V-Phaser 2: variant inference for viral populations

por Yang, Xiao, Charlebois, Patrick, Macalalad, Alex, Henn, Matthew R, Zody, Michael C
Publicado 2013

Tracking the Evolution of Dengue Virus Strains D2S10 and D2S20 by 454 Pyrosequencing

por Makhluf, Huda, Buck, Michael D., King, Kevin, Perry, Stuart T., Henn, Matthew R., Shresta, Sujan
Publicado 2013

Whole Genome Amplification and De novo Assembly of Single Bacterial Cells

por Rodrigue, Sébastien, Malmstrom, Rex R., Berlin, Aaron M., Birren, Bruce W., Henn, Matthew R., Chisholm, Sallie W.
Publicado 2009

Endurance, Refuge, and Reemergence of Dengue Virus Type 2, Puerto Rico, 1986–2007

por McElroy, Kate L., Santiago, Gilberto A., Lennon, Niall J., Birren, Bruce W., Henn, Matthew R., Muñoz-Jordán, Jorge L.
Publicado 2011

Draft genome sequence of the coccolithovirus EhV-84

por Nissimov, Jozef I., Worthy, Charlotte A., Rooks, Paul, Napier, Johnathan A., Kimmance, Susan A., Henn, Matthew R, Ogata, Hiroyuki, Allen, Michael J.
Publicado 2011

De novo assembly of highly diverse viral populations

por Yang, Xiao, Charlebois, Patrick, Gnerre, Sante, Coole, Matthew G, Lennon, Niall J, Levin, Joshua Z, Qu, James, Ryan, Elizabeth M, Zody, Michael C, Henn, Matthew R
Publicado 2012

Fecal microbiota transplantation for the improvement of metabolism in obesity: The FMT-TRIM double-blind placebo-controlled pilot trial

por Yu, Elaine W., Gao, Liu, Stastka, Petr, Cheney, Michael C., Mahabamunuge, Jasmin, Torres Soto, Mariam, Ford, Christopher B., Bryant, Jessica A., Henn, Matthew R., Hohmann, Elizabeth L.
Publicado 2020

OR26-06 Fecal Microbiota Transplantation Trial for the Improvement of Metabolism (FMT-TRIM): A Randomized Double-Blind Placebo-Controlled Pilot Trial

por Yu, Elaine Wei-Yin, Liu, Gao, Stastka, Petr, Cheney, Michael Chadwick, Mahabamunuge, Jasmin, Soto, Mariam Torres, Ford, Christopher B, Bryant, Jessica A, Henn, Matthew R, Hohmann, Elizabeth L
Publicado 2020

Next-generation sequencing for HLA typing of class I loci

por Erlich, Rachel L, Jia, Xiaoming, Anderson, Scott, Banks, Eric, Gao, Xiaojiang, Carrington, Mary, Gupta, Namrata, DePristo, Mark A, Henn, Matthew R, Lennon, Niall J, de Bakker, Paul IW
Publicado 2011

Endemic Dengue Associated with the Co-Circulation of Multiple Viral Lineages and Localized Density-Dependent Transmission

por Raghwani, Jayna, Rambaut, Andrew, Holmes, Edward C., Hang, Vu Ty, Hien, Tran Tinh, Farrar, Jeremy, Wills, Bridget, Lennon, Niall J., Birren, Bruce W., Henn, Matthew R., Simmons, Cameron P.
Publicado 2011

Biofilms harbour Clostridioides difficile, serving as a reservoir for recurrent infection

por Normington, Charmaine, Moura, Ines B., Bryant, Jessica A., Ewin, Duncan J., Clark, Emma V., Kettle, Morgan J., Harris, Hannah C., Spittal, William, Davis, Georgina, Henn, Matthew R., Ford, Christopher B., Wilcox, Mark H., Buckley, Anthony M.
Publicado 2021

Complete viral RNA genome sequencing of ultra-low copy samples by sequence-independent amplification

por Malboeuf, Christine M., Yang, Xiao, Charlebois, Patrick, Qu, James, Berlin, Aaron M., Casali, Monica, Pesko, Kendra N., Boutwell, Christian L., DeVincenzo, John P., Ebel, Gregory D., Allen, Todd M., Zody, Michael C., Henn, Matthew R., Levin, Joshua Z.
Publicado 2013

Analysis of High-Throughput Sequencing and Annotation Strategies for Phage Genomes

por Henn, Matthew R., Sullivan, Matthew B., Stange-Thomann, Nicole, Osburne, Marcia S., Berlin, Aaron M., Kelly, Libusha, Yandava, Chandri, Kodira, Chinnappa, Zeng, Qiandong, Weiand, Michael, Sparrow, Todd, Saif, Sakina, Giannoukos, Georgia, Young, Sarah K., Nusbaum, Chad, Birren, Bruce W., Chisholm, Sallie W.
Publicado 2010

