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Microbial ecology

phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data

Paul J. McMurdie, Susan Holmes

published 22 Apr 2013

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Comparing bioinformatic pipelines for microbial 16S rRNA amplicon sequencing

Andrei Prodan, Valentina Tremaroli, Harald Brolin, Aeilko H. Zwinderman, Max Nieuwdorp, Evgeni Levin

published 16 Jan 2020

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Architectural Design Drives the Biogeography of Indoor Bacterial Communities

Steven W. Kembel, James F. Meadow, Timothy K. O’Connor, Gwynne Mhuireach, Dale Northcutt, Jeff Kline, Maxwell Moriyama, G. Z. Brown, Brendan J. M. Bohannan, Jessica L. Green

published 29 Jan 2014

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Human Occupancy as a Source of Indoor Airborne Bacteria

Denina Hospodsky, Jing Qian, William W. Nazaroff, Naomichi Yamamoto, Kyle Bibby, Hamid Rismani-Yazdi, Jordan Peccia

published 18 Apr 2012

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Sequence Depth, Not PCR Replication, Improves Ecological Inference from Next Generation DNA Sequencing

Dylan P. Smith, Kabir G. Peay

published 28 Feb 2014

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Identifying Keystone Species in the Human Gut Microbiome from Metagenomic Timeseries Using Sparse Linear Regression

Charles K. Fisher, Pankaj Mehta

published 23 Jul 2014

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Insights from Characterizing Extinct Human Gut Microbiomes

Raul Y. Tito, Dan Knights, Jessica Metcalf, Alexandra J. Obregon-Tito, Lauren Cleeland, Fares Najar, Bruce Roe, Karl Reinhard, Kristin Sobolik, Samuel Belknap, Morris Foster, Paul Spicer, Rob Knight, Cecil M. Lewis Jr

published 12 Dec 2012

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Characterization of Staphylococcus and Corynebacterium Clusters in the Human Axillary Region

Chris Callewaert, Frederiek-Maarten Kerckhof, Michael S. Granitsiotis, Mireille Van Gele, Tom Van de Wiele, Nico Boon

published 12 Aug 2013

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Soil Bacterial Diversity Screening Using Single 16S rRNA Gene V Regions Coupled with Multi-Million Read Generating Sequencing Technologies

Sotirios Vasileiadis, Edoardo Puglisi, Maria Arena, Fabrizio Cappa, Pier S. Cocconcelli, Marco Trevisan

published 06 Aug 2012

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Investigating the Impact of Storage Conditions on Microbial Community Composition in Soil Samples

Benjamin E. R. Rubin, Sean M. Gibbons, Suzanne Kennedy, Jarrad Hampton-Marcell, Sarah Owens, Jack A. Gilbert

published 31 Jul 2013

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The Influence of Staphylococcus aureus on Gut Microbial Ecology in an In Vitro Continuous Culture Human Colonic Model System

Thippeswamy H. Sannasiddappa, Adele Costabile, Glenn R. Gibson, Simon R. Clarke

published 09 Aug 2011

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Fecal Microbiota in Premature Infants Prior to Necrotizing Enterocolitis

Volker Mai, Christopher Michael Young, Maria Ukhanova, Xiaoyu Wang, Yijun Sun, George Casella, Douglas Theriaque, Nan Li, Renu Sharma, Mark Hudak, Josef Neu

published 06 Jun 2011

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Pyocyanin Promotes Extracellular DNA Release in Pseudomonas aeruginosa

Theerthankar Das, Mike Manefield

published 08 Oct 2012

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