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Embedding-based alignment: combining protein language models with dynamic programming alignment to detect structural similarities in the twilight-zone.
Bioinformatics. 2024 Jan 2;40(1):btad786. doi: 10.1093/bioinformatics/btad786.
Bioinformatics. 2024.
PMID: 38175775
Free PMC article.
Discriminating physiological from non-physiological interfaces in structures of protein complexes: A community-wide study.
Schweke H, Xu Q, Tauriello G, Pantolini L, Schwede T, Cazals F, Lhéritier A, Fernandez-Recio J, Rodríguez-Lumbreras LA, Schueler-Furman O, Varga JK, Jiménez-García B, Réau MF, Bonvin AMJJ, Savojardo C, Martelli PL, Casadio R, Tubiana J, Wolfson HJ, Oliva R, Barradas-Bautista D, Ricciardelli T, Cavallo L, Venclovas Č, Olechnovič K, Guerois R, Andreani J, Martin J, Wang X, Terashi G, Sarkar D, Christoffer C, Aderinwale T, Verburgt J, Kihara D, Marchand A, Correia BE, Duan R, Qiu L, Xu X, Zhang S, Zou X, Dey S, Dunbrack RL, Levy ED, Wodak SJ.
Schweke H, et al. Among authors: pantolini l.
Proteomics. 2023 Sep;23(17):e2200323. doi: 10.1002/pmic.202200323. Epub 2023 Jun 27.
Proteomics. 2023.
PMID: 37365936
Free PMC article.
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Personalized logical models to investigate cancer response to BRAF treatments in melanomas and colorectal cancers.
Béal J, Pantolini L, Noël V, Barillot E, Calzone L.
Béal J, et al. Among authors: pantolini l.
PLoS Comput Biol. 2021 Jan 28;17(1):e1007900. doi: 10.1371/journal.pcbi.1007900. eCollection 2021 Jan.
PLoS Comput Biol. 2021.
PMID: 33507915
Free PMC article.
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