Discrete False-Discovery Rate Improves Identification of Differentially Abundant Microbes

by Lingjing Jiang, Amnon Amir, James T. Morton, Ruth Heller, Ery Arias-Castro, Rob Knight, Josh D. Neufeld
Published 2017-11-01

Evaluating Metagenomic Prediction of the Metaproteome in a 4.5-Year Study of a Patient with Crohn's Disease

by Robert H. Mills, Yoshiki Vázquez-Baeza, Qiyun Zhu, Lingjing Jiang, James Gaffney, Greg Humphrey, Larry Smarr, Rob Knight, David J. Gonzalez
Published 2019-02-01

Effects of the microalgae Chlamydomonas on gastrointestinal health

by Francis J. Fields, Franck Lejzerowicz, Dave Schroeder, Soo M. Ngoi, Miller Tran, Daniel McDonald, Lingjing Jiang, John T. Chang, Rob Knight, Stephen Mayfield
Published 2020-02-01

Calour: an Interactive, Microbe-Centric Analysis Tool

by Zhenjiang Zech Xu, Amnon Amir, Jon Sanders, Qiyun Zhu, James T. Morton, Molly C. Bletz, Anupriya Tripathi, Shi Huang, Daniel McDonald, Lingjing Jiang, Rob Knight
Published 2019-01-01

Vitamin D metabolites and the gut microbiome in older men

by Robert L. Thomas, Lingjing Jiang, John S. Adams, Zhenjiang Zech Xu, Jian Shen, Stefan Janssen, Gail Ackermann, Dirk Vanderschueren, Steven Pauwels, Rob Knight, Eric S. Orwoll, Deborah M. Kado
Published 2020-11-01

Phylogenetic Placement of Exact Amplicon Sequences Improves Associations with Clinical Information

by Stefan Janssen, Daniel McDonald, Antonio Gonzalez, Jose A. Navas-Molina, Lingjing Jiang, Zhenjiang Zech Xu, Kevin Winker, Deborah M. Kado, Eric Orwoll, Mark Manary, Siavash Mirarab, Rob Knight
Published 2018-04-01

Intermittent Hypoxia and Hypercapnia, a Hallmark of Obstructive Sleep Apnea, Alters the Gut Microbiome and Metabolome

by Anupriya Tripathi, Alexey V. Melnik, Jin Xue, Orit Poulsen, Michael J. Meehan, Gregory Humphrey, Lingjing Jiang, Gail Ackermann, Daniel McDonald, Dan Zhou, Rob Knight, Pieter C. Dorrestein, Gabriel G. Haddad
Published 2018-06-01

High-Resolution Longitudinal Dynamics of the Cystic Fibrosis Sputum Microbiome and Metabolome through Antibiotic Therapy

by Ruma Raghuvanshi, Karla Vasco, Yoshiki Vázquez-Baeza, Lingjing Jiang, James T. Morton, Danxun Li, Antonio Gonzalez, Lindsay DeRight Goldasich, Gregory Humphrey, Gail Ackermann, Austin D. Swafford, Douglas Conrad, Rob Knight, Pieter C. Dorrestein, Robert A. Quinn
Published 2020-06-01

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

Human Skin, Oral, and Gut Microbiomes Predict Chronological Age

by Shi Huang, Niina Haiminen, Anna-Paola Carrieri, Rebecca Hu, Lingjing Jiang, Laxmi Parida, Baylee Russell, Celeste Allaband, Amir Zarrinpar, Yoshiki Vázquez-Baeza, Pedro Belda-Ferre, Hongwei Zhou, Ho-Cheol Kim, Austin D. Swafford, Rob Knight, Zhenjiang Zech Xu
Published 2020-02-01

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

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

American Gut: an Open Platform for Citizen Science Microbiome Research

by Daniel McDonald, Embriette Hyde, Justine W. Debelius, James T. Morton, Antonio Gonzalez, Gail Ackermann, Alexander A. Aksenov, Bahar Behsaz, Caitriona Brennan, Yingfeng Chen, Lindsay DeRight Goldasich, Pieter C. Dorrestein, Robert R. Dunn, Ashkaan K. Fahimipour, James Gaffney, Jack A. Gilbert, Grant Gogul, Jessica L. Green, Philip Hugenholtz, Greg Humphrey, Curtis Huttenhower, Matthew A. Jackson, Stefan Janssen, Dilip V. Jeste, Lingjing Jiang, Scott T. Kelley, Dan Knights, Tomasz Kosciolek, Joshua Ladau, Jeff Leach, Clarisse Marotz, Dmitry Meleshko, Alexey V. Melnik, Jessica L. Metcalf, Hosein Mohimani, Emmanuel Montassier, Jose Navas-Molina, Tanya T. Nguyen, Shyamal Peddada, Pavel Pevzner, Katherine S. Pollard, Gholamali Rahnavard, Adam Robbins-Pianka, Naseer Sangwan, Joshua Shorenstein, Larry Smarr, Se Jin Song, Timothy Spector, Austin D. Swafford, Varykina G. Thackray, Luke R. Thompson, Anupriya Tripathi, Yoshiki Vázquez-Baeza, Alison Vrbanac, Paul Wischmeyer, Elaine Wolfe, Qiyun Zhu, The American Gut Consortium, Rob Knight
Published 2018-05-01