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Sean M. Gibbons
Researcher at University of Washington
Publications - 103
Citations - 18173
Sean M. Gibbons is an academic researcher from University of Washington. The author has contributed to research in topics: Microbiome & Biology. The author has an hindex of 37, co-authored 91 publications receiving 9761 citations. Previous affiliations of Sean M. Gibbons include Institute for Systems Biology & Argonne National Laboratory.
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Journal ArticleDOI
Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2
Evan Bolyen,Jai Ram Rideout,Matthew R. Dillon,Nicholas A. Bokulich,Christian C. Abnet,Gabriel A. Al-Ghalith,Harriet Alexander,Harriet Alexander,Eric J. Alm,Manimozhiyan Arumugam,Francesco Asnicar,Yang Bai,Jordan E. Bisanz,Kyle Bittinger,Asker Daniel Brejnrod,Colin J. Brislawn,C. Titus Brown,Benjamin J. Callahan,Andrés Mauricio Caraballo-Rodríguez,John Chase,Emily K. Cope,Ricardo Silva,Christian Diener,Pieter C. Dorrestein,Gavin M. Douglas,Daniel M. Durall,Claire Duvallet,Christian F. Edwardson,Madeleine Ernst,Madeleine Ernst,Mehrbod Estaki,Jennifer Fouquier,Julia M. Gauglitz,Sean M. Gibbons,Sean M. Gibbons,Deanna L. Gibson,Antonio Gonzalez,Kestrel Gorlick,Jiarong Guo,Benjamin Hillmann,Susan Holmes,Hannes Holste,Curtis Huttenhower,Curtis Huttenhower,Gavin A. Huttley,Stefan Janssen,Alan K. Jarmusch,Lingjing Jiang,Benjamin D. Kaehler,Benjamin D. Kaehler,Kyo Bin Kang,Kyo Bin Kang,Christopher R. Keefe,Paul Keim,Scott T. Kelley,Dan Knights,Irina Koester,Tomasz Kosciolek,Jorden Kreps,Morgan G. I. Langille,Joslynn S. Lee,Ruth E. Ley,Ruth E. Ley,Yong-Xin Liu,Erikka Loftfield,Catherine A. Lozupone,Massoud Maher,Clarisse Marotz,Bryan D Martin,Daniel McDonald,Lauren J. McIver,Lauren J. McIver,Alexey V. Melnik,Jessica L. Metcalf,Sydney C. Morgan,Jamie Morton,Ahmad Turan Naimey,Jose A. Navas-Molina,Jose A. Navas-Molina,Louis-Félix Nothias,Stephanie B. Orchanian,Talima Pearson,Samuel L. Peoples,Samuel L. Peoples,Daniel Petras,Mary L. Preuss,Elmar Pruesse,Lasse Buur Rasmussen,Adam R. Rivers,Michael S. Robeson,Patrick Rosenthal,Nicola Segata,Michael Shaffer,Arron Shiffer,Rashmi Sinha,Se Jin Song,John R. Spear,Austin D. Swafford,Luke R. Thompson,Luke R. Thompson,Pedro J. Torres,Pauline Trinh,Anupriya Tripathi,Peter J. Turnbaugh,Sabah Ul-Hasan,Justin J. J. van der Hooft,Fernando Vargas,Yoshiki Vázquez-Baeza,Emily Vogtmann,Max von Hippel,William A. Walters,Yunhu Wan,Mingxun Wang,Jonathan Warren,Kyle C. Weber,Kyle C. Weber,Charles H. D. Williamson,Amy D. Willis,Zhenjiang Zech Xu,Jesse R. Zaneveld,Yilong Zhang,Qiyun Zhu,Rob Knight,J. Gregory Caporaso +123 more
TL;DR: QIIME 2 development was primarily funded by NSF Awards 1565100 to J.G.C. and R.K.P. and partial support was also provided by the following: grants NIH U54CA143925 and U54MD012388.
