Predictive Metagenomic Analysis of Autoimmune Disease Identifies Robust Autoimmunity and Disease Specific Microbial Signatures by Angelina Volkova, Kelly V. Ruggles, Kelly V. Ruggles

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Gun possession among American youth: a discovery-based approach to understand gun violence. by Kelly V Ruggles, Sonali Rajan

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Data Science in the Research Domain Criteria Era: Relevance of Machine Learning to the Study of Stress Pathology, Recovery, and Resilience by Isaac R. Galatzer-Levy, Kelly V. Ruggles, Zhe Chen

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RIVET: comprehensive graphic user interface for analysis and exploration of genome-wide translatomics data by Amanda W. Ernlund, Robert J. Schneider, Kelly V. Ruggles

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WHAM!: a web-based visualization suite for user-defined analysis of metagenomic shotgun sequencing data by Joseph C. Devlin, Thomas Battaglia, Martin J. Blaser, Kelly V. Ruggles

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Chromatin accessibility and cell cycle progression are controlled by the HDAC-associated Sin3B protein in murine hematopoietic stem cells by Alexander Calderon, Tamara Mestvirishvili, Francesco Boccalatte, Kelly V. Ruggles, Gregory David

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Bacteriophages as potential new mammalian pathogens by George V. Tetz, Kelly V. Ruggles, Hua Zhou, Adriana Heguy, Aristotelis Tsirigos, Victor Tetz

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Changes in the Gut Microbiota of Urban Subjects during an Immersion in the Traditional Diet and Lifestyle of a Rainforest Village by Kelly V. Ruggles, Jincheng Wang, Angelina Volkova, Monica Contreras, Oscar Noya-Alarcon, Orlana Lander, Hortensia Caballero, Maria G. Dominguez-Bello

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Modeling of clinical phenotypes in systemic lupus erythematosus based on the platelet transcriptome and FCGR2a genotype by MacIntosh G. Cornwell, Hanane El Bannoudi, Elliot Luttrell-Williams, Alexis Engel, Tessa J. Barrett, Khrystyna Myndzar, Peter Izmirly, H. Michael Belmont, Robert Clancy, Kelly V. Ruggles, Jill P. Buyon, Jeffrey S. Berger

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Microbial genetic and transcriptional contributions to oxalate degradation by the gut microbiota in health and disease by Menghan Liu, Joseph C Devlin, Jiyuan Hu, Angelina Volkova, Thomas W Battaglia, Melody Ho, John R Asplin, Allyson Byrd, P'ng Loke, Huilin Li, Kelly V Ruggles, Aristotelis Tsirigos, Martin J Blaser, Lama Nazzal

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mRNA COVID-19 vaccine elicits potent adaptive immune response without the acute inflammation of SARS-CoV-2 infection by Ellie N. Ivanova, Jasmine Shwetar, Joseph C. Devlin, Terkild B. Buus, Sophie Gray-Gaillard, Akiko Koide, Amber Cornelius, Marie I. Samanovic, Alberto Herrera, Eleni P. Mimitou, Chenzhen Zhang, Trishala Karmacharya, Ludovic Desvignes, Niels Ødum, Peter Smibert, Robert J. Ulrich, Mark J. Mulligan, Shohei Koide, Kelly V. Ruggles, Ramin S. Herati, Sergei B. Koralov

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Wnt signaling enhances macrophage responses to IL-4 and promotes resolution of atherosclerosis by Ada Weinstock, Karishma Rahman, Or Yaacov, Hitoo Nishi, Prashanthi Menon, Cyrus A Nikain, Michela L Garabedian, Stephanie Pena, Naveed Akbar, Brian E Sansbury, Sean P Heffron, Jianhua Liu, Gregory Marecki, Dawn Fernandez, Emily J Brown, Kelly V Ruggles, Stephen A Ramsey, Chiara Giannarelli, Matthew Spite, Robin P Choudhury, P'ng Loke, Edward A Fisher

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Antibiotic-induced acceleration of type 1 diabetes alters maturation of innate intestinal immunity by Xue-Song Zhang, Jackie Li, Kimberly A Krautkramer, Michelle Badri, Thomas Battaglia, Timothy C Borbet, Hyunwook Koh, Sandy Ng, Rachel A Sibley, Yuanyuan Li, Wimal Pathmasiri, Shawn Jindal, Robin R Shields-Cutler, Ben Hillmann, Gabriel A Al-Ghalith, Victoria E Ruiz, Alexandra Livanos, Angélique B van ‘t Wout, Nabeetha Nagalingam, Arlin B Rogers, Susan Jenkins Sumner, Dan Knights, John M Denu, Huilin Li, Kelly V Ruggles, Richard Bonneau, R Anthony Williamson, Marcus Rauch, Martin J Blaser

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Proteogenomic integration reveals therapeutic targets in breast cancer xenografts by Kuan-lin Huang, Shunqiang Li, Philipp Mertins, Song Cao, Harsha P. Gunawardena, Kelly V. Ruggles, D. R. Mani, Karl R. Clauser, Maki Tanioka, Jerry Usary, Shyam M. Kavuri, Ling Xie, Christopher Yoon, Jana W Qiao, John Wrobel, Matthew A. Wyczalkowski, Petra Erdmann-Gilmore, Jacqueline E. Snider, Jeremy Hoog, Purba Singh, Beifang Niu, Zhanfang Guo, Sam Qiancheng Sun, Souzan Sanati, Emily Kawaler, Xuya Wang, Adam Scott, Kai Ye, Michael D. McLellan, Michael C. Wendl, Anna Malovannaya, Jason M. Held, Michael A. Gillette, David Fenyö, Christopher R. Kinsinger, Mehdi Mesri, Henry Rodriguez, Sherri R. Davies, Charles M. Perou, Cynthia Ma, R. Reid Townsend, Xian Chen, Steven A. Carr, Matthew J. Ellis, Li Ding

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