Leo Lahti
 Professor


leo.lahti@utu.fi

+358 29 450 2390

+358 50 436 4626

Vesilinnantie 5

Turku

Office452E


ORCID identifierhttps://orcid.org/0000-0001-5537-637X

Research homepage




Areas of expertise
Data science; AI; Machine Learning; Applied statistics; Statistical programming; Probabilistic models; Complex natural and social systems; Microbial ecology; Computational humanities; Open knowledge

Biography

Leo Lahti is professor in Data Science in University of Turku, Finland. His research team focuses on computational analysis and modeling of complex natural and social systems. Lahti obtained doctoral degree (DSc) from Aalto University in Finland (2010), developing probabilistic machine learning methods for high-throughput life science data integration. This was followed by subsequent postdoctoral research at EBI/Hinxton (UK), Wageningen University (NL), and VIB/KU Leuven (BE). Lahti has coordinated international networks in data science methods and applications and organizes international data science training events on a regular basis. He is vice chair for the national coordination on open science Finland, executive committee member for the International Science Council Committee on Data (2023-2025), member of the global Bioconductor Community Advisory Board, and founder of the open science work group of Open Knowledge Finland ry. For more information, see the research homepage iki.fi/Leo.Lahti



Research

Computational scientist focusing on change in complex natural and social systems, and how they can be understood through a computational lens.



Teaching

Computational and data science, statistical and probabilistic programming, machine learning, AI, applied statistics, ecological models, open science



Publications
  
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  • Assessing the safety of microbiome perturbations  (2025)  
    • Microbial genomics
     Metris, Aline; Walker, Alan W.; Showering, Alicia; Doolan, Andrea; McBain, Andrew J.; Ampatzoglou, Antonis; Murphy, Barry; O'Neill, Catherine; Shortt, Colette; Darby, Elizabeth M.; Aldis, Gary; Hillebrand, Greg G.; Brown, Helen L.; Browne, Hilary P.; Tiesman, Jay P.; Leng, Joy; Lahti, Leo; Jakubovics, Nicholas S.; Hasselwander, Oliver; Finn, Robert D.; Klamert, Silvia; Korcsmaros, Tamas; Hall, Lindsay J.
    (
    A2 Refereed review article in a scientific journal )


  • Association of leisure time physical activity with gut microbiota composition in early adulthood  (2025)  
    • Scientific Reports
     Boelius, Hanna-Mari; Aatsinki, Anna-Katariina; Heiskanen, Marja A.; Haapala, Eero A.; Munukka, Eveliina; Mykkänen, Juha; Kartiosuo, Noora; Lahti, Leo; Keskitalo, Anniina; Huovinen, Pentti; Niinikoski, Harri; Viikari, Jorma; Rönnemaa, Tapani; Lagström, Hanna; Jula, Antti; Rovio, Suvi P.; Raitakari, Olli T.; Pahkala, Katja
    (
    A1 Refereed original research article in a scientific journal)


  • Associations of alcohol with the human gut microbiome and prospective health outcomes in the FINRISK 2002 cohort  (2025)  
    • European Journal of Nutrition
     Koponen, Kari; McDonald, Daniel; Jousilahti, Pekka; Meric, Guillaume; Inouye, Michael; Lahti, Leo; Niiranen, Teemu; Männistö, Satu; Havulinna, Aki; Knight, Rob; Salomaa, Veikko
    (
    A1 Refereed original research article in a scientific journal)


  • Elementary methods provide more replicable results in microbial differential abundance analysis  (2025)  
    • Briefings in Bioinformatics
     Pelto, Juho; Auranen, Kari; Kujala, Janne V.; Lahti, Leo
    (
    A2 Refereed review article in a scientific journal )


  • Fermented foods affect the seasonal stability of gut bacteria in an Indian rural population  (2025)  
    • Nature Communications
     Jeyaram, Kumaraswamy; Lahti, Leo; Tims, Sebastian; Heilig, Hans G. H. J.; van Gelder, Antonie H.; de Vos, Willem M.; Smidt, Hauke; Zoetendal, Erwin G.
    (
    A1 Refereed original research article in a scientific journal)


  • Fractional modelling of COVID-19 transmission incorporating asymptomatic and super-spreader individuals  (2025)  
    • Mathematical Biosciences
     Khalighi, Moein; Lahti, Leo; Ndaïrou, Faïçal; Rashkov, Peter; Torres, Delfim F. M.
    (
    A1 Refereed original research article in a scientific journal)


