Leo Lahti
 Professor


leo.lahti@utu.fi

+358 29 450 2390

+358 50 436 4626

Vesilinnantie 5

Turku

Office: 452E


ORCID identifier: https://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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  • Aberrations in the early pregnancy serum metabolic profile in women with prediabetes at two years postpartum  (2023)  
    • Metabolomics
     Muhli Ella, Benchraka Chouaib, Lotankar Mrunalini, Houttu Noora, Niinikoski Harri, Lahti Leo, Laitinen Kirsi
    (    A1 Refereed original research article in a scientific journal)


  • Advancing microbiome research with machine learning: key findings from the ML4Microbiome COST action  (2023)  
    • Frontiers in microbiology
     D'Elia D, Truu J, Lahti L, Berland M, Papoutsoglou G, Ceci M, Zomer A, Lopes MB, Ibrahimi E, Gruca A, Nechyporenko A, Frohme M, Klammsteiner T, Pau ECS, Marcos-Zambrano LJ, Hron K, Pio G, Simeon A, Suharoschi R, Moreno-Indias I, Temko A, Nedyalkova M, Apostol ES, Truică CO, Shigdel R, Telalović JH, Bongcam-Rudloff E, Przymus P, Jordamović NB, Falquet L, Tarazona S, Sampri A, Isola G, Pérez-Serrano D, Trajkovik V, Klucar L, Loncar-Turukalo T, Havulinna AS, Jansen C, Bertelsen RJ, Claesson MJ
    (    A1 Refereed original research article in a scientific journal)


  • A toolbox of machine learning software to support microbiome analysis  (2023)  
    • Frontiers in microbiology
     Marcos-Zambrano L.J., López-Molina V.M., Bakir-Gungor B., Frohme M., Karaduzovic-Hadziabdic K., Klammsteiner T., Ibrahimi E., Lahti L., Loncar-Turukalo T., Dhamo X., Simeon A., Nechyporenko A., Pio G., Przymus P., Sampri A., Trajkovik V., Lacruz-Pleguezuelos B., Aasmets O., Araujo R., Anagnostopoulos I., Aydemir Ö., Berland M., Calle M.L., Ceci M., Duman H., Gündoğdu A., Havulinna A.S., Kaka Bra K.H.N., Kalluci E., Karav S., Lode D., Lopes M.B., May P., Nap B., Nedyalkova M., Paciência I., Pasic L., Pujolassos M., Shigdel R., Susín A., Thiele I., Truică C.O., Wilmes P., Yilmaz E., Yousef M., Claesson M.J., Truu J., Carrillo de Santa Pau E.
    (    A2 Refereed review article in a scientific journal )


  •   (2023)  
    • Nature Biotechnology
     McDonald D., Jiang Y., Balaban M., Cantrell K., Zhu Q., Gonzalez A., Morton J.T., Nicolaou G., Parks D.H., Karst S.M., Albertsen M., Hugenholtz P., DeSantis T., Song S.J., Bartko A., Havulinna A.S., Jousilahti P., Cheng S., Inouye M., Niiranen T., Jain M., Salomaa V., Lahti L., Mirarab S., Knight R.
    (    Other publication)


  •   (2023)  
    • BioinformaticsFrontiers in microbiology
     Feldner-Busztin Dylan, Nisantzis Panos F., Edmunds Shelley J., Boza Gergely, Racimo Fernando, Gopalakrishnan Shyam, Limborg Morten T., Lahti Leo, de Polavieja Gonzalo G.
    (    A2 Refereed review article in a scientific journal )


  • Ebola epidemic model with dynamic population and memory  (2023)  
    • Chaos, Solitons and FractalsMicrobiome
     Ndaïrou Faïçal, Khalighi Moein, Lahti Leo
    (    A1 Refereed original research article in a scientific journal)


  • Gut microbiome and atrial fibrillation: results from a large population-based study  (2023)  
    • EBioMedicine
     Palmu Joonatan, Börschel Christin S., Ortega-Alonso Alfredo, Markó Lajos, Inouye Michael, Jousilahti Pekka, Salido Rodolfo A., Sanders Karenina, Brennan Caitriona, Humphrey Gregory C., Sanders Jon G., Gutmann Friederike, Linz Dominik, Salomaa Veikko, Havulinna Aki S., Forslund Sofia K., Knight Rob, Lahti Leo, Niiranen Teemu, Schnabel Renate B.
    (    A1 Refereed original research article in a scientific journal)


  • Gut microbiota composition and function in pregnancy as determinants of prediabetes at two-year postpartum  (2023)  
    • Acta Diabetologica
     Houttu Noora, Benchraka Chouaib, Lotankar Mrunalini, Muhli Ella, Niinikoski Harri, Lahti Leo, Laitinen Kirsi
    (    A1 Refereed original research article in a scientific journal)


  • Impacts of maternal microbiota and microbial metabolites on fetal intestine, brain, and placenta  (2023)  
    • BMC Biology
     Husso Aleksi, Pessa-Morikawa Tiina, Koistinen Ville Mikael, Kärkkäinen Olli, Kwon Hyuk Nam, Lahti Leo, Iivanainen Antti, Hanhineva Kati, Niku Mikael
    (    A1 Refereed original research article in a scientific journal)


