Publications

The complete bibliography is available in BibTex. You can find most papers and other outputs from here, or just ask by email.

For code, data, and audiovisual material see the separate code and media pages.

Selected papers

  1. Signatures of ecological processes in microbial community time series. Karoline Faust, Franziska Bauchinger, Beatrice Laroche, Sophie de Buyl, Leo Lahti, Alex D Washburne, Didier Gonze, and Stefanie Widder. Microbiome, 6(120) 2018. | doi | pdf
  2. Alchemy & algorithms: perspectives on the philosophy and history of open science. Leo Lahti, Filipe da Silva, Markus Petteri Laine, Viivi Lähteenoja, and Mikko Tolonen. RIO Journal, 3:e13593, 2017. Review of the international conference, including electronic material (video interviews, lectures and podcasts. | doi | pdf
  3. Multi-stability and the origin of microbial community types. Karoline Faust, Didier Gonze, Leo Lahti, and Jeroen Raes. ISME Journal, 11:2159–2166, 2017. | doi | pdf
  4. Linking statistical and ecological theory: Hubbell’s unified neutral theory of biodiversity as a hierarchical Dirichlet process. Keith Harris, Todd L Parsons, Umer Z Ijaz, Leo Lahti, Ian Holmes, and Christopher Quince. Proceedings of the IEEE, 105(3):516–529, 2017. | doi | pdf
  5. Metagenomics meets time series analysis: unraveling microbial community dynamics. Karoline Faust, Leo Lahti, Didier Gonze, Willem M de Vos, and Jeroen Raes. Current Opinion in Microbiology, 25:56–66, 2015. | doi | pdf
  6. Fat, Fiber and Cancer Risk in African, Americans and Rural Africans. SJD O’Keefe, JV Li, L Lahti, J Ou, F Carbonero, K Mohammed, JM Posma, J Kinross, E Wahl, E Ruder, K Vipperla, V Naidoo, L Mtshali, S Tims, J DeLany PGB Puylaert, A Krasinskas, AC Benefiel, HO Kaseb, K Newton, JK Nicholson, WM de Vos, HR Gaskins, and EG Zoetendal. Nature Communications, 6:6342, 2015. Top science article in Guardian on the release day. | doi | pdf
  7. Binning metagenomic contigs by coverage and composition. Johannes Alneberg, Brynjar Smári Bjarnason, Ino de Bruijn, Melanie Schirmer, Joshua Quick, Umer Z Ijaz, Leo Lahti, Nicholas J Loman, Anders F Andersson, and Christopher Quince. Nature Methods, 11(1144–1146) 2014. CONCOCT algorithm | doi | pdf
  8. Tipping elements in the human intestinal ecosystem. Leo Lahti, Jarkko Salojärvi, Anne Salonen, Marten Scheffer, and Willem M. de Vos. Nature Communications, 5:4344, 2014. | doi | pdf