  • Gender differences in global antimicrobial resistance  (2025)  
    • npj biofilms and microbiomes
     Salehi, Mahkameh; Laitinen, Ville; Bhanushali, Shivang; Bengtsson-Palme, Johan; Collignon, Peter; Beggs, John J.; Pärnänen, Katariina; Lahti, Leo
    (
    A1 Refereed original research article in a scientific journal)


  • Gut Microbiome as a Risk Factor for Future CKD  (2025)  
    • Kidney International Reports
     Hellman, Tapio; Yeo, Li-Fang; Palmu, Joonatan; Havulinna, Aki; Jousilahti, Pekka; Laitinen, Ville; Pärnänen, Katariina; Salomaa, Veikko; Lahti, Leo; Knight, Rob; Niiranen, Teemu
    (
    A1 Refereed original research article in a scientific journal)


  • Gut microbiome-derived bacterial extracellular vesicles in patients with solid tumours  (2025)  
    • Journal of Advanced Research
     Mishra, Surbhi; Tejesvi, Mysore Vishakantegowda; Hekkala, Jenni; Turunen, Jenni; Kandikanti, Niyati; Kaisanlahti, Anna; Suokas, Marko; Leppä, Sirpa; Vihinen, Pia; Kuitunen, Hanne; Sunela, Kaisa; Koivunen, Jussi; Jukkola, Arja; Kalashnikov, Ilja; Auvinen, Päivi; Kääriäinen, Okko-Sakari; Peñate Medina, T.; Peñate Medina, O.; Saarnio, Juha; Meriläinen, Sanna; Rautio, Tero; Aro, Raila; Häivälä, Reetta; Suojanen, Juho; Laine, Mikael; Erawijattari, Pande; Lahti, Leo; Karihtala, Peeter; Ruuska, Terhi S.; Reunanen, Justus
    (
    A1 Refereed original research article in a scientific journal)


  • Gut microbiota-derived extracellular vesicles form a distinct entity from gut microbiota  (2025)  
    • MSystems
     Kaisanlahti, Anna; Turunen, Jenni; Hekkala, Jenni; Mishra, Surbhi; Karikka, Sonja; Amatya, Sajeen Bahadur; Paalanne, Niko; Kruger, Johanna; Portaankorva, Anne M.; Koivunen, Jussi; Jukkola, Arja; Vihinen, Pia; Auvinen, Päivi; Leppä, Sirpa; Karihtala, Peeter; Koivukangas, Vesa; Hukkanen, Janne; Vainio, Seppo; Samoylenko, Anatoliy; Bart, Genevieve; Lahti, Leo; Reunanen, Justus; Tejesvi, Mysore V.; Ruuska-Loewald, Terhi
    (
    A1 Refereed original research article in a scientific journal)


  • iSEEtree: interactive explorer for hierarchical data  (2025)  
    • Bioinformatics Advances
     Benedetti, Giulio; Seraidarian, Ely; Pralas, Theotime; Jeba, Akewak; Borman, Tuomas; Lahti, Leo
    (
    A1 Refereed original research article in a scientific journal)


  • Learning and teaching biological data science in the Bioconductor community  (2025)  
    • PLoS Computational Biology
     Drnevich, Jenny; Tan, Frederick J.; Almeida-Silva, Fabricio; Castelo, Robert; Culhane, Aedin C.; Davis, Sean; Doyle, Maria A.; Geistlinger, Ludwig; Ghazi, Andrew R.; Holmes, Susan; Lahti, Leo; Mahmoud, Alexandru; Nishida, Kozo; Ramos, Marcel; Rue-Albrecht, Kevin; Shih, David J. H.; Gatto, Laurent; Soneson, Charlotte
    (
    A2 Refereed review article in a scientific journal )


  • Links between gut microbiota with specific serum metabolite groups in pregnant women with overweight or obesity  (2025)  
    • Nutrition, Metabolism and Cardiovascular Diseases
     Lotankar, Mrunalini; Houttu, Noora; Benchraka, Chouaib; Lahti, Leo; Laitinen, Kirsi
    (
    A1 Refereed original research article in a scientific journal)


  • Maternal pre- and postnatal stress and maternal and infant gut microbiota features  (2025)  
    • Psychoneuroendocrinology
     Eckermann, Henrik; Lustermans, Hellen; Pärnänen, Katariina; Lahti, Leo; de Weerth, Carolina
    (
    A1 Refereed original research article in a scientific journal)


