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Page 1
Host interactions of novel Crassvirales species belonging to multiple families infecting bacterial host, Bacteroides cellulosilyticus WH2.
Papudeshi B, Vega AA, Souza C, Giles SK, Mallawaarachchi V, Roach MJ, An M, Jacobson N, McNair K, Fernanda Mora M, Pastrana K, Boling L, Leigh C, Harker C, Plewa WS, Grigson SR, Bouras G, Decewicz P, Luque A, Droit L, Handley SA, Wang D, Segall AM, Dinsdale EA, Edwards RA. Papudeshi B, et al. Among authors: mallawaarachchi v. Microb Genom. 2023 Sep;9(9):001100. doi: 10.1099/mgen.0.001100. Microb Genom. 2023. PMID: 37665209 Free PMC article.
Stingray epidermal microbiomes are species-specific with local adaptations.
Kerr EN, Papudeshi B, Haggerty M, Wild N, Goodman AZ, Lima LFO, Hesse RD, Skye A, Mallawaarachchi V, Johri S, Parker S, Dinsdale EA. Kerr EN, et al. Among authors: mallawaarachchi v. Front Microbiol. 2023 Mar 2;14:1031711. doi: 10.3389/fmicb.2023.1031711. eCollection 2023. Front Microbiol. 2023. PMID: 36937279 Free PMC article.
Plassembler: an automated bacterial plasmid assembly tool.
Bouras G, Sheppard AE, Mallawaarachchi V, Vreugde S. Bouras G, et al. Among authors: mallawaarachchi v. Bioinformatics. 2023 Jul 1;39(7):btad409. doi: 10.1093/bioinformatics/btad409. Bioinformatics. 2023. PMID: 37369026 Free PMC article.
phage therapy candidates from Sphae: An automated toolkit for predicting sequencing data.
Papudeshi B, Roach MJ, Mallawaarachchi V, Bouras G, Grigson SR, Giles SK, Harker CM, Hutton ALK, Tarasenko A, Inglis LK, Vega AA, Souza C, Boling L, Hajama H, Cobián Güemes AG, Segall AM, Dinsdale EA, Edwards RA. Papudeshi B, et al. Among authors: mallawaarachchi v. bioRxiv [Preprint]. 2024 Nov 18:2024.11.18.624194. doi: 10.1101/2024.11.18.624194. bioRxiv. 2024. PMID: 39605506 Free PMC article. Preprint.
Solving genomic puzzles: computational methods for metagenomic binning.
Mallawaarachchi V, Wickramarachchi A, Xue H, Papudeshi B, Grigson SR, Bouras G, Prahl RE, Kaphle A, Verich A, Talamantes-Becerra B, Dinsdale EA, Edwards RA. Mallawaarachchi V, et al. Brief Bioinform. 2024 Jul 25;25(5):bbae372. doi: 10.1093/bib/bbae372. Brief Bioinform. 2024. PMID: 39082646 Free PMC article. Review.
Hybracter: Enabling Scalable, Automated, Complete and Accurate Bacterial Genome Assemblies.
Bouras G, Houtak G, Wick RR, Mallawaarachchi V, Roach MJ, Papudeshi B, Judd LM, Sheppard AE, Edwards RA, Vreugde S. Bouras G, et al. Among authors: mallawaarachchi v. bioRxiv [Preprint]. 2024 Apr 11:2023.12.12.571215. doi: 10.1101/2023.12.12.571215. bioRxiv. 2024. Update in: Microb Genom. 2024 May;10(5). doi: 10.1099/mgen.0.001244 PMID: 38168369 Free PMC article. Updated. Preprint.
Phables: from fragmented assemblies to high-quality bacteriophage genomes.
Mallawaarachchi V, Roach MJ, Decewicz P, Papudeshi B, Giles SK, Grigson SR, Bouras G, Hesse RD, Inglis LK, Hutton ALK, Dinsdale EA, Edwards RA. Mallawaarachchi V, et al. Bioinformatics. 2023 Oct 3;39(10):btad586. doi: 10.1093/bioinformatics/btad586. Bioinformatics. 2023. PMID: 37738590 Free PMC article.
21 results