Journal ArticleDOI
A communal catalogue reveals Earth’s multiscale microbial diversity
Luke R. Thompson,Luke R. Thompson,Luke R. Thompson,Jon G. Sanders,Daniel McDonald,Amnon Amir,Joshua Ladau,Kenneth J. Locey,Robert J. Prill,Anupriya Tripathi,Sean M. Gibbons,Sean M. Gibbons,Gail Ackermann,Jose A. Navas-Molina,Stefan Janssen,Evguenia Kopylova,Yoshiki Vázquez-Baeza,Antonio Gonzalez,James T. Morton,Siavash Mirarab,Zhenjiang Zech Xu,Lingjing Jiang,Mohamed F. Haroon,Jad N. Kanbar,Qiyun Zhu,Se Jin Song,Tomasz Kosciolek,Nicholas A. Bokulich,Joshua P Lefler,Colin J. Brislawn,Gregory Humphrey,Sarah M. Owens,Jarrad T. Hampton-Marcell,Jarrad T. Hampton-Marcell,Donna Berg-Lyons,Valerie J. McKenzie,Noah Fierer,Noah Fierer,Jed A. Fuhrman,Aaron Clauset,Rick Stevens,Rick Stevens,Ashley Shade,Katherine S. Pollard,Kelly D. Goodwin,Janet K. Jansson,Jack A. Gilbert,Jack A. Gilbert,Rob Knight +48 more
TL;DR: A meta-analysis of microbial community samples collected by hundreds of researchers for the Earth Microbiome Project is presented, creating both a reference database giving global context to DNA sequence data and a framework for incorporating data from future studies, fostering increasingly complete characterization of Earth’s microbial diversity.
Journal ArticleDOI
Longitudinal analysis of microbial interaction between humans and the indoor environment.
Simon Lax,Simon Lax,Daniel P. Smith,Daniel P. Smith,Daniel P. Smith,Jarrad T. Hampton-Marcell,Jarrad T. Hampton-Marcell,Sarah M. Owens,Sarah M. Owens,Kim M. Handley,Kim M. Handley,Nicole M. Scott,Nicole M. Scott,Sean M. Gibbons,Sean M. Gibbons,Peter E. Larsen,Peter E. Larsen,Benjamin D. Shogan,Sophie Weiss,Jessica L. Metcalf,Luke K. Ursell,Yoshiki Vázquez-Baeza,Will Van Treuren,Nur A. Hasan,Molly K. Gibson,Rita R. Colwell,Gautam Dantas,Rob Knight,Rob Knight,Jack A. Gilbert,Jack A. Gilbert +30 more
TL;DR: After a house move, the microbial community in the new house rapidly converged on the microbialcommunity of the occupants’ former house, suggesting rapid colonization by the family’s microbiota.
Journal ArticleDOI
Meta-analysis of gut microbiome studies identifies disease-specific and shared responses.
Claire Duvallet,Sean M. Gibbons,Sean M. Gibbons,Thomas Gurry,Thomas Gurry,Rafael A. Irizarry,Eric J. Alm,Eric J. Alm +7 more
TL;DR: The MicrobiomeHD database, which includes 28 published case–control gut microbiome studies spanning ten diseases, is introduced, and a cross-disease meta-analysis of these studies using standardized methods finds consistent patterns characterizing disease-associated microbiome changes.
Journal ArticleDOI
Effects of diurnal variation of gut microbes and high-fat feeding on host circadian clock function and metabolism.
Vanessa Leone,Sean M. Gibbons,Sean M. Gibbons,Kristina Martinez,Alan L. Hutchison,Edmond Y. Huang,Candace M. Cham,Joseph F. Pierre,Aaron F. Heneghan,Anuradha Nadimpalli,Nathaniel Hubert,Elizabeth Zale,Yunwei Wang,Yong Huang,Betty Theriault,Aaron R. Dinner,Mark W. Musch,Kenneth A. Kudsk,Brian J. Prendergast,Jack A. Gilbert,Jack A. Gilbert,Eugene B. Chang +21 more
TL;DR: The ability of microbially derived metabolites to regulate or modify central and hepatic circadian rhythm and host metabolic function, the latter following intake of a Westernized diet is underscored.