tannock, Alan William Walker, Moran Yassour, Jens Walter
Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies. Nature 613 (7945) (2023)
Felix Wong, Erica J Zheng, Jacqueline A Valeri, Nina M Donghia, Melis N Anahtar, Satotaka Omori, Alicia Li, Andres Cubillos-Ruiz, Aarti Krishnan, Wengong Jin, Abigail L Manson, Jens Friedrichs, Ralf Helbig, Behnoush Hajian, Dawid K Fiejtek, Florence F Wagner, Holly H Soutter, Ashlee M Earl, Jonathan M Stokes, Lars David Renner, James J Collins
Discovery of a structural class of antibiotics with explainable deep learning. Nature (2023)
Katherine M Kennedy, Marcus C de Goffau, Maria Elisa Perez-Munoz, Marie-Claire Arrieta, Fredrik Bäckhed, Peer Bork, Thorsten Braun, Frederic D Bushman, Joel Dore, Willem M de Vos, Ashlee M Earl, Jonathan A Eisen, Michal A Elovitz, Stephanie Christine Ganal-Vonarburg, Michael G Gaenzle, Wendy S Garrett, Lindsay J Hall, Mathias W Hornef, Curtis Huttenhower, Liza Konnikova, Sarah Lebeer, Andrew J Macpherson, Ruth C Massey, Alice Carolyn McHardy, Omry Koren, Trevor D Lawley, Ruth E Ley, Corina M Berset, Paul W O' Toole, Eric G Pamer, Julian Parkhill, Jeroen Raes, Thomas Rattei, Anne Salonen, Eran Segal, Nicola Segata, Fergus Shanahan, Deborah M Sloboda, Gordon C S Smith, Harry Sokol, Timothy D Spector, Michael G Surette, Gerald W Tannock, Alan William Walker, Moran Yassour, Jens Walter
Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies. Nature 613 (7945) (2023)
Felix Wong, Erica J Zheng, Jacqueline A Valeri, Nina M Donghia, Melis N Anahtar, Satotaka Omori, Alicia Li, Andres Cubillos-Ruiz, Aarti Krishnan, Wengong Jin, Abigail L Manson, Jens Friedrichs, Ralf Helbig, Behnoush Hajian, Dawid K Fiejtek, Florence F Wagner, Holly H Soutter, Ashlee M Earl, Jonathan M Stokes, Lars David Renner, James J Collins
Discovery of a structural class of antibiotics with explainable deep learning. Nature 626 (7997) (2023)
Felix Wong, Erica J Zheng, Jacqueline A Valeri, Nina M Donghia, Melis N Anahtar, Satotaka Omori, Alicia Li, Andres Cubillos-Ruiz, Aarti Krishnan, Wengong Jin, Abigail L Manson, Jens Friedrichs, Ralf Helbig, Behnoush Hajian, Dawid K Fiejtek, Florence F Wagner, Holly H Soutter, Ashlee M Earl, Jonathan M Stokes, Lars David Renner, James J Collins
Discovery of a structural class of antibiotics with explainable deep learning. Nature 626 (7997) (2023)
Felix Wong, Erica J Zheng, Jacqueline A Valeri, Nina M Donghia, Melis N Anahtar, Satotaka Omori, Alicia Li, Andres Cubillos-Ruiz, Aarti Krishnan, Wengong Jin, Abigail L Manson, Jens Friedrichs, Ralf Helbig, Behnoush Hajian, Dawid K Fiejtek, Florence F Wagner, Holly H Soutter, Ashlee M Earl, Jonathan M Stokes, Lars David Renner, James J Collins
Discovery of a structural class of antibiotics with explainable deep learning. Nature (2023)
Felix Wong, Erica J Zheng, Jacqueline A Valeri, Nina M Donghia, Melis N Anahtar, Satotaka Omori, Alicia Li, Andres Cubillos-Ruiz, Aarti Krishnan, Wengong Jin, Abigail L Manson, Jens Friedrichs, Ralf Helbig, Behnoush Hajian, Dawid K Fiejtek, Florence F Wagner, Holly H Soutter, Ashlee M Earl, Jonathan M Stokes, Lars David Renner, James J Collins
Discovery of a structural class of antibiotics with explainable deep learning. Nature 626 (7997) (2023)
Rauf Salamzade, Abigail L Manson, Bruce J Walker, Thea Brennan-Krohn, Colin J Worby, Peijun Ma, Lorrie L He, Terrance P Shea, James Qu, Sinéad B Chapman, Whitney Howe, Sarah K Young, Jenna I Wurster, Mary L Delaney, Sanjat Kanjilal, Andrew B Onderdonk, Cassiana E Bittencourt, Gabrielle M Gussin, Diane Kim, Ellena M Peterson, Mary Jane Ferraro, David C Hooper, Erica S Shenoy, Christina A Cuomo, Lisa A Cosimi, Susan S Huang, James E Kirby, Virginia M Pierce, Roby P Bhattacharyya, Ashlee M Earl
Inter-species geographic signatures for tracing horizontal gene transfer and long-term persistence of carbapenem resistance. Genome medicine 14 (1) (2022)
Lucas R van Dijk, Bruce J Walker, Timothy J Straub, Colin J Worby, Alexandra Grote, Henry L Schreiber, Christine Anyansi, Amy J Pickering, Scott J Hultgren, Abigail L Manson, Thomas Abeel, Ashlee M Earl
