A Novel Sparse Compositional Technique Reveals Microbial Perturbations

by Cameron Martino, James T. Morton, Clarisse A. Marotz, Luke R. Thompson, Anupriya Tripathi, Rob Knight, Karsten Zengler
Published 2019-02-01

Influence of Intermittent Hypoxia/Hypercapnia on Atherosclerosis, Gut Microbiome, and Metabolome

by Jin Xue, Celeste Allaband, Celeste Allaband, Celeste Allaband, Dan Zhou, Orit Poulsen, Cameron Martino, Cameron Martino, Cameron Martino, Lingjing Jiang, Anupriya Tripathi, Anupriya Tripathi, Anupriya Tripathi, Emmanuel Elijah, Emmanuel Elijah, Pieter C. Dorrestein, Pieter C. Dorrestein, Pieter C. Dorrestein, Rob Knight, Rob Knight, Rob Knight, Amir Zarrinpar, Amir Zarrinpar, Amir Zarrinpar, Amir Zarrinpar, Gabriel G. Haddad, Gabriel G. Haddad, Gabriel G. Haddad
Published 2021-04-01

Intermittent Hypoxia and Hypercapnia Alter Diurnal Rhythms of Luminal Gut Microbiome and Metabolome

by Celeste Allaband, Amulya Lingaraju, Cameron Martino, Baylee Russell, Anupriya Tripathi, Orit Poulsen, Ana Carolina Dantas Machado, Dan Zhou, Jin Xue, Emmanuel Elijah, Atul Malhotra, Pieter C. Dorrestein, Rob Knight, Gabriel G. Haddad, Amir Zarrinpar
Published 2021-06-01

Air pollution exposure is associated with the gut microbiome as revealed by shotgun metagenomic sequencing

by Farnaz Fouladi, Maximilian J. Bailey, William B. Patterson, Michael Sioda, Ivory C. Blakley, Anthony A. Fodor, Roshonda B. Jones, Zhanghua Chen, Jeniffer S. Kim, Frederick Lurmann, Cameron Martino, Rob Knight, Frank D. Gilliland, Tanya L. Alderete
Published 2020-05-01

Consumption of Fermented Foods Is Associated with Systematic Differences in the Gut Microbiome and Metabolome

by Bryn C. Taylor, Franck Lejzerowicz, Marion Poirel, Justin P. Shaffer, Lingjing Jiang, Alexander Aksenov, Nicole Litwin, Gregory Humphrey, Cameron Martino, Sandrine Miller-Montgomery, Pieter C. Dorrestein, Patrick Veiga, Se Jin Song, Daniel McDonald, Muriel Derrien, Rob Knight
Published 2020-03-01

Assessment of the microbiome during bacteriophage therapy in combination with systemic antibiotics to treat a case of staphylococcal device infection

by Andre Mu, Daniel McDonald, Alan K. Jarmusch, Cameron Martino, Caitriona Brennan, Mackenzie Bryant, Gregory C. Humphrey, Julia Toronczak, Tara Schwartz, Dominic Nguyen, Gail Ackermann, Anthony D’Onofrio, Steffanie A. Strathdee, Robert T. Schooley, Pieter C. Dorrestein, Rob Knight, Saima Aslam
Published 2021-04-01

Optimizing sequencing protocols for leaderboard metagenomics by combining long and short reads

by Jon G. Sanders, Sergey Nurk, Rodolfo A. Salido, Jeremiah Minich, Zhenjiang Z. Xu, Qiyun Zhu, Cameron Martino, Marcus Fedarko, Timothy D. Arthur, Feng Chen, Brigid S. Boland, Greg C. Humphrey, Caitriona Brennan, Karenina Sanders, James Gaffney, Kristen Jepsen, Mahdieh Khosroheidari, Cliff Green, Marlon Liyanage, Jason W. Dang, Vanessa V. Phelan, Robert A. Quinn, Anton Bankevich, John T. Chang, Tariq M. Rana, Douglas J. Conrad, William J. Sandborn, Larry Smarr, Pieter C. Dorrestein, Pavel A. Pevzner, Rob Knight
Published 2019-10-01

EMPress Enables Tree-Guided, Interactive, and Exploratory Analyses of Multi-omic Data Sets

by Kalen Cantrell, Marcus W. Fedarko, Gibraan Rahman, Daniel McDonald, Yimeng Yang, Thant Zaw, Antonio Gonzalez, Stefan Janssen, Mehrbod Estaki, Niina Haiminen, Kristen L. Beck, Qiyun Zhu, Erfan Sayyari, James T. Morton, George Armstrong, Anupriya Tripathi, Julia M. Gauglitz, Clarisse Marotz, Nathaniel L. Matteson, Cameron Martino, Jon G. Sanders, Anna Paola Carrieri, Se Jin Song, Austin D. Swafford, Pieter C. Dorrestein, Kristian G. Andersen, Laxmi Parida, Ho-Cheol Kim, Yoshiki Vázquez-Baeza, Rob Knight
Published 2021-04-01

SARS-CoV-2 detection status associates with bacterial community composition in patients and the hospital environment

by Clarisse Marotz, Pedro Belda-Ferre, Farhana Ali, Promi Das, Shi Huang, Kalen Cantrell, Lingjing Jiang, Cameron Martino, Rachel E. Diner, Gibraan Rahman, Daniel McDonald, George Armstrong, Sho Kodera, Sonya Donato, Gertrude Ecklu-Mensah, Neil Gottel, Mariana C. Salas Garcia, Leslie Y. Chiang, Rodolfo A. Salido, Justin P. Shaffer, Mac Kenzie Bryant, Karenina Sanders, Greg Humphrey, Gail Ackermann, Niina Haiminen, Kristen L. Beck, Ho-Cheol Kim, Anna Paola Carrieri, Laxmi Parida, Yoshiki Vázquez-Baeza, Francesca J. Torriani, Rob Knight, Jack Gilbert, Daniel A. Sweeney, Sarah M. Allard
Published 2021-06-01