  • Perinatal depressive and anxiety symptoms are associated with gut microbiota in pregnant women with overweight and obesity  (2025)  
    • Brain, Behavior, & Immunity - Health
     Hieta, Janina; Benchraka, Chouaib; Pärnänen, Katariina; Houttu, Noora; Mokkala, Kati; Lotankar, Mrunalini; Kataja, Eeva-Leena; Lahti, Leo; Laitinen, Kirsi
    (
    A1 Refereed original research article in a scientific journal)


  • Skin microbiota variation in Indian families  (2025)  
    • PeerJ
     Potbhare, Renuka; RaviKumar, Ameeta; Munukka, Eveliina; Lahti, Leo; Ashma, Richa
    (
    A1 Refereed original research article in a scientific journal)


  • Variation and prognostic potential of the gut antibiotic resistome in the FINRISK 2002 cohort  (2025)  
    • Nature Communications
     Pärnänen, Katariina; Ruuskanen, Matti O.; Sommeria-Klein, Guilhem; Laitinen, Ville; Kantanen, Pyry; Méric, Guillaume; Gazolla Volpiano, Camila; Inouye, Michael; Knight, Rob; Salomaa, Veikko; Havulinna, Aki S.; Niiranen, Teemu; Lahti, Leo
    (
    A1 Refereed original research article in a scientific journal)


  • A cohort study in family triads : impact of gut microbiota composition and early life exposures on intestinal resistome during the first two years of life  (2024)  
    • Gut Microbes
     Jokela, Roosa; Pärnänen, Katariina MM; Ponsero, Alise J; Lahti, Leo; Kolho, Kaija-Leena; de Vos, Willem M; Salonen, Anne
    (
    A1 Refereed original research article in a scientific journal)


  • A concept for international societally relevant microbiology education and microbiology knowledge promulgation in society  (2024)  
    • Microbial Biotechnology
     Timmis, Kenneth; Hallsworth, John E.; McGenity, Terry J.; Armstrong, Rachel; Colom, María Francisca; Karahan, Zeynep Ceren; Chavarría, Max; Bernal, Patricia; Boyd, Eric S.; Ramos, Juan Luis; Kaltenpoth, Martin; Pruzzo, Carla; Clarke, Gerard; López-Garcia, Purificación; Yakimov, Michail M.; Perlmutter, Jessamyn; Greening, Chris; Eloe-Fadrosh, Emiley; Verstraete, Willy; Nunes, Olga C.; Kotsyurbenko, Oleg; Nikel, Pablo Iván; Scavone, Paola; Häggblom, Max M.; Lavigne, Rob; Le Roux, Frédérique; Timmis, James K.; Parro, Victor; Michán, Carmen; García, José Luis; Casadevall, Arturo; Payne, Shelley M.; Frey, Joachim; Koren, Omry; Prosser, James I.; Lahti, Leo; Lal, Rup; Anand, Shailly; Sood, Utkarsh; Offre, Pierre; Bryce, Casey C.; Mswaka, Allen Y.; Jores, Jörg; Kaçar, Betül; Blank, Lars Mathias; Maaßen, Nicole; Pope, Phillip B.; Banciu, Horia L.; Armitage, Judith; Lee, Sang Yup; Wang, Fengping; Makhalanyane, Thulani P.; Gilbert, Jack A.; Wood, Thomas K.; Vasiljevic, Branka; Soberón, Mario; Udaondo, Zulema; Rojo, Fernando; Tamang, Jyoti Prakash; Giraud, Tatiana; Ropars, Jeanne; Ezeji, Thaddeus; Müller, Volker; Danbara, Hirofume; Averhoff, Beate; Sessitsch, Angela; Partida-Martínez, Laila Pamela; Huang, Wei; Molin, Søren; Junier, Pilar; Amils, Ricardo; Wu, Xiao-Lei; Ron, Eliora; Erten, Huseyin; de Martinis, Elaine Cristina Pereira; Rapoport, Alexander; Öpik, Maarja; Pokatong, W. Donald R.; Stairs, Courtney; Amoozegar, Mohammad Ali; Serna, Jéssica Gil
    (
    B1 Non-refereed article in a scientific journal)


  • Algorithm 1047: FdeSolver, a Julia Package for Solving Fractional Differential Equations  (2024)  
    • ACM Transactions on Mathematical Software
     Khalighi, Moein; Benedetti, Giulio; Lahti, Leo
    (
    A1 Refereed original research article in a scientific journal)



Last updated on 2024-24-09 at 08:08