| Interacting networks of resistance, virulence and core machinery genes identified by genome-wide epistasis analysis MJ Skwark, NJ Croucher, S Puranen, C Chewapreecha, M Pesonen, ... PLoS genetics 13 (2), e1006508, 2017 | 110 | 2017 |
| Plasmids shaped the recent emergence of the major nosocomial pathogen Enterococcus faecium S Arredondo-Alonso, J Top, A McNally, S Puranen, M Pesonen, J Pensar, ... MBio 11 (1), 10.1128/mbio. 03284-19, 2020 | 107 | 2020 |
| Apparent nosocomial adaptation of Enterococcus faecalis predates the modern hospital era AK Pöntinen, J Top, S Arredondo-Alonso, G Tonkin-Hill, AR Freitas, ... Nature communications 12 (1), 1523, 2021 | 90 | 2021 |
| Integrated analysis of population genomics, transcriptomics and virulence provides novel insights into Streptococcus pyogenes pathogenesis P Kachroo, JM Eraso, SB Beres, RJ Olsen, L Zhu, W Nasser, PE Bernard, ... Nature genetics 51 (3), 548-559, 2019 | 70 | 2019 |
| Genome-wide epistasis and co-selection study using mutual information J Pensar, S Puranen, B Arnold, N MacAlasdair, J Kuronen, G Tonkin-Hill, ... Nucleic acids research 47 (18), e112-e112, 2019 | 41 | 2019 |
| SuperDCA for genome-wide epistasis analysis S Puranen, M Pesonen, J Pensar, YY Xu, JA Lees, SD Bentley, ... Microbial genomics 4 (6), e000184, 2018 | 27 | 2018 |
| Strong pathogen competition in neonatal gut colonisation T Mäklin, HA Thorpe, AK Pöntinen, RA Gladstone, Y Shao, M Pesonen, ... Nature Communications 13 (1), 7417, 2022 | 18 | 2022 |
| Plasmids shaped the recent emergence of the major nosocomial pathogen Enterococcus faecium. mBio 11: e03284-19 S Arredondo-Alonso, J Top, A McNally, S Puranen, M Pesonen, J Pensar, ... Europe PMC free article][Abstract][Google Scholar], 2020 | 18 | 2020 |
| Strain Variability of Listeria monocytogenes under NaCl Stress Elucidated by a High-Throughput Microbial Growth Data Assembly and Analysis Protocol M Aalto-Araneda, A Pöntinen, M Pesonen, J Corander, A Markkula, ... Applied and environmental microbiology 86 (6), e02378-19, 2020 | 17 | 2020 |
| Covariance matrix estimation for left-censored data M Pesonen, H Pesonen, J Nevalainen Computational Statistics & Data Analysis 92, 13-25, 2015 | 14 | 2015 |
| Co-evolutionary Signals Identify Burkholderia pseudomallei Survival Strategies in a Hostile Environment C Chewapreecha, J Pensar, S Chattagul, M Pesonen, A Sangphukieo, ... Molecular Biology and Evolution 39 (1), msab306, 2022 | 12 | 2022 |
| A case study of normalization, missing data and variable selection methods in lipidomics M Kujala, J Nevalainen Statistics in Medicine 34 (1), 59-73, 2015 | 12 | 2015 |
| Genomic rearrangements uncovered by genome-wide co-evolution analysis of a major nosocomial pathogen, Enterococcus faecium J Top, S Arredondo-Alonso, AC Schürch, S Puranen, M Pesonen, ... Microbial genomics 6 (12), e000488, 2020 | 11 | 2020 |
| A combined PLS and negative binomial regression model for inferring association networks from next-generation sequencing count data M Pesonen, J Nevalainen, S Potter, S Datta, S Datta IEEE/ACM transactions on computational biology and bioinformatics 15 (3 …, 2017 | 7 | 2017 |
| Safety and efficacy of faecal microbiota transplantation by Anaerobic Cultivated Human Intestinal Microbiome (ACHIM) in patients with systemic sclerosis: study protocol for the … AM Hoffmann-Vold, HH Fretheim, VK Sarna, I Barua, MN Carstens, ... BMJ open 11 (6), e048541, 2021 | 6 | 2021 |
| The effect of recombination on the evolution of a population of Neisseria meningitidis N MacAlasdair, M Pesonen, O Brynildsrud, V Eldholm, PA Kristiansen, ... Genome Research 31 (7), 1258-1268, 2021 | 5 | 2021 |
| High-dimensional structure learning of binary pairwise Markov networks: a comparative numerical study J Pensar, Y Xu, S Puranen, M Pesonen, Y Kabashima, J Corander Computational statistics & data analysis 141, 62-76, 2020 | 4 | 2020 |
| Differential network analysis with multiply imputed lipidomic data M Kujala, J Nevalainen, W März, R Laaksonen, S Datta Plos one 10 (3), e0121449, 2015 | 4 | 2015 |
| Biomarkers predictive of atrial fibrillation in patients with cryptogenic stroke. Insights from the Nordic Atrial Fibrillation and Stroke (NOR‐FIB) study A Tancin Lambert, B Ratajczak‐Tretel, R Al‐Ani, K Arntzen, GK Bakkejord, ... European Journal of Neurology 30 (5), 1352-1363, 2023 | 3 | 2023 |
| Modulation of multidrug-resistant clone success in Escherichia coli populations: a longitudinal, multi-country, genomic and antibiotic usage cohort study AK Pöntinen, RA Gladstone, H Pesonen, M Pesonen, F Cléon, BJ Parcell, ... The Lancet Microbe 5 (2), e142-e150, 2024 | 2 | 2024 |
