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PHA4GE quality control contextual data tags: standardized annotations for sharing public health sequence datasets with known quality issues to facilitate testing and training.
Griffiths EJ, Mendes I, Maguire F, Guthrie JL, Wee BA, Schmedes S, Holt K, Yadav C, Cameron R, Barclay C, Dooley D, MacCannell D, Chindelevitch L, Karsch-Mizrachi I, Waheed Z, Katz L, Petit Iii R, Dave M, Oluniyi P, Nasar MI, Raphenya A, Hsiao WWL, Timme RE. Griffiths EJ, et al. Among authors: chindelevitch l. Microb Genom. 2024 Jun;10(6):001260. doi: 10.1099/mgen.0.001260. Microb Genom. 2024. PMID: 38860884 Free PMC article.
Generalizations of the genomic rank distance to indels.
Pereira Zanetti JP, Peres Oliveira L, Chindelevitch L, Meidanis J. Pereira Zanetti JP, et al. Among authors: chindelevitch l. Bioinformatics. 2023 Mar 1;39(3):btad087. doi: 10.1093/bioinformatics/btad087. Bioinformatics. 2023. PMID: 36790056 Free PMC article.
BenchAMRking: a Galaxy-based platform for illustrating the major issues associated with current antimicrobial resistance (AMR) gene prediction workflows.
Strepis N, Dollee D, Vrins D, Vanneste K, Bogaerts B, Carrillo C, Bharat A, Horan K, Sherry NL, Seemann T, Howden BP, Hiltemann S, Chindelevitch L, Stubbs AP, Hays JP. Strepis N, et al. Among authors: chindelevitch l. BMC Genomics. 2025 Jan 10;26(1):27. doi: 10.1186/s12864-024-11158-5. BMC Genomics. 2025. PMID: 39794695 Free PMC article.
Counting Sorting Scenarios and Intermediate Genomes for the Rank Distance.
Zanetti JPP, Oliveira LP, Meidanis J, Chindelevitch L. Zanetti JPP, et al. Among authors: chindelevitch l. IEEE/ACM Trans Comput Biol Bioinform. 2024 May-Jun;21(3):316-327. doi: 10.1109/TCBB.2023.3277733. Epub 2024 Jun 5. IEEE/ACM Trans Comput Biol Bioinform. 2024. PMID: 37200133
Mechanisms of antibiotic action shape the fitness landscapes of resistance mutations.
Hemez C, Clarelli F, Palmer AC, Bleis C, Abel S, Chindelevitch L, Cohen T, Abel Zur Wiesch P. Hemez C, et al. Among authors: chindelevitch l. Comput Struct Biotechnol J. 2022 Aug 24;20:4688-4703. doi: 10.1016/j.csbj.2022.08.030. eCollection 2022. Comput Struct Biotechnol J. 2022. PMID: 36147681 Free PMC article.
49 results