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DOME Registry: implementing community-wide recommendations for reporting supervised machine learning in biology.
Attafi OA, Clementel D, Kyritsis K, Capriotti E, Farrell G, Fragkouli SC, Castro LJ, Hatos A, Lenaerts T, Mazurenko S, Mozaffari S, Pradelli F, Ruch P, Savojardo C, Turina P, Zambelli F, Piovesan D, Monzon AM, Psomopoulos F, Tosatto SCE. Attafi OA, et al. Among authors: clementel d. Gigascience. 2024 Jan 2;13:giae094. doi: 10.1093/gigascience/giae094. Gigascience. 2024. PMID: 39661723 Free PMC article.
STRPsearch: fast detection of structured tandem repeat proteins.
Mozaffari S, Arrías PN, Clementel D, Piovesan D, Ferrari C, Tosatto SCE, Monzon AM. Mozaffari S, et al. Among authors: clementel d. Bioinformatics. 2024 Nov 28;40(12):btae690. doi: 10.1093/bioinformatics/btae690. Bioinformatics. 2024. PMID: 39558588 Free PMC article.
The Pfam protein families database: embracing AI/ML.
Paysan-Lafosse T, Andreeva A, Blum M, Chuguransky SR, Grego T, Pinto BL, Salazar GA, Bileschi ML, Llinares-López F, Meng-Papaxanthos L, Colwell LJ, Grishin NV, Schaeffer RD, Clementel D, Tosatto SCE, Sonnhammer E, Wood V, Bateman A. Paysan-Lafosse T, et al. Among authors: clementel d. Nucleic Acids Res. 2025 Jan 6;53(D1):D523-D534. doi: 10.1093/nar/gkae997. Nucleic Acids Res. 2025. PMID: 39540428 Free PMC article.
A STRP-ed definition of Structured Tandem Repeats in Proteins.
Monzon AM, Arrías PN, Elofsson A, Mier P, Andrade-Navarro MA, Bevilacqua M, Clementel D, Bateman A, Hirsh L, Fornasari MS, Parisi G, Piovesan D, Kajava AV, Tosatto SCE. Monzon AM, et al. Among authors: clementel d. J Struct Biol. 2023 Dec;215(4):108023. doi: 10.1016/j.jsb.2023.108023. Epub 2023 Aug 29. J Struct Biol. 2023. PMID: 37652396 Free article.
The repetitive structure of DNA clamps: An overlooked protein tandem repeat.
Arrías PN, Monzon AM, Clementel D, Mozaffari S, Piovesan D, Kajava AV, Tosatto SCE. Arrías PN, et al. Among authors: clementel d. J Struct Biol. 2023 Sep;215(3):108001. doi: 10.1016/j.jsb.2023.108001. Epub 2023 Jul 17. J Struct Biol. 2023. PMID: 37467824 Free article.
15 results