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Page 1
Bacterial genomic epidemiology with mixed samples.
Mäklin T, Kallonen T, Alanko J, Samuelsen Ø, Hegstad K, Mäkinen V, Corander J, Heinz E, Honkela A. Mäklin T, et al. Among authors: honkela a. Microb Genom. 2021 Nov;7(11):000691. doi: 10.1099/mgen.0.000691. Microb Genom. 2021. PMID: 34779765 Free PMC article.
Strong pathogen competition in neonatal gut colonisation.
Mäklin T, Thorpe HA, Pöntinen AK, Gladstone RA, Shao Y, Pesonen M, McNally A, Johnsen PJ, Samuelsen Ø, Lawley TD, Honkela A, Corander J. Mäklin T, et al. Among authors: honkela a. Nat Commun. 2022 Dec 1;13(1):7417. doi: 10.1038/s41467-022-35178-5. Nat Commun. 2022. PMID: 36456554 Free PMC article.
Privacy-preserving data sharing via probabilistic modeling.
Jälkö J, Lagerspetz E, Haukka J, Tarkoma S, Honkela A, Kaski S. Jälkö J, et al. Among authors: honkela a. Patterns (N Y). 2021 Jun 7;2(7):100271. doi: 10.1016/j.patter.2021.100271. eCollection 2021 Jul 9. Patterns (N Y). 2021. PMID: 34286296 Free PMC article.
Identifying Bacterial Strains from Sequencing Data.
Mäklin T, Corander J, Honkela A. Mäklin T, et al. Among authors: honkela a. Methods Mol Biol. 2018;1807:1-7. doi: 10.1007/978-1-4939-8561-6_1. Methods Mol Biol. 2018. PMID: 30030799
High-resolution sweep metagenomics using fast probabilistic inference.
Mäklin T, Kallonen T, David S, Boinett CJ, Pascoe B, Méric G, Aanensen DM, Feil EJ, Baker S, Parkhill J, Sheppard SK, Corander J, Honkela A. Mäklin T, et al. Among authors: honkela a. Wellcome Open Res. 2021 Oct 8;5:14. doi: 10.12688/wellcomeopenres.15639.2. eCollection 2020. Wellcome Open Res. 2021. PMID: 34746439 Free PMC article.
Pan-pathogen deep sequencing of nosocomial bacterial pathogens in Italy in spring 2020: a prospective cohort study.
Thorpe HA, Pesonen M, Corbella M, Pesonen H, Gaiarsa S, Boinett CJ, Tonkin-Hill G, Mäklin T, Pöntinen AK, MacAlasdair N, Gladstone RA, Arredondo-Alonso S, Kallonen T, Jamrozy D, Lo SW, Chaguza C, Blackwell GA, Honkela A, Schürch AC, Willems RJL, Merla C, Petazzoni G, Feil EJ, Cambieri P, Thomson NR, Bentley SD, Sassera D, Corander J. Thorpe HA, et al. Among authors: honkela a. Lancet Microbe. 2024 Oct;5(10):100890. doi: 10.1016/S2666-5247(24)00113-7. Epub 2024 Aug 20. Lancet Microbe. 2024. PMID: 39178869 Free article.
Bayesian identification of bacterial strains from sequencing data.
Sankar A, Malone B, Bayliss SC, Pascoe B, Méric G, Hitchings MD, Sheppard SK, Feil EJ, Corander J, Honkela A. Sankar A, et al. Among authors: honkela a. Microb Genom. 2016 Aug 25;2(8):e000075. doi: 10.1099/mgen.0.000075. eCollection 2016 Aug. Microb Genom. 2016. PMID: 28348870 Free PMC article.
Digital public health leadership in the global fight for health security.
AlKnawy B, Kozlakidis Z, Tarkoma S, Bates D, Honkela A, Crooks G, Rhee K, McKillop M. AlKnawy B, et al. Among authors: honkela a. BMJ Glob Health. 2023 Feb;8(2):e011454. doi: 10.1136/bmjgh-2022-011454. BMJ Glob Health. 2023. PMID: 36792230 Free PMC article.
A community effort to assess and improve drug sensitivity prediction algorithms.
Costello JC, Heiser LM, Georgii E, Gönen M, Menden MP, Wang NJ, Bansal M, Ammad-ud-din M, Hintsanen P, Khan SA, Mpindi JP, Kallioniemi O, Honkela A, Aittokallio T, Wennerberg K; NCI DREAM Community; Collins JJ, Gallahan D, Singer D, Saez-Rodriguez J, Kaski S, Gray JW, Stolovitzky G. Costello JC, et al. Among authors: honkela a. Nat Biotechnol. 2014 Dec;32(12):1202-12. doi: 10.1038/nbt.2877. Epub 2014 Jun 1. Nat Biotechnol. 2014. PMID: 24880487 Free PMC article.
Closing Clostridium botulinum Group III Genomes Using Long-Read Sequencing.
Woudstra C, Mäklin T, Derman Y, Bano L, Skarin H, Mazuet C, Honkela A, Lindström M. Woudstra C, et al. Among authors: honkela a. Microbiol Resour Announc. 2021 Jun 3;10(22):e0136420. doi: 10.1128/MRA.01364-20. Epub 2021 Jun 3. Microbiol Resour Announc. 2021. PMID: 34080898 Free PMC article.
33 results