StrainGE: a toolkit to track and characterize low-abundance strains in complex microbial communities. Genome biology 23 (1) (2022)
Erica J Zheng, Ian W Andrews, Alexandra T Grote, Abigail L Manson, Miguel A Alcantar, Ashlee M Earl, James J Collins
Modulating the evolutionary trajectory of tolerance using antibiotics with different metabolic dependencies. Nature communications 13 (1) (2022)
Colin J Worby, Henry L Schreiber, Timothy J Straub, Lucas R van Dijk, Ryan A Bronson, Benjamin S Olson, Jerome S Pinkner, Chloe L P Obernuefemann, Vanessa L Muñoz, Alexandra E Paharik, Philippe N Azimzadeh, Bruce J Walker, Christopher A Desjardins, Wen-Chi Chou, Karla Bergeron, Sinéad B Chapman, Aleksandra Klim, Abigail L Manson, Thomas J Hannan, Thomas M Hooton, Andrew L Kau, H Henry Lai, Karen W Dodson, Scott J Hultgren, Ashlee M Earl
Longitudinal multi-omics analyses link gut microbiome dysbiosis with recurrent urinary tract infections in women. Nature microbiology 7 (5) (2022)
Maya L Nadimpalli, Val F Lanza, Maria Camila Montealegre, Sonia Sultana, Erica R Fuhrmeister, Colin J Worby, Lisa Teichmann, Lea Caduff, Jenna M Swarthout, Yoshika Susan Crider, Ashlee M Earl, Joe Brown, Stephen P Luby, Mohammad Aminul Islam, Timothy R Julian, Amy J Pickering
Drinking water chlorination has minor effects on the intestinal flora and resistomes of Bangladeshi children. Nature microbiology 7 (5) (2022)
Allison J Lopatkin, Sarah C Bening, Abigail L Manson, Jonathan M Stokes, Michael A Kohanski, Ahmed H Badran, Ashlee M Earl, Nicole J Cheney, Jason H Yang, James J Collins
Clinically relevant mutations in core metabolic genes confer antibiotic resistance. Science (New York, N.Y.) 371 (6531) (2021)
Ryan A Bronson, Chhavi Gupta, Abigail L Manson, Jan A Nguyen, Asli Bahadirli-Talbott, Nicole M Parrish, Ashlee M Earl, Keira A Cohen
Global phylogenomic analyses of Mycobacterium abscessus provide context for non cystic fibrosis infections and the evolution of antibiotic resistance. Nature communications 12 (1) (2021)
Peijun Ma, Lorrie L He, Alejandro Pironti, Hannah H Laibinis, Christoph M Ernst, Abigail L Manson, Roby P Bhattacharyya, Ashlee M Earl, Jonathan Livny, Deborah T Hung
Genetic determinants facilitating the evolution of resistance to carbapenem antibiotics. eLife 10 (2021)
Christoph M Ernst, Julian R Braxton, Carlos A Rodriguez-Osorio, Anna P Zagieboylo, Li Li, Alejandro Pironti, Abigail L Manson, Anil V Nair, Maura Benson, Kaelyn Cummins, Anne E Clatworthy, Ashlee M Earl, Lisa A Cosimi, Deborah T Hung
Adaptive evolution of virulence and persistence in carbapenem-resistant Klebsiella pneumoniae. Nature medicine 26 (5) (2020)
Gregory P Donaldson, Wen-Chi Chou, Abigail L Manson, Peter Rogov, Thomas Abeel, James Bochicchio, Dawn Ciulla, Alexandre Melnikov, Peter B Ernst, Hiutung Chu, Georgia Giannoukos, Ashlee M Earl, Sarkis K Mazmanian
Spatially distinct physiology of Bacteroides fragilis within the proximal colon of gnotobiotic mice. Nature microbiology 5 (5) (2020)
Daria Van Tyne, Abigail L Manson, Mark M Huycke, John Karanicolas, Ashlee M Earl, Michael S Gilmore
Impact of antibiotic treatment and host innate immune pressure on enterococcal adaptation in the human bloodstream. Science translational medicine 11 (487) (2020)
Keira A Cohen, Abigail L Manson, Christopher A Desjardins, Thomas Abeel, Ashlee M Earl
Deciphering drug resistance in Mycobacterium tuberculosis using whole-genome sequencing: progress, promise, and challenges. Genome medicine 11 (1) (2019)
Gregory P Donaldson, Mark S Ladinsky, Kristie B Yu, Jon G Sanders, B B Yoo, Wen-Chi Chou, Margaret E Conner, Ashlee M Earl, Rob Knight, Pamela J Bjorkman, Sarkis K Mazmanian
Gut microbiota utilize immunoglobulin A for mucosal colonization. Science (New York, N.Y.) 360 (6390) (2018)
Henry Louis Schreiber, Matt S Conover, Wen-Chi Chou, Michael E Hibbing, Abigail L Manson, Karen W Dodson, Thomas J Hannan, Pacita L Roberts, Ann E Stapleton, Thomas M Hooton, Jonathan Livny, Ashlee M Earl, Scott J Hultgren
Bacterial virulence phenotypes of Escherichia coli and host susceptibility determine risk for urinary tract infections. Science translational medicine 9 (382) (2017)