| Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2 E Bolyen, JR Rideout, MR Dillon, NA Bokulich, CC Abnet, GA Al-Ghalith, ... Nature biotechnology 37 (8), 852-857, 2019 | 15025 | 2019 |
| VirSorter2: a multi-classifier, expert-guided approach to detect diverse DNA and RNA viruses J Guo, B Bolduc, AA Zayed, A Varsani, G Dominguez-Huerta, TO Delmont, ... Microbiome 9, 1-13, 2021 | 594 | 2021 |
| The khmer software package: enabling efficient nucleotide sequence analysis MR Crusoe, HF Alameldin, S Awad, E Boucher, A Caldwell, R Cartwright, ... F1000Research 4, 2015 | 365 | 2015 |
| Cryptic and abundant marine viruses at the evolutionary origins of Earth’s RNA virome AA Zayed, JM Wainaina, G Dominguez-Huerta, E Pelletier, J Guo, ... Science 376 (6589), 156-162, 2022 | 152 | 2022 |
| Long-term excess nitrogen fertilizer increases sensitivity of soil microbial community to seasonal change revealed by ecological network and metagenome analyses BB Li, SS Roley, DS Duncan, J Guo, JF Quensen, HQ Yu, JM Tiedje Soil Biology and Biochemistry 160, 108349, 2021 | 103 | 2021 |
| Metagenomic analysis reveals the shared and distinct features of the soil resistome across tundra, temperate prairie, and tropical ecosystems X Qian, S Gunturu, J Guo, B Chai, JR Cole, J Gu, JM Tiedje Microbiome 9 (1), 108, 2021 | 80 | 2021 |
| Microbial community analysis with ribosomal gene fragments from shotgun metagenomes J Guo, JR Cole, Q Zhang, CT Brown, JM Tiedje Applied and Environmental Microbiology 82 (1), 157-166, 2016 | 79 | 2016 |
| New biological insights into how deforestation in Amazonia affects soil microbial communities using metagenomics and metagenome-assembled genomes ME Kroeger, TO Delmont, AM Eren, KM Meyer, J Guo, K Khan, ... Frontiers in microbiology 9, 1635, 2018 | 73 | 2018 |
| Expanding standards in viromics: in silico evaluation of dsDNA viral genome identification, classification, and auxiliary metabolic gene curation AA Pratama, B Bolduc, AA Zayed, ZP Zhong, J Guo, DR Vik, MC Gazitúa, ... PeerJ 9, e11447, 2021 | 66 | 2021 |
| Soil depth and crop determinants of bacterial communities under ten biofuel cropping systems B Zhang, CR Penton, C Xue, JF Quensen, SS Roley, J Guo, A Garoutte, ... Soil Biology and Biochemistry 112, 140-152, 2017 | 65 | 2017 |
| Root-associated microbiome of maize genotypes with contrasting phosphorus use efficiency. Phytobiomes J 2: 129–137 EA Gomes, UGP Lana, JF Quensen, SM de Sousa, CA Oliveira, J Guo, ... Doi 10.1094/PBIOMES-03-18-0012-R, 2018 | 64* | 2018 |
| Diversity and ecological footprint of Global Ocean RNA viruses G Dominguez-Huerta, AA Zayed, JM Wainaina, J Guo, F Tian, ... Science 376 (6598), 1202-1208, 2022 | 49 | 2022 |
| iVirus 2.0: Cyberinfrastructure-supported tools and data to power DNA virus ecology B Bolduc, O Zablocki, J Guo, AA Zayed, D Vik, P Dehal, ... ISME communications 1 (1), 77, 2021 | 15 | 2021 |
| Viral sequence identification SOP with VirSorter2 v3 J Guo, D Vik, A Adjie Pratama, S Roux, M Sullivan protocolsio, 3, 2021 | 15 | 2021 |
| Review, evaluation, and directions for gene-targeted assembly for ecological analyses of metagenomes J Guo, JF Quensen, Y Sun, Q Wang, CT Brown, JR Cole, JM Tiedje Frontiers in Genetics 10, 957, 2019 | 9 | 2019 |
| Rhizosphere metagenomics of three biofuel crops J Guo Michigan State University, 2016 | 8 | 2016 |
| The International Virus Bioinformatics Meeting 2022 F Hufsky, D Beslic, D Boeckaerts, S Duchene, E González-Tortuero, ... Viruses 14 (5), 973, 2022 | 5 | 2022 |
| Comparing faster evolving rplB and rpsC versus SSU rRNA for improved microbial community resolution J Guo, JR Cole, CT Brown, JM Tiedje bioRxiv, 435099, 2018 | 1 | 2018 |
| VirSorter2: a multi-classifier, expert-guided approach to detect diverse DNA and RNA J Guo, B Bolduc, AA Zayed Microbiome, 9 (1), 2021 | | 2021 |
| Getting started with VirSorter2 J Guo | | 2020 |
