| Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities PD Schloss, SL Westcott, T Ryabin, JR Hall, M Hartmann, EB Hollister, ... Appl. Environ. Microbiol. 75 (23), 7537-7541, 2009 | 10853 | 2009 |
| CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes DH Parks, M Imelfort, CT Skennerton, P Hugenholtz, GW Tyson Genome research 25 (7), 1043-1055, 2015 | 1180 | 2015 |
| STAMP: statistical analysis of taxonomic and functional profiles DH Parks, GW Tyson, P Hugenholtz, RG Beiko Bioinformatics 30 (21), 3123-3124, 2014 | 847 | 2014 |
| Identifying biologically relevant differences between metagenomic communities DH Parks, RG Beiko Bioinformatics 26 (6), 715-721, 2010 | 599 | 2010 |
| Methane metabolism in the archaeal phylum Bathyarchaeota revealed by genome-centric metagenomics PN Evans, DH Parks, GL Chadwick, SJ Robbins, VJ Orphan, SD Golding, ... Science 350 (6259), 434-438, 2015 | 281 | 2015 |
| Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life DH Parks, C Rinke, M Chuvochina, PA Chaumeil, BJ Woodcroft, ... Nature microbiology 2 (11), 1533, 2017 | 246 | 2017 |
| Evaluation of background subtraction algorithms with post-processing DH Parks, SS Fels 2008 IEEE Fifth International Conference on Advanced Video and Signal Based …, 2008 | 235 | 2008 |
| GroopM: an automated tool for the recovery of population genomes from related metagenomes M Imelfort, D Parks, BJ Woodcroft, P Dennis, P Hugenholtz, GW Tyson PeerJ 2, e603, 2014 | 179 | 2014 |
| Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea RM Bowers, NC Kyrpides, R Stepanauskas, M Harmon-Smith, D Doud, ... Nature biotechnology 35 (8), 725, 2017 | 141 | 2017 |
| An expanded genomic representation of the phylum Cyanobacteria RM Soo, CT Skennerton, Y Sekiguchi, M Imelfort, SJ Paech, PG Dennis, ... Genome biology and evolution 6 (5), 1031-1045, 2014 | 139 | 2014 |
| Methylotrophic methanogenesis discovered in the archaeal phylum Verstraetearchaeota I Vanwonterghem, PN Evans, DH Parks, PD Jensen, BJ Woodcroft, ... Nature microbiology 1 (12), 16170, 2016 | 132 | 2016 |
| A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life DH Parks, M Chuvochina, DW Waite, C Rinke, A Skarshewski, ... Nature biotechnology, 2018 | 128* | 2018 |
| GenGIS: A geospatial information system for genomic data DH Parks, M Porter, S Churcher, S Wang, C Blouin, J Whalley, S Brooks, ... Genome research 19 (10), 1896-1904, 2009 | 117 | 2009 |
| On the origins of oxygenic photosynthesis and aerobic respiration in Cyanobacteria RM Soo, J Hemp, DH Parks, WW Fischer, P Hugenholtz Science 355 (6332), 1436-1440, 2017 | 90 | 2017 |
| Rapid identification of high-confidence taxonomic assignments for metagenomic data NJ MacDonald, DH Parks, RG Beiko Nucleic Acids Research, 2012 | 71 | 2012 |
| GenGIS 2: Geospatial analysis of traditional and genetic biodiversity, with new gradient algorithms and an extensible plugin framework DH Parks, T Mankowski, S Zangooei, MS Porter, DG Armanini, DJ Baird, ... PloS one 8 (7), e69885, 2013 | 69 | 2013 |
| A molecular survey of Australian and North American termite genera indicates that vertical inheritance is the primary force shaping termite gut microbiomes NA Rahman, DH Parks, DL Willner, AL Engelbrektson, SK Goffredi, ... Microbiome 3 (1), 5, 2015 | 66 | 2015 |
| Classifying short genomic fragments from novel lineages using composition and homology DH Parks, NJ MacDonald, RG Beiko BMC bioinformatics 12 (1), 328, 2011 | 60 | 2011 |
| First genomic insights into members of a candidate bacterial phylum responsible for wastewater bulking Y Sekiguchi, A Ohashi, DH Parks, T Yamauchi, GW Tyson, P Hugenholtz PeerJ 3, e740, 2015 | 56 | 2015 |
| Comparative genomic analysis of the class Epsilonproteobacteria and proposed reclassification to Epsilonbacteraeota (phyl. nov.) DW Waite, I Vanwonterghem, C Rinke, DH Parks, Y Zhang, K Takai, ... Frontiers in microbiology 8, 682, 2017 | 50 | 2017 |
Philip HugenholtzAustralian Centre for Ecogenomics, SCMB, The University of QueenslandVerified email at uq.edu.au