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Emily S. Charlson
Researcher at University of Pennsylvania
Publications - 21
Citations - 5236
Emily S. Charlson is an academic researcher from University of Pennsylvania. The author has contributed to research in topics: Microbiome & Lung microbiome. The author has an hindex of 18, co-authored 20 publications receiving 4197 citations. Previous affiliations of Emily S. Charlson include Arizona State University.
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Journal ArticleDOI
Bayesian community-wide culture-independent microbial source tracking
Dan Knights,Justin Kuczynski,Emily S. Charlson,Jesse R. Zaneveld,Michael C. Mozer,Ronald G. Collman,Frederic D. Bushman,Rob Knight,Rob Knight,Scott T. Kelley +9 more
TL;DR: SourceTracker, a Bayesian approach to estimate the proportion of contaminants in a given community that come from possible source environments, is presented, and microbial surveys from neonatal intensive care units, offices and molecular biology laboratories are applied.
Journal ArticleDOI
Topographical Continuity of Bacterial Populations in the Healthy Human Respiratory Tract
Emily S. Charlson,Kyle Bittinger,Andrew R. Haas,Ayannah S. Fitzgerald,Ian Frank,Anjana Yadav,Frederic D. Bushman,Ronald G. Collman +7 more
TL;DR: The healthy lung does not contain a consistent distinct microbiome, but instead contains low levels of bacterial sequences largely indistinguishable from upper respiratory flora, in contrast to other organ systems.
Journal ArticleDOI
Associating microbiome composition with environmental covariates using generalized UniFrac distances
Jun Chen,Kyle Bittinger,Emily S. Charlson,Christian Hoffmann,James D. Lewis,Gary D. Wu,Ronald G. Collman,Frederic D. Bushman,Hongzhe Li +8 more
TL;DR: In this paper, generalized UniFrac distance was proposed to detect a much wider range of biologically relevant changes in the human microbiome, which has an overall better power than the joint use of unweighted/weighted uniFrac distances.
Journal ArticleDOI
Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications.
Pelin Yilmaz,Pelin Yilmaz,Renzo Kottmann,Dawn Field,Rob Knight,Rob Knight,James R. Cole,Linda A. Amaral-Zettler,Jack A. Gilbert,Jack A. Gilbert,Jack A. Gilbert,Ilene Karsch-Mizrachi,Anjanette Johnston,Guy Cochrane,Robert Vaughan,Christopher I. Hunter,Joonhong Park,Norman Morrison,Philippe Rocca-Serra,Peter Sterk,Manimozhiyan Arumugam,Mark J. Bailey,Laura K. Baumgartner,Bruce W. Birren,Martin J. Blaser,Vivien Bonazzi,Timothy F. Booth,Peer Bork,Frederic D. Bushman,Pier Luigi Buttigieg,Pier Luigi Buttigieg,Patrick S. G. Chain,Patrick S. G. Chain,Patrick S. G. Chain,Emily S. Charlson,Elizabeth K. Costello,Heather Huot-Creasy,Peter Dawyndt,Todd Z. DeSantis,Noah Fierer,Jed A. Fuhrman,Rachel E. Gallery,Dirk Gevers,Richard A. Gibbs,Inigo San Gil,Antonio Gonzalez,Jeffrey I. Gordon,Robert P. Guralnick,Wolfgang Hankeln,Wolfgang Hankeln,Sarah K. Highlander,Philip Hugenholtz,Janet K. Jansson,Janet K. Jansson,Andrew L. Kau,Scott T. Kelley,Jerry Kennedy,Dan Knights,Omry Koren,Justin Kuczynski,Nikos C. Kyrpides,Robert Larsen,Christian L. Lauber,Teresa M. Legg,Ruth E. Ley,Catherine A. Lozupone,Wolfgang Ludwig,Donna Lyons,Eamonn Maguire,Barbara A. Methé,Folker Meyer,Brian D. Muegge,Sara Nakielny,Karen E. Nelson,Diana R. Nemergut,Josh D. Neufeld,Lindsay K. Newbold,Anna Oliver,Norman R. Pace,Giriprakash Palanisamy,Jörg Peplies,Joseph F. Petrosino,Lita M. Proctor,Elmar Pruesse,Elmar Pruesse,Christian Quast,Jeroen Raes,Sujeevan Ratnasingham,Jacques Ravel,David A. Relman,David A. Relman,Susanna Assunta-Sansone,Patrick D. Schloss,Lynn M. Schriml,Rohini Sinha,Michelle I. Smith,Erica Sodergren,Aymé Spor,Jesse Stombaugh,James M. Tiedje,Doyle V. Ward,George M. Weinstock,Doug Wendel,Owen White,Andrew S. Whiteley,Andreas Wilke,Jennifer R. Wortman,Tanya Yatsunenko,Frank Oliver Glöckner,Frank Oliver Glöckner +109 more
TL;DR: To establish a unified standard for describing sequence data and to provide a single point of entry for the scientific community to access and learn about GSC checklists, the minimum information about any (x) sequence is presented (MIxS).
Journal ArticleDOI
Disordered microbial communities in the upper respiratory tract of cigarette smokers.
Emily S. Charlson,Jun Chen,Rebecca Custers-Allen,Kyle Bittinger,Hongzhe Li,Rohini Sinha,Jennifer Hwang,Frederic D. Bushman,Ronald G. Collman +8 more
TL;DR: Different regions of the human upper respiratory tract contain characteristic microbial communities that exhibit disordered patterns in cigarette smokers, both in individual components and global structure, which may contribute to the prevalence of respiratory tract complications in this population.