  • Machine learning approaches in microbiome research: challenges and best practices  (2023)  
       Papoutsoglou Georgios, Tarazona Sonia, Lopes Marta B., Klammsteiner Thomas, Ibrahimi Eliana, Eckenberger Julia, Novielli Pierfrancesco, Tonda Alberto, Simeon Andrea, Shigdel Rajesh, Béreux Stéphane, Vitali Giacomo, Tangaro Sabina, Lahti Leo, Temko Andriy, Claesson Marcus J., Berland Magali
      (      A2 Refereed review article in a scientific journal )


    • Maternal microbiota communicates with the fetus through microbiota-derived extracellular vesicles  (2023)  
         Kaisanlahti Anna, Turunen Jenni, Byts Nadiya, Samoylenko Anatoliy, Bart Genevieve, Virtanen Nikke, Tejesvi V. Mysore, Zhyvolozhnyi Artem, Sarfraz Sonia, Kumpula Sohvi, Hekkala Jenni, Salmi Sonja, Will Olga, Korvala Johanna, Paalanne Niko, Erawijantari Putu Pande, Suokas Marko, Medina Peñate Tuula, Vainio Seppo, Medina Peñate Oula, Lahti Leo, Tapiainen Terhi, Reunanen Justus
        (        A1 Refereed original research article in a scientific journal)


      • miaSim: an R/Bioconductor package to easily simulate microbial community dynamics  (2023)  
        • Methods in Ecology and Evolution
         Gao Yu, Şimşek Yağmur, Gheysen Emma, Borman Tuomas, Li Yi, Lahti Leo, Faust Karoline, Garza Daniel Rios
        (        A1 Refereed original research article in a scientific journal)


      • Microbiome-based risk prediction in incident heart failure: a community challenge  (2023)   Erawijantari PP, Kartal E, Liñares-Blanco J, Laajala TD, Feldman LE, Carmona-Saez P, Shigdel R, Claesson MJ, Bertelsen RJ, Gomez-Cabrero D, Minot S, Albrecht J, Chung V, Inouye M, Jousilahti P, Schultz JH, Friederich HC, Knight R, Salomaa V, Niiranen T, Havulinna AS, Saez-Rodriguez J, Levinson RT, Lahti L; FINRISK Microbiome DREAM Challenge and ML4 Microbiome Communities
        (        Other publication)


      • The gut microbiome is a significant risk factor for future chronic lung disease  (2023)  
        • Journal of Allergy and Clinical ImmunologyNature Genetics
         Liu Yang, Teo Shu Mei, Méric Guillaume, Tang Howard H.F., Zhu Qiyun, Sanders Jon G., Vázquez-Baeza Yoshiki, Verspoor Karin, Vartiainen Ville A., Jousilahti Pekka, Lahti Leo, Niiranen Teemu, Havulinna Aki S., Knight Rob, Salomaa Veikko, Inouye Michael
        (        A1 Refereed original research article in a scientific journal)


      • The preterm gut microbiota and administration routes of different probiotics: a randomized controlled trial  (2023)  
        • Pediatric ResearchJournal of Hypertension
         Rahkola Ella-Noora, Rautava Samuli, Hiltunen Henni, Ross Chandler, Lahti Leo, Isolauri Erika
        (        A1 Refereed original research article in a scientific journal)


      • What are patterns of rise and decline?  (2023)  
        • Royal Society Open Science
         Raulo Aura, Rojas Alexis, Kröger Björn, Laaksonen Antti, Orta Carlos Lamuela, Nurmio Silva, Peltoniemi Mirva, Lahti Leo, Žliobaitė Indrė
        (        A2 Refereed review article in a scientific journal )


      • An Infancy-Onset 20-Year Dietary Counselling Intervention and Gut Microbiota Composition in Adulthood  (2022)  
        • Nutrients
         Keskitalo Anniina, Munukka Eveliina, Aatsinki Anna, Saleem Wisam, Kartiosuo Noora, Lahti Leo, Huovinen Pentti, Elo Laura L, Pietilä Sami, Rovio Suvi P, Niinikoski Harri, Viikari Jorma, Rönnemaa Tapani, Lagström Hanna, Jula Antti, Raitakari Olli, Pahkala Katja
        (        A1 Refereed original research article in a scientific journal)


      • Can gut microbiota throughout the first 10 years of life predict executive functioning in childhood?  (2022)  
        • Developmental Psychobiology
         Eckermann Henrik Andreas, Ou Yangwenshan, Lahti Leo, de Weerth Carolina
        (        A1 Refereed original research article in a scientific journal)


      • Combined effects of host genetics and diet on human gut microbiota and incident disease in a single population cohort  (2022)  
           Qin Youwen, Havulinna Aki S., Liu Yang, Jousilahti Pekka, Ritchie Scott C., Tokolyi Alex, Sanders Jon G., Valsta Liisa, Brozynska Marta, Zhu Qiyun, Tripathi Anupriya, Vázquez-Baeza Yoshiki, Loomba Rohit, Cheng Susan, Jain Mohit, Niiranen Teemu, Lahti Leo, Knight Rob, Salomaa Veikko, Inouye Michael, Méric Guillaume
          (          A1 Refereed original research article in a scientific journal)


        • Comprehensive biomarker profiling of hypertension in 36 985 Finnish individuals  (2022)  
             Palmu Joonatan, Tikkanen Emmi, Havulinna Aki S, Vartiainen Erkki, Lundqvist Annamari, Ruuskanen Matti O, Perola Markus, Ala-Korpela Mika, Jousilahti Pekka, Würtz Peter, Salomaa Veikko, Lahti Leo, Niiranen Teemu
            (            A1 Refereed original research article in a scientific journal)



          Last updated on 24/09/2024 08:08:10 AM