A practical guide to methods controlling false discoveries in computational biology

by Duvallet, Claire, Alm, Eric J
Published 2020

Aerodigestive sampling reveals altered microbial exchange between lung, oropharyngeal, and gastric microbiomes in children with impaired swallow function

by Duvallet, Claire, Alm, Eric J.
Published 2020

dbOTU3: A new implementation of distribution-based OTU calling

by Olesen, Scott Wilder, Duvallet, Claire, Alm, Eric J
Published 2018

Correcting for batch effects in case-control microbiome studies

by Gibbons, Sean Michael, Duvallet, Claire, Alm, Eric J
Published 2018

Framework for rational donor selection in fecal microbiota transplant clinical trials

by Duvallet, Claire, Panchal, Pratik, Budree, Shrish, Osman, Majdi, Alm, Eric J
Published 2020

Meta-analysis of gut microbiome studies identifies disease-specific and shared responses

by Irizarry, Rafael A., Duvallet, Claire, Gibbons, Sean Michael, Gurry, Thomas Jerome, Alm, Eric J
Published 2018

Rapid Assessment of Opioid Exposure and Treatment in Cities Through Robotic Collection and Chemical Analysis of Wastewater

by Endo, Norkio, Ghaeli, Newsha, Duvallet, Claire, Foppe, Katelyn, Erickson, Timothy B, Matus, Mariana, Chai, Peter R.
Published 2020

"Waste Not, Want Not" - Leveraging Sewer Systems and Wastewater-Based Epidemiology for Drug Use Trends and Pharmaceutical Monitoring

by Erickson, Timothy B., Endo, Noriko, Duvallet, Claire, Ghaeli, Newsha, Hess, Kaitlyn, Alm, Eric J, Matus, Mariana, Chai, Peter R.
Published 2021

Predictability and persistence of prebiotic dietary supplementation in a healthy human cohort

by Ananthakrishnan, Ashwin, Kassam, Zain, Gurry, Thomas Jerome, Gibbons, Sean Michael, Nguyen, Le Thanh Tu, Kearney, Sean M, Jiang, Xiaofang, Duvallet, Claire, Alm, Eric J
Published 2019

SARS-CoV-2 Titers in Wastewater Are Higher than Expected from Clinically Confirmed Cases

by Wu, Fuqing, Zhang, Jianbo, Xiao, Amy, Gu, Xiaoqiong, Lee, Wei Lin, Armas, Federica, Kauffman, Kathryn, Hanage, William, Matus, Mariana, Ghaeli, Newsha, Endo, Noriko, Duvallet, Claire, Poyet, Mathilde, Moniz, Katya H, Washburne, Alex D., Erickson, Timothy B., Chai, Peter R., Thompson, Janelle, Alm, Eric J
Published 2020

Quantitative SARS-CoV-2 Alpha Variant B.1.1.7 Tracking in Wastewater by Allele-Specific RT-qPCR

by Lee, Wei Lin, Imakaev, Maxim, Armas, Federica, McElroy, Kyle A., Gu, Xiaoqiong, Duvallet, Claire, Chandra, Franciscus, Chen, Hongjie, Leifels, Mats, Mendola, Samuel, Floyd-O'Sullivan, Róisín, Powell, Morgan M., Wilson, Shane T., Berge, Karl L. J., Lim, Claire Y. J., Wu, Fuqing, Xiao, Amy, Moniz, Katya H, Ghaeli, Newsha, Matus, Mariana, Thompson, Janelle, Alm, Eric J.
Published 2021

Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2

by Bolyen, Evan, Rideout, Jai Ram, Dillon, Matthew R., Bokulich, Nicholas A., Abnet, Christian C., Al-Ghalith, Gabriel A., Alexander, Harriet, Alm, Eric J, Arumugam, Manimozhiyan, Asnicar, Francesco, Bai, Yang, Bisanz, Jordan E., Bittinger, Kyle, Brejnrod, Asker, Brislawn, Colin J., Brown, C. Titus, Callahan, Benjamin J., Caraballo-Rodríguez, Andrés Mauricio, Chase, John, Cope, Emily K., Da Silva, Ricardo, Diener, Christian, Dorrestein, Pieter C., Douglas, Gavin M., Durall, Daniel M., Duvallet, Claire, Edwardson, Christian F., Ernst, Madeleine, Estaki, Mehrbod, Fouquier, Jennifer, Gauglitz, Julia M., Gibbons, Sean M., Gibson, Deanna L., Gonzalez, Antonio, Gorlick, Kestrel, Guo, Jiarong, Hillmann, Benjamin, Holmes, Susan, Holste, Hannes, Huttenhower, Curtis, Huttley, Gavin A., Janssen, Stefan, Jarmusch, Alan K., Jiang, Lingjing, Kaehler, Benjamin D., Kang, Kyo Bin, Keefe, Christopher R., Keim, Paul, Kelley, Scott T., Knights, Dan, Koester, Irina, Kosciolek, Tomasz, Kreps, Jorden, Langille, Morgan G. I., Lee, Joslynn, Ley, Ruth, Liu, Yong-Xin, Loftfield, Erikka, Lozupone, Catherine, Maher, Massoud, Marotz, Clarisse, Martin, Bryan D., McDonald, Daniel, McIver, Lauren J., Melnik, Alexey V., Metcalf, Jessica L., Morgan, Sydney C., Morton, Jamie T., Naimey, Ahmad Turan, Navas-Molina, Jose A., Nothias, Louis Felix, Orchanian, Stephanie B., Pearson, Talima, Peoples, Samuel L., Petras, Daniel, Preuss, Mary Lai, Pruesse, Elmar, Rasmussen, Lasse Buur, Rivers, Adam, Robeson, Michael S., Rosenthal, Patrick, Segata, Nicola, Shaffer, Michael, Shiffer, Arron, Sinha, Rashmi, Song, Se Jin, Spear, John R., Swafford, Austin D., Thompson, Luke R., Torres, Pedro J., Trinh, Pauline, Tripathi, Anupriya, Turnbaugh, Peter J., Ul-Hasan, Sabah, van der Hooft, Justin J. J., Vargas, Fernando, Vázquez-Baeza, Yoshiki, Vogtmann, Emily, von Hippel, Max, Walters, William, Wan, Yunhu, Wang, Mingxun, Warren, Jonathan, Weber, Kyle C., Williamson, Charles H. D., Willis, Amy D., Xu, Zhenjiang Zech, Zaneveld, Jesse R., Zhang, Yilong, Zhu, Qiyun, Knight, Rob, Caporaso, J. Gregory
Published 2020