| Optimizing and evaluating the reconstruction of Metagenome-assembled microbial genomes B Papudeshi, JM Haggerty, M Doane, MM Morris, K Walsh, DT Beattie, ... BMC genomics 18, 1-13, 2017 | 68 | 2017 |
| The skin microbiome of the common thresher shark (Alopias vulpinus) has low taxonomic and gene function β‐diversity MP Doane, JM Haggerty, D Kacev, B Papudeshi, EA Dinsdale Environmental Microbiology Reports 9 (4), 357-373, 2017 | 64 | 2017 |
| The skin microbiome of elasmobranchs follows phylosymbiosis, but in teleost fishes, the microbiomes converge MP Doane, MM Morris, B Papudeshi, L Allen, D Pande, JM Haggerty, ... Microbiome 8, 1-15, 2020 | 56 | 2020 |
| Modeling of the coral microbiome: the influence of temperature and microbial network LFO Lima, M Weissman, M Reed, B Papudeshi, AT Alker, MM Morris, ... MBio 11 (2), 10.1128/mbio. 02691-19, 2020 | 56 | 2020 |
| Nearshore Pelagic Microbial Community Abundance Affects Recruitment Success of Giant Kelp, Macrocystis pyrifera MM Morris, JM Haggerty, BN Papudeshi, AA Vega, MS Edwards, ... Frontiers in microbiology 7, 1800, 2016 | 31 | 2016 |
| The human gut virome: composition, colonization, interactions, and impacts on human health E Pargin, MJ Roach, A Skye, B Papudeshi, LK Inglis, V Mallawaarachchi, ... Frontiers in Microbiology 14, 963173, 2023 | 27 | 2023 |
| Coral and seawater metagenomes reveal key microbial functions to coral health and ecosystem functioning shaped at reef scale LFO Lima, AT Alker, B Papudeshi, MM Morris, RA Edwards, SJ De Putron, ... Microbial Ecology 86 (1), 392-407, 2023 | 22 | 2023 |
| Ten simple rules and a template for creating workflows-as-applications MJ Roach, NT Pierce-Ward, R Suchecki, V Mallawaarachchi, ... PLoS computational biology 18 (12), e1010705, 2022 | 17 | 2022 |
| Phables: from fragmented assemblies to high-quality bacteriophage genomes V Mallawaarachchi, MJ Roach, P Decewicz, B Papudeshi, SK Giles, ... Bioinformatics 39 (10), btad586, 2023 | 14 | 2023 |
| Dnaapler: a tool to reorient circular microbial genomes G Bouras, SR Grigson, B Papudeshi, V Mallawaarachchi, M Roach Journal of Open Source Software 9 (93), 5968, 2024 | 8 | 2024 |
| The StkSR Two-Component System Influences Colistin Resistance in Acinetobacter baumannii SK Giles, UH Stroeher, B Papudeshi, RA Edwards, JAP Carlson-Jones, ... Microorganisms 10 (5), 985, 2022 | 7 | 2022 |
| The promise and pitfalls of prophages JC McKerral, B Papudeshi, LK Inglis, MJ Roach, P Decewicz, K McNair, ... bioRxiv, 2023 | 6 | 2023 |
| Hybracter: enabling scalable, automated, complete and accurate bacterial genome assemblies G Bouras, G Houtak, RR Wick, V Mallawaarachchi, MJ Roach, ... Microbial Genomics 10 (5), 001244, 2024 | 5 | 2024 |
| Knowing and naming: phage annotation and nomenclature for phage therapy SR Grigson, SK Giles, RA Edwards, B Papudeshi Clinical Infectious Diseases 77 (Supplement_5), S352-S359, 2023 | 5 | 2023 |
| Epidermal Microbiomes of Leopard Sharks (Triakis semifasciata) Are Consistent across Captive and Wild Environments AZ Goodman, B Papudeshi, MP Doane, M Mora, E Kerr, M Torres, ... Microorganisms 10 (10), 2081, 2022 | 5 | 2022 |
| Phage diving: an exploration of the carcharhinid shark epidermal virome RD Hesse, M Roach, EN Kerr, B Papudeshi, LFO Lima, AZ Goodman, ... Viruses 14 (9), 1969, 2022 | 5 | 2022 |
| Host interactions of novel Crassvirales species belonging to multiple families infecting bacterial host, Bacteroides cellulosilyticus WH2 B Papudeshi, AA Vega, C Souza, SK Giles, V Mallawaarachchi, ... Microbial Genomics 9 (9), 001100, 2023 | 3 | 2023 |
| A voice for bioinformatics CL Ganote, SA Sanders, BN Papudeshi, PD Blood, TG Doak Proceedings of the Practice and Experience in Advanced Research Computing …, 2017 | 3 | 2017 |
| Koverage: read-coverage analysis for massive (meta) genomics datasets MJ Roach, BJ Hart, SJ Beecroft, B Papudeshi, LK Inglis, SR Grigson, ... Journal of Open Source Software 9 (94), 6235, 2024 | 1 | 2024 |
| Emergent community architecture despite distinct diversity in the global whale shark (Rhincodon typus) epidermal microbiome MP Doane, MB Reed, J McKerral, L Farias Oliveira Lima, M Morris, ... Scientific Reports 13 (1), 12747, 2023 | 1 | 2023 |
Rob EdwardsMatthew Flinders Fellow of Bioinformatics, Flinders University, Adelaide, SA, AustraliaVerified email at flinders.edu.au
