QuantTB – a method to classify mixed Mycobacterium tuberculosis infections within whole genome sequencing data

por Anyansi, Christine, Keo, Arlin, Walker, Bruce J., Straub, Timothy J., Manson, Abigail L., Earl, Ashlee M., Abeel, Thomas
Publicado 2020

1202. Multimodal Sequencing of a Clonal Case Cluster of Carbapenem-Resistant Citrobacter Reveals Unexpectedly Rapid Dynamics of KPC3-Containing Plasmids

por Bhattacharyya, Roby, Pironti, Alejandro, Walker, Bruce J, Manson, Abigail, Pierce, Virginia, Ferraro, Mary Jane, Shenoy, Erica, Hooper, David C, Earl, Ashlee
Publicado 2018

744. Changing Molecular Epidemiology of Staphylococcus aureus Bacteremia in a Metropolitan Area in Canada

por Pham, Thi Mui, Smith, Joshua T, Mortimer, Tatum D, Gregson, Dan, Wacker, Soren, Walker, Bruce J, Earl, Ashlee, Lewis, Ian, Grad, Yonatan H
Publicado 2023

Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement

por Walker, Bruce J., Abeel, Thomas, Shea, Terrance, Priest, Margaret, Abouelliel, Amr, Sakthikumar, Sharadha, Cuomo, Christina A., Zeng, Qiandong, Wortman, Jennifer, Young, Sarah K., Earl, Ashlee M.
Publicado 2014

StrainGE: a toolkit to track and characterize low-abundance strains in complex microbial communities

por van Dijk, Lucas R., Walker, Bruce J., Straub, Timothy J., Worby, Colin J., Grote, Alexandra, Schreiber, Henry L., Anyansi, Christine, Pickering, Amy J., Hultgren, Scott J., Manson, Abigail L., Abeel, Thomas, Earl, Ashlee M.
Publicado 2022

Finished bacterial genomes from shotgun sequence data

por Ribeiro, Filipe J., Przybylski, Dariusz, Yin, Shuangye, Sharpe, Ted, Gnerre, Sante, Abouelleil, Amr, Berlin, Aaron M., Montmayeur, Anna, Shea, Terrance P., Walker, Bruce J., Young, Sarah K., Russ, Carsten, Nusbaum, Chad, MacCallum, Iain, Jaffe, David B.
Publicado 2012

Limited effects of long-term daily cranberry consumption on the gut microbiome in a placebo-controlled study of women with recurrent urinary tract infections

por Straub, Timothy J., Chou, Wen-Chi, Manson, Abigail L., Schreiber, Henry L., Walker, Bruce J., Desjardins, Christopher A., Chapman, Sinéad B., Kaspar, Kerrie L., Kahsai, Orsalem J., Traylor, Elizabeth, Dodson, Karen W., Hullar, Meredith A. J., Hultgren, Scott J., Khoo, Christina, Earl, Ashlee M.
Publicado 2021

Genomic and functional analyses of Mycobacterium tuberculosis strains implicate ald in D-cycloserine resistance

por Desjardins, Christopher A., Cohen, Keira A., Munsamy, Vanisha, Abeel, Thomas, Maharaj, Kashmeel, Walker, Bruce J., Shea, Terrance P., Almeida, Deepak V., Manson, Abigail L., Salazar, Alex, Padayatchi, Nesri, O’Donnell, Max R., Mlisana, Koleka P., Wortman, Jennifer, Birren, Bruce W., Grosset, Jacques, Earl, Ashlee M., Pym, Alexander S.
Publicado 2016

Longitudinal multi-omics analyses link gut microbiome dysbiosis with recurrent urinary tract infections in women

por Worby, Colin J., Schreiber, Henry L., Straub, Timothy J., van Dijk, Lucas R., Bronson, Ryan A., Olson, Benjamin S., Pinkner, Jerome S., Obernuefemann, Chloe L. P., Muñoz, Vanessa L., Paharik, Alexandra E., Azimzadeh, Philippe N., Walker, Bruce J., Desjardins, Christopher A., Chou, Wen-Chi, Bergeron, Karla, Chapman, Sinéad B., Klim, Aleksandra, Manson, Abigail L., Hannan, Thomas J., Hooton, Thomas M., Kau, Andrew L., Lai, H. Henry, Dodson, Karen W., Hultgren, Scott J., Earl, Ashlee M.
Publicado 2022

Inter-species geographic signatures for tracing horizontal gene transfer and long-term persistence of carbapenem resistance

por Salamzade, Rauf, Manson, Abigail L., Walker, Bruce J., Brennan-Krohn, Thea, Worby, Colin J., Ma, Peijun, He, Lorrie L., Shea, Terrance P., Qu, James, Chapman, Sinéad B., Howe, Whitney, Young, Sarah K., Wurster, Jenna I., Delaney, Mary L., Kanjilal, Sanjat, Onderdonk, Andrew B., Bittencourt, Cassiana E., Gussin, Gabrielle M., Kim, Diane, Peterson, Ellena M., Ferraro, Mary Jane, Hooper, David C., Shenoy, Erica S., Cuomo, Christina A., Cosimi, Lisa A., Huang, Susan S., Kirby, James E., Pierce, Virginia M., Bhattacharyya, Roby P., Earl, Ashlee M.
Publicado 2022

Evolution of Extensively Drug-Resistant Tuberculosis over Four Decades: Whole Genome Sequencing and Dating Analysis of Mycobacterium tuberculosis Isolates from KwaZulu-Natal

por Cohen, Keira A., Abeel, Thomas, Manson McGuire, Abigail, Desjardins, Christopher A., Munsamy, Vanisha, Shea, Terrance P., Walker, Bruce J., Bantubani, Nonkqubela, Almeida, Deepak V., Alvarado, Lucia, Chapman, Sinéad B., Mvelase, Nomonde R., Duffy, Eamon Y., Fitzgerald, Michael G., Govender, Pamla, Gujja, Sharvari, Hamilton, Susanna, Howarth, Clinton, Larimer, Jeffrey D., Maharaj, Kashmeel, Pearson, Matthew D., Priest, Margaret E., Zeng, Qiandong, Padayatchi, Nesri, Grosset, Jacques, Young, Sarah K., Wortman, Jennifer, Mlisana, Koleka P., O'Donnell, Max R., Birren, Bruce W., Bishai, William R., Pym, Alexander S., Earl, Ashlee M.
Publicado 2015