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Page 1
Differential stress responsiveness determines intraspecies virulence heterogeneity and host adaptation in Listeria monocytogenes.
Hafner L, Gadin E, Huang L, Frouin A, Laporte F, Gaultier C, Vieira A, Maudet C, Varet H, Moura A, Bracq-Dieye H, Tessaud-Rita N, Maury M, Dazas M, Legendre R, Gastineau P, Tsai YH, Coppée JY, Charlier C, Patin E, Chikhi R, Rocha EPC, Leclercq A, Disson O, Aschard H, Lecuit M. Hafner L, et al. Among authors: chikhi r. Nat Microbiol. 2024 Dec;9(12):3345-3361. doi: 10.1038/s41564-024-01859-8. Epub 2024 Nov 22. Nat Microbiol. 2024. PMID: 39578578
BFVD-a large repository of predicted viral protein structures.
Kim RS, Levy Karin E, Mirdita M, Chikhi R, Steinegger M. Kim RS, et al. Among authors: chikhi r. Nucleic Acids Res. 2024 Nov 22:gkae1119. doi: 10.1093/nar/gkae1119. Online ahead of print. Nucleic Acids Res. 2024. PMID: 39574394
Reference-free Structural Variant Detection in Microbiomes via Long-read Coassembly Graphs.
Curry KD, Yu FB, Vance SE, Segarra S, Bhaya D, Chikhi R, Rocha EPC, Treangen TJ. Curry KD, et al. Among authors: chikhi r. bioRxiv [Preprint]. 2024 Jan 30:2024.01.25.577285. doi: 10.1101/2024.01.25.577285. bioRxiv. 2024. Update in: Bioinformatics. 2024 Jun 28;40(Suppl 1):i58-i67. doi: 10.1093/bioinformatics/btae224 PMID: 38352454 Free PMC article. Updated. Preprint.
Petabase-Scale Homology Search for Structure Prediction.
Lee S, Kim G, Karin EL, Mirdita M, Park S, Chikhi R, Babaian A, Kryshtafovych A, Steinegger M. Lee S, et al. Among authors: chikhi r. Cold Spring Harb Perspect Biol. 2024 May 2;16(5):a041465. doi: 10.1101/cshperspect.a041465. Cold Spring Harb Perspect Biol. 2024. PMID: 38316555 Review.
High-quality metagenome assembly from long accurate reads with metaMDBG.
Benoit G, Raguideau S, James R, Phillippy AM, Chikhi R, Quince C. Benoit G, et al. Among authors: chikhi r. Nat Biotechnol. 2024 Sep;42(9):1378-1383. doi: 10.1038/s41587-023-01983-6. Epub 2024 Jan 2. Nat Biotechnol. 2024. PMID: 38168989 Free PMC article.
64 results