Computational biosciences

  1. A Quantitative Approach to Book-Printing in Sweden and Finland, 1640–1828. Hege Roivainen Mikko Tolonen Leo Lahti and Jani Marjanen. Historical Methods, 2018. In press. | doi
  2. Open Data Science. In: Leo Lahti. Advances in Intelligent Data Analysis XVII. Lecture Notes in Computer Science 11191., Springer Nature, India, 2018. Conference proceedings. | pdf
  3. A hierarchical Ornstein-Uhlenbeck model for stochastic time series analysis. In: Ville Laitinen and Leo Lahti. Advances in Intelligent Data Analysis XVII. Lecture Notes in Computer Science 11191., Springer, India, 2018. Conference proceedings. | URL | pdf
  4. Microbial communities as dynamical systems. Didier Gonze, Katharine Z Coyte, Leo Lahti, and KarolinecFaus. Current Opinion in Microbiology, 44:41–49, 2018. | doi | URL
  5. Stool Microbiota Composition Differs in Patients with Stomach, Colon, and Rectal Neoplasms. Omar Youssef, Leo Lahti, Arto Kokkola, Tiina Karla, Milja Tikkanen, Homa Ehsan, Monika Carpelan‑Holmström, Selja Koskensalo, Tom Böhling, Hilpi Rautelin, Pauli Puolakkainen, Sakari Knuutila, and Virinder Sarhadi. Digestive Diseases and Sciences, 2018. | doi | pdf
  6. Gut Microbiota Composition in Mid-Pregnancy Is Associated with Gestational Weight Gain but Not Prepregnancy Body Mass Index. Anna-Katariina Aatsinki, Henna-Maria Uusitupa, Eveliina Munukka, Henri Pesonen, Anniina Rintala, Sami Pietilä, Leo Lahti, Erkki Eerola, Linnea Karlsson, and Hasse Karlsson. Journal of Womens Health, 2018. Epub ahead of print. | doi
  7. Stability estimation of autoregulated genes under Michaelis-Menten type kinetics. Babak M. S. Arani, Mahdi Mahmoudi, Leo Lahti, Javier González, and Ernst C. Wit. Physical Review E, 97(6):062407, 2018. | doi | URL | pdf
  8. Opening academic publishing: development and application of systematic evaluation criteria. Anna Björk, Juho-Matti Paavolainen, Teemu Ropponen, Mikael Laakso, and Leo Lahti. Open Science and Research Initiative (ATT) 2018. Report on the openness of major scientific publishers commissioned by Finnish Ministry of Education and Culture | URL | pdf
  9. Comparative gut microbiota and resistome profiling of intensive care patients receiving selective digestive tract decontamination and healthy subjects. Elena Buelow, Teresita d.J. Bello González, Susana Fuentes, Wouter A.A. de Steenhuijsen Piters, Leo Lahti, Jumamurat R. Bayjanov, Eline A.M. Majoor, Johanna C. Braat, Maaike S. van Mourik, Evelien A.N. Oostdijk, Rob J.L. Willems, Marc J.M. Bonten, Mark W.J. van Passel, Hauke Smidt, and Willem van Schaik. Microbiome, 5(1):88, 2017. | doi | pdf
  10. Intestinal microbiome landscaping: Insight in community assemblage and implications for microbial modulation strategies. SA Shetty, F Hugenholtz, L Lahti, H Smidt, WM de Vos, and A Danchin. FEMS Microbiology Reviews, 41(2):fuw045, 2017. | doi | pdf
  11. Improved taxonomic assignment of human intestinal 16S rRNA sequences by a dedicated reference database. Jarmo Ritari, Jarkko Salojärvi, Leo Lahti, and Willem M. de Vos. BMC Genomics, 16:1056, 2015. | doi | pdf
  12. Beyond Open Access - The Changing Culture of Producing and Disseminating Scientific Knowledge. In: Heidi Laine, Leo Lahti, Anne Lehto, Samuli Ollila, and Markus Miettinen. Proceedings of the 19th International Academic Mindtrek Conference in Tampere, Finland, September 22-24, ACM, New York, NY, USA, 2015. | URL | pdf
  13. A novel atlas of gene expression in human skeletal muscle reveals molecular changes associated with aging. Jing Su, Carl Ekman, Nikolay Oskolkov, Leo Lahti, Kristoffer Ström, Alvis Brazma, Leif Groop, Johan Rung, and and Ola Hansson. Skeletal Muscle, 5(35) 2015. | doi | pdf
  14. Impact of a wastewater treatment plant on microbial community composition and function in a hyporheic zone of a eutrophic river. Siavash Atashgahi, Rozelin Aydin, Mauricio R. Dimitrov, Detmer Sipkema, Kelly Hamonts, Leo Lahti, Farai Maphosa, Thomas Kruse, Edoardo Saccenti, Winnie Dejonghe Dirk Springael, and Hauke Smidt. Scientific Reports, 5(17284) 2015. | doi | pdf