Emergence of the Asian 1 Genotype of Dengue Virus Serotype 2 in Viet Nam: In Vivo Fitness Advantage and Lineage Replacement in South-East Asia

por Ty Hang, Vu Thi, Holmes, Edward C., Veasna, Duong, Quy, Nguyen Thien, Tinh Hien, Tran, Quail, Michael, Churcher, Carol, Parkhill, Julian, Cardosa, Jane, Farrar, Jeremy, Wills, Bridget, Lennon, Niall J., Birren, Bruce W., Buchy, Philippe, Henn, Matthew R., Simmons, Cameron P.
Publicado 2010

Genomic analysis of oceanic cyanobacterial myoviruses compared with T4-like myoviruses from diverse hosts and environments

por Sullivan, Matthew B, Huang, Katherine H, Ignacio-Espinoza, Julio C, Berlin, Aaron M, Kelly, Libusha, Weigele, Peter R, DeFrancesco, Alicia S, Kern, Suzanne E, Thompson, Luke R, Young, Sarah, Yandava, Chandri, Fu, Ross, Krastins, Bryan, Chase, Michael, Sarracino, David, Osburne, Marcia S, Henn, Matthew R, Chisholm, Sallie W
Publicado 2010

Highly Sensitive and Specific Detection of Rare Variants in Mixed Viral Populations from Massively Parallel Sequence Data

por Macalalad, Alexander R., Zody, Michael C., Charlebois, Patrick, Lennon, Niall J., Newman, Ruchi M., Malboeuf, Christine M., Ryan, Elizabeth M., Boutwell, Christian L., Power, Karen A., Brackney, Doug E., Pesko, Kendra N., Levin, Joshua Z., Ebel, Gregory D., Allen, Todd M., Birren, Bruce W., Henn, Matthew R.
Publicado 2012

SER-109: An Oral Investigational Microbiome Therapeutic for Patients with Recurrent Clostridioides difficile Infection (rCDI)

por Khanna, Sahil, Sims, Matthew, Louie, Thomas J., Fischer, Monika, LaPlante, Kerry, Allegretti, Jessica, Hasson, Brooke R., Fonte, Allyson T., McChalicher, Christopher, Ege, David S., Bryant, Jessica A., Straub, Timothy J., Ford, Christopher B., Henn, Matthew R., Wang, Elaine E. L., von Moltke, Lisa, Wilcox, Mark H.
Publicado 2022

Sensitive population profiling and genome assembly of HIV and Flaviviruses using ultra-deep sequencing technologies

por Henn, Matthew R, Lennon, Niall J, Newman, Ruchi, Charlebois, Patrick, Boutwell, Christian, OhAinle, Molly, Berlin, Aaron, Ryan, Elizabeth, Malboeuf, Christine, Macalalad, Alex, Casali, Monica, Erlich, Rachel, Bigelow, Henry, Green, Lisa, Gnerre, Sante, Young, Sarah, Levin, Joshua, Nusbaum, Chad, Walker, Bruce D, Diamond, Michael S, Kramer, Laura D, Ebel, Gregory D, Harris, Eva, Allen, Todd M, Birren, Bruce W
Publicado 2010

A Phase 1b Safety Study of SER-287, a Spore-Based Microbiome Therapeutic, for Active Mild to Moderate Ulcerative Colitis

por Henn, Matthew R., O’Brien, Edward J., Diao, Liyang, Feagan, Brian G., Sandborn, William J., Huttenhower, Curtis, Wortman, Jennifer R., McGovern, Barbara H., Wang-Weigand, Sherry, Lichter, David I., Chafee, Meghan, Ford, Christopher B., Bernardo, Patricia, Zhao, Peng, Simmons, Sheri, Tomlinson, Amelia D., Cook, David N., Pomerantz, Roger J., Misra, Bharat K., Auninš, John G., Trucksis, Michele
Publicado 2021

SER-109, an Investigational Microbiome Drug to Reduce Recurrence After Clostridioides difficile Infection: Lessons Learned From a Phase 2 Trial

por McGovern, Barbara H, Ford, Christopher B, Henn, Matthew R, Pardi, Darrell S, Khanna, Sahil, Hohmann, Elizabeth L, O’Brien, Edward J, Desjardins, Christopher A, Bernardo, Patricia, Wortman, Jennifer R, Lombardo, Mary-Jane, Litcofsky, Kevin D, Winkler, Jonathan A, McChalicher, Christopher W J, Li, Sunny S, Tomlinson, Amelia D, Nandakumar, Madhumitha, Cook, David N, Pomerantz, Roger J, Auninš, John G, Trucksis, Michele
Publicado 2020