SHI7 Is a Self-Learning Pipeline for Multipurpose Short-Read DNA Quality Control

por Gabriel A. Al-Ghalith, Benjamin Hillmann, Kaiwei Ang, Robin Shields-Cutler, Dan Knights
Publicado 2018

Development of the Human Mycobiome over the First Month of Life and across Body Sites

por Tonya L. Ward, Maria Gloria Dominguez-Bello, Tim Heisel, Gabriel Al-Ghalith, Dan Knights, Cheryl A. Gale
Publicado 2018

High-Fat Diet Changes Fungal Microbiomes and Interkingdom Relationships in the Murine Gut

por Timothy Heisel, Emmanuel Montassier, Abigail Johnson, Gabriel Al-Ghalith, Yi-Wei Lin, Li-Na Wei, Dan Knights, Cheryl A. Gale
Publicado 2017

Evaluating the Information Content of Shallow Shotgun Metagenomics

por Benjamin Hillmann, Gabriel A. Al-Ghalith, Robin R. Shields-Cutler, Qiyun Zhu, Daryl M. Gohl, Kenneth B. Beckman, Rob Knight, Dan Knights
Publicado 2018

Sex Bias in Gut Microbiome Transmission in Newly Paired Marmosets (<named-content content-type="genus-species">Callithrix jacchus</named-content>)

por Lifeng Zhu, Jonathan B. Clayton, Mallory J. Suhr Van Haute, Qinnan Yang, Haley R. Hassenstab, Aaryn C. Mustoe, Dan Knights, Andrew K. Benson, Jeffrey A. French
Publicado 2020

Antibiotics and Host-Tailored Probiotics Similarly Modulate Effects on the Developing Avian Microbiome, Mycobiome, and Host Gene Expression

por Tonya L. Ward, Bonnie P. Weber, Kristelle M. Mendoza, Jessica L. Danzeisen, Katharine Llop, Kevin Lang, Jonathan B. Clayton, Elicia Grace, Jeanine Brannon, Igor Radovic, Mai Beauclaire, Timothy J. Heisel, Dan Knights, Carol Cardona, Mike Kogut, Casey Johnson, Sally L. Noll, Ryan Arsenault, Kent M. Reed, Timothy J. Johnson
Publicado 2019

Small intestinal microbial dysbiosis underlies symptoms associated with functional gastrointestinal disorders

por George B. Saffouri, Robin R. Shields-Cutler, Jun Chen, Yi Yang, Heather R. Lekatz, Vanessa L. Hale, Janice M. Cho, Eric J. Battaglioli, Yogesh Bhattarai, Kevin J. Thompson, Krishna K. Kalari, Gaurav Behera, Jonathan C. Berry, Stephanie A. Peters, Robin Patel, Audrey N. Schuetz, Jeremiah J. Faith, Michael Camilleri, Justin L. Sonnenburg, Gianrico Farrugia, Jonathan R. Swann, Madhusudan Grover, Dan Knights, Purna C. Kashyap
Publicado 2019

Phylogenomics of 10,575 genomes reveals evolutionary proximity between domains Bacteria and Archaea

por Qiyun Zhu, Uyen Mai, Wayne Pfeiffer, Stefan Janssen, Francesco Asnicar, Jon G. Sanders, Pedro Belda-Ferre, Gabriel A. Al-Ghalith, Evguenia Kopylova, Daniel McDonald, Tomasz Kosciolek, John B. Yin, Shi Huang, Nimaichand Salam, Jian-Yu Jiao, Zijun Wu, Zhenjiang Z. Xu, Kalen Cantrell, Yimeng Yang, Erfan Sayyari, Maryam Rabiee, James T. Morton, Sheila Podell, Dan Knights, Wen-Jun Li, Curtis Huttenhower, Nicola Segata, Larry Smarr, Siavash Mirarab, Rob Knight
Publicado 2019

American Gut: an Open Platform for Citizen Science Microbiome Research

por 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, Rob Knight
Publicado 2018