Measures of phylogenetic differentiation provide robust and complementary insights into microbial communities

Por Parks, Donovan H, Beiko, Robert G
Publicado em 2013

Genome-Based Microbial Taxonomy Coming of Age

Por Hugenholtz, Philip, Skarshewski, Adam, Parks, Donovan H.
Publicado no Cold Spring Harb Perspect Biol (2016)

Classifying short genomic fragments from novel lineages using composition and homology

Por Parks, Donovan H, MacDonald, Norman J, Beiko, Robert G
Publicado em 2011

Rapid identification of high-confidence taxonomic assignments for metagenomic data

Por MacDonald, Norman J., Parks, Donovan H., Beiko, Robert G.
Publicado em 2012

Comparative Genomics of Candidate Phylum TM6 Suggests That Parasitism Is Widespread and Ancestral in This Lineage

Por Yeoh, Yun Kit, Sekiguchi, Yuji, Parks, Donovan H., Hugenholtz, Philip
Publicado no Mol Biol Evol (2016)

STAMP: statistical analysis of taxonomic and functional profiles

Por Parks, Donovan H., Tyson, Gene W., Hugenholtz, Philip, Beiko, Robert G.
Publicado no Bioinformatics (2014)

CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes

Por Parks, Donovan H., Imelfort, Michael, Skennerton, Connor T., Hugenholtz, Philip, Tyson, Gene W.
Publicado no Genome Res (2015)

A catalogue of 136 microbial draft genomes from Red Sea metagenomes

Por Haroon, Mohamed F., Thompson, Luke R., Parks, Donovan H., Hugenholtz, Philip, Stingl, Ulrich
Publicado no Sci Data (2016)

GroopM: an automated tool for the recovery of population genomes from related metagenomes

Por Imelfort, Michael, Parks, Donovan, Woodcroft, Ben J., Dennis, Paul, Hugenholtz, Philip, Tyson, Gene W.
Publicado em 2014

First genomic insights into members of a candidate bacterial phylum responsible for wastewater bulking

Por Sekiguchi, Yuji, Ohashi, Akiko, Parks, Donovan H., Yamauchi, Toshihiro, Tyson, Gene W., Hugenholtz, Philip
Publicado no PeerJ (2015)

Back from the dead; the curious tale of the predatory cyanobacterium Vampirovibrio chlorellavorus

Por Soo, Rochelle M., Woodcroft, Ben J., Parks, Donovan H., Tyson, Gene W., Hugenholtz, Philip
Publicado no PeerJ (2015)

A Phylogenomic Analysis of the Bacterial Phylum Fibrobacteres

Por Abdul Rahman, Nurdyana, Parks, Donovan H., Vanwonterghem, Inka, Morrison, Mark, Tyson, Gene W., Hugenholtz, Philip
Publicado no Front Microbiol (2016)

Genome-Centric Analysis of Microbial Populations Enriched by Hydraulic Fracture Fluid Additives in a Coal Bed Methane Production Well

Por Robbins, Steven J., Evans, Paul N., Parks, Donovan H., Golding, Suzanne D., Tyson, Gene W.
Publicado no Front Microbiol (2016)

GenGIS: A geospatial information system for genomic data

Por Parks, Donovan H., Porter, Michael, Churcher, Sylvia, Wang, Suwen, Blouin, Christian, Whalley, Jacqueline, Brooks, Stephen, Beiko, Robert G.
Publicado em 2009

GenGIS 2: Geospatial Analysis of Traditional and Genetic Biodiversity, with New Gradient Algorithms and an Extensible Plugin Framework

Por Parks, Donovan H., Mankowski, Timothy, Zangooei, Somayyeh, Porter, Michael S., Armanini, David G., Baird, Donald J., Langille, Morgan G. I., Beiko, Robert G.
Publicado em 2013

A molecular survey of Australian and North American termite genera indicates that vertical inheritance is the primary force shaping termite gut microbiomes

Por Abdul Rahman, Nurdyana, Parks, Donovan H, Willner, Dana L, Engelbrektson, Anna L, Goffredi, Shana K, Warnecke, Falk, Scheffrahn, Rudolf H, Hugenholtz, Philip
Publicado no Microbiome (2015)

An Expanded Genomic Representation of the Phylum Cyanobacteria

Por Soo, Rochelle M., Skennerton, Connor T., Sekiguchi, Yuji, Imelfort, Michael, Paech, Samuel J., Dennis, Paul G., Steen, Jason A., Parks, Donovan H., Tyson, Gene W., Hugenholtz, Philip
Publicado em 2014

Comparative Genomic Analysis of the Class Epsilonproteobacteria and Proposed Reclassification to Epsilonbacteraeota (phyl. nov.)

Por Waite, David W., Vanwonterghem, Inka, Rinke, Christian, Parks, Donovan H., Zhang, Ying, Takai, Ken, Sievert, Stefan M., Simon, Jörg, Campbell, Barbara J., Hanson, Thomas E., Woyke, Tanja, Klotz, Martin G., Hugenholtz, Philip
Publicado no Front Microbiol (2017)

Addendum: Comparative Genomic Analysis of the Class Epsilonproteobacteria and Proposed Reclassification to Epsilonbacteraeota (phyl. nov.)

Por Waite, David W., Vanwonterghem, Inka, Rinke, Christian, Parks, Donovan H., Zhang, Ying, Takai, Ken, Sievert, Stefan M., Simon, Jörg, Campbell, Barbara J., Hanson, Thomas E., Woyke, Tanja, Klotz, Martin G., Hugenholtz, Philip
Publicado no Front Microbiol (2018)

Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

Por Schloss, Patrick D., Westcott, Sarah L., Ryabin, Thomas, Hall, Justine R., Hartmann, Martin, Hollister, Emily B., Lesniewski, Ryan A., Oakley, Brian B., Parks, Donovan H., Robinson, Courtney J., Sahl, Jason W., Stres, Blaz, Thallinger, Gerhard G., Van Horn, David J., Weber, Carolyn F.
Publicado em 2009