Development of a Dual-Index Sequencing Strategy and Curation Pipeline for Analyzing Amplicon Sequence Data on the MiSeq Illumina Sequencing Platform von KOZICH, James J, WESTCOTT, Sarah L, BAXTER, Nielson T, HIGHLANDER, Sarah K, SCHLOSS, Patrick D

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Gut Microbiome-Based Metagenomic Signature for Non-invasive Detection of Advanced Fibrosis in Human Nonalcoholic Fatty Liver Disease von Loomba, Rohit, Seguritan, Victor, Li, Weizhong, Long, Tao, Klitgord, Niels, Bhatt, Archana, Dulai, Parambir Singh, Caussy, Cyrielle, Bettencourt, Richele, Highlander, Sarah K., Jones, Marcus B., Sirlin, Claude B., Schnabl, Bernd, Brinkac, Lauren, Schork, Nicholas, Chen, Chi-Hua, Brenner, David A., Biggs, William, Yooseph, Shibu, Venter, J. Craig, Nelson, Karen E.

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Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons von Haas, Brian J, Gevers, Dirk, Earl, Ashlee M, Feldgarden, Mike, Ward, Doyle V, Giannoukos, Georgia, Ciulla, Dawn, Tabbaa, Diana, Highlander, Sarah K, Sodergren, Erica, Methé, Barbara, DeSantis, Todd Z, Petrosino, Joseph F, Knight, Rob, Birren, Bruce W

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Nivolumab plus ipilimumab with or without live bacterial supplementation in metastatic renal cell carcinoma: a randomized phase 1 trial von Dizman, Nazli, Meza, Luis, Bergerot, Paulo, Alcantara, Marice, Dorff, Tanya, Lyou, Yung, Frankel, Paul, Cui, Yujie, Mira, Valerie, Llamas, Marian, Hsu, Joann, Zengin, Zeynep, Salgia, Nicholas, Salgia, Sabrina, Malhotra, Jasnoor, Chawla, Neal, Chehrazi-Raffle, Alex, Muddasani, Ramya, Gillece, John, Reining, Lauren, Trent, Jeff, Takahashi, Motomichi, Oka, Kentaro, Higashi, Seiya, Kortylewski, Marcin, Highlander, Sarah K., Pal, Sumanta K.

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Host Genetic Control of the Oral Microbiome in Health and Disease von Gomez, Andres, Espinoza, Josh L., Harkins, Derek M., Leong, Pamela, Saffery, Richard, Bockmann, Michelle, Torralba, Manolito, Kuelbs, Claire, Kodukula, Rohith, Inman, Jason, Hughes, Toby, Craig, Jeffrey M., Highlander, Sarah K., Jones, Marcus B., Dupont, Chris L., Nelson, Karen E.

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Stool Microbiome Profiling of Patients with Metastatic Renal Cell Carcinoma Receiving Anti–PD-1 Immune Checkpoint Inhibitors von Salgia, Nicholas J., Bergerot, Paulo G., Maia, Manuel Caitano, Dizman, Nazli, Hsu, JoAnn, Gillece, John D., Folkerts, Megan, Reining, Lauren, Trent, Jeffrey, Highlander, Sarah K., Pal, Sumanta K.

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Library preparation methodology can influence genomic and functional predictions in human microbiome research von Jones, Marcus B., Highlander, Sarah K., Anderson, Ericka L., Li, Weizhong, Dayrit, Mark, Klitgord, Niels, Fabani, Martin M., Seguritan, Victor, Green, Jessica, Pride, David T., Yooseph, Shibu, Biggs, William, Nelson, Karen E., Venter, J. Craig

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Gut Microbiome-Based Metagenomic Signature for Non-invasive Detection of Advanced Fibrosis in Human Nonalcoholic Fatty Liver Disease von Loomba, Rohit, Seguritan, Victor, Li, Weizhong, Long, Tao, Klitgord, Niels, Bhatt, Archana, Dulai, Parambir Singh, Caussy, Cyrielle, Bettencourt, Richele, Highlander, Sarah K., Jones, Marcus B., Sirlin, Claude B., Schnabl, Bernd, Brinkac, Lauren, Schork, Nicholas, Chen, Chi-Hua, Brenner, David A., Biggs, William, Yooseph, Shibu, Venter, J. Craig, Nelson, Karen E.

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Sequencing 16S rRNA gene fragments using the PacBio SMRT DNA sequencing system von Schloss, Patrick D, Jenior, Matthew L, Koumpouras, Charles C, Westcott, Sarah L, Highlander, Sarah K

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Multi-faceted metagenomic analysis of spacecraft associated surfaces reveal planetary protection relevant microbial composition von Highlander, Sarah K, Wood, Jason M, Gillece, John D, Folkerts, Megan, Fofanov, Viacheslav, Furstenau, Tara, Singh, Nitin K, Guan, Lisa, Seuylemezian, Arman, Benardini, James N, Engelthaler, David M, Venkateswaran, Kasthuri, Keim, Paul S

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A Phase II Clinical Trial of Pembrolizumab and Enobosarm in Patients with Androgen Receptor‐Positive Metastatic Triple‐Negative Breast Cancer von Yuan, Yuan, Lee, Jin Sun, Yost, Susan E., Frankel, Paul H., Ruel, Christopher, Egelston, Colt A., Guo, Weihua, Gillece, John D., Folkerts, Megan, Reining, Lauren, Highlander, Sarah K., Robinson, Kim, Padam, Simran, Martinez, Norma, Tang, Aileen, Schmolze, Daniel, Waisman, James, Sedrak, Mina, Lee, Peter P., Mortimer, Joanne

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Metagenomic Pyrosequencing and Microbial Identification von Petrosino, Joseph F, Highlander, Sarah, Luna, Ruth Ann, Gibbs, Richard A, Versalovic, James

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Molecular and evolutionary analysis of NEAr-iron Transporter (NEAT) domains von Honsa, Erin S, Maresso, Anthony W, Highlander, Sarah K

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Gastrointestinal microbial populations can distinguish pediatric and adolescent Acute Lymphoblastic Leukemia (ALL) at the time of disease diagnosis von Rajagopala, Seesandra V, Yooseph, Shibu, Harkins, Derek M, Moncera, Kelvin J, Zabokrtsky, Keri B, Torralba, Manolito G, Tovchigrechko, Andrey, Highlander, Sarah K, Pieper, Rembert, Sender, Leonard, Nelson, Karen E

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Comparative genomics of Gardnerella vaginalis strains reveals substantial differences in metabolic and virulence potential von Yeoman, Carl J, Yildirim, Suleyman, Thomas, Susan M, Durkin, A Scott, Torralba, Manolito, Sutton, Granger, Buhay, Christian J, Ding, Yan, Dugan-Rocha, Shannon P, Muzny, Donna M, Qin, Xiang, Gibbs, Richard A, Leigh, Steven R, Stumpf, Rebecca, White, Bryan A, Highlander, Sarah K, Nelson, Karen E, Wilson, Brenda A

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Supragingival Plaque Microbiome Ecology and Functional Potential in the Context of Health and Disease von Espinoza, Josh L, Harkins, Derek M, Torralba, Manolito, Gomez, Andres, Highlander, Sarah K, Jones, Marcus B, Leong, Pamela, Saffery, Richard, Bockmann, Michelle, Kuelbs, Claire, Inman, Jason M, Hughes, Toby, Craig, Jeffrey M, Nelson, Karen E, Dupont, Chris L

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Pathogen webs in collapsing honey bee colonies von Cornman, R Scott, Tarpy, David R, Chen, Yanping, Jeffreys, Lacey, Lopez, Dawn, Pettis, Jeffery S, vanEngelsdorp, Dennis, Evans, Jay D

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Characterization of the human gut microbiome during travelers' diarrhea von Youmans, Bonnie P, Ajami, Nadim J, Jiang, Zhi-Dong, Campbell, Frederick, Wadsworth, W Duncan, Petrosino, Joseph F, DuPont, Herbert L, Highlander, Sarah K

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Deep sequencing of the oral microbiome reveals signatures of periodontal disease von Liu, Bo, Faller, Lina L, Klitgord, Niels, Mazumdar, Varun, Ghodsi, Mohammad, Sommer, Daniel D, Gibbons, Theodore R, Treangen, Todd J, Chang, Yi-Chien, Li, Shan, Stine, O Colin, Hasturk, Hatice, Kasif, Simon, Segrè, Daniel, Pop, Mihai, Amar, Salomon

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Randomized trial assessing impact of probiotic supplementation on gut microbiome and clinical outcome from targeted therapy in metastatic renal cell carcinoma von Dizman, Nazli, Hsu, JoAnn, Bergerot, Paulo G., Gillece, John D., Folkerts, Megan, Reining, Lauren, Trent, Jeffrey, Highlander, Sarah K., Pal, Sumanta K.

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