  15. Impact of diet and individual variation on intestinal microbiota composition and fermentation products in obese men. Anne Salonen, Leo Lahti, Jarkko Salojärvi, Grietje Holtrop, Katri Korpela, Sylvia Duncan, Priya Date, Alexandra Johnstone, Gerald Lobley, Petra Louis, Harry Flint, and Willem M. de Vos. ISME Journal, 8:2218–2230, 2014. | doi | pdf
  16. Systematic Use of Computational Methods Allows Stratifying Treatment Responders in Glioblastoma Multiforme. Riku Louhimo, Viljami Aittomäki, Ali Faisal, Marko Laakso, Ping Chen, Kristian Ovaska, Erkka Valo, Leo Lahti, Vladimir Rogojin, Samuel Kaski, and Sampsa Hautaniemi. Systems Biomedicine (special issue), 1(2):130–136, 2014. Critical Assessment of Massive Data Analysis (CAMDA) workshop | doi | pdf
  17. Copy Number Alterations and Neoplasia Specific Mutations in MELK, PDCD1LG2, TLN1, and PAX5 at 9p in Different Neoplasias. Virinder Sarhadi, Leo Lahti, Ilari Scheinin, Pekka Ellonen, Eeva Kettunen, Massimo Serra, Katia Scotlandi, Pierro Picci, and Sakari Knuutila. Genes, Chromosomes and Cancer, 53(7):579–588, 2014. | doi
  18. rOpenGov: open source ecosystem for computational social sciences and digital humanities, Joona Lehtomäki Leo Lahti Juuso Parkkinen and Markus Kainu. , 2013. ICML/MLOSS workshop (Int’l Conf. on Machine Learning - Open Source Software workshop). | URL
  19. Cancer gene prioritization by integrative analysis of mRNA expression and DNA copy number data: a comparative review. Leo Lahti, Martin Schäfer, Hans-Ulrich Klein, Silvio Bicciato, and Martin Dugas. Briefings in Bioinformatics, 14(1):27–35, 2013. | doi | pdf
  20. Associations between the human intestinal microbiota, Lactobacillus rhamnosus GG and serum lipids indicated by integrated analysis of high-throughput profiling data. Leo Lahti, Anne Salonen, Riina A. Kekkonen, Jarkko Salojärvi, Jonna Jalanka-Tuovinen, Airi Palva, Matej Orešič, and Willem M. de Vos. PeerJ, 1:e32, 2013. Highly accessed, featured in PeerJ journal blog and Top-10 Microbiology collection. | doi | pdf
  21. Targeted Resequencing of 9p in Acute Lymphoblastic Leukemia Yields Concordant Results with Array CGH and Reveals Novel Genomic Alterations. Virinder Kaur Sarhadi, Leo Lahti, Ilari Scheinin, Anne Tyybäkinoja, Suvi Savola, Anu Usvasalo, Riikka Räty, Erkki Elonen, Pekka Ellonen, Ulla M Saarinen-Pihkala, and Sakari Knuutila. Genomics, 102(3):182–188, 2013. | doi | pdf
  22. Intestinal microbiota, individuality and health. In: Computational Methods Aiding Early-Stage Drug Design (Dagstuhl Seminar 13212). Leo Lahti. Dagstuhl Reports, 3(5):78–94, 2013. | doi | URL
  23. A fully scalable online pre-processing algorithm for short oligonucleotide microarray atlases. Leo Lahti, Aurora Torrente, Laura L Elo, Alvis Brazma, and Johan Rung. Nucleic Acids Research, 41(10):e110, 2013. Implementation available through Bioconductor RPA package. | doi | pdf
  24. Homozygous Deletions of Cadherin Genes in Chondrosarcoma – an Array CGH Study. Tarja Niini, Ilari Scheinin, Leo Lahti, Suvi Savola, Fredrik Mertens, Jaakko Hollmén, Tom Böhling, Aarne Kivioja, Karolin H Nord, and Sakari Knuutila. Cancer Genetics, 205(11):588–93, 2012. | doi
  25. The adult intestinal core microbiota is determined by analysis depth and health status. Anne Salonen, Jarkko Salojärvi, Leo Lahti, and and Willem M. de Vos. Clinical Microbiology and Infection, 18(Suppl. 4):16–20, 2012. | doi | pdf
  26. MicroRNA profiling predicts survival in anti-EGFR treated chemorefractory metastatic colorectal cancer patients with wild-type KRAS and BRAF. Neda Mosakhani, Leo Lahti, Ioana Borze, Marja-Liisa Karjalainen-Lindsberg, Jari Sundstrom, Raija Ristamaki, Pia Osterlund, Sakari Knuutila, and and Virinder Kaur Sarhadi. Cancer Genetics, 205(11):545–51, 2012. | doi | pdf
  27. MicroRNA profiling in pediatric acute lymphoblastic leukemia: novel prognostic tools. N Mosakhani, VK Sarhadi, A Usvasalo, ML Karjalainen-Lindsberg, L Lahti, K Tuononen, UM Saarinen-Pihkala, and S Knuutila. Leukemia & Lymphoma, 53(12):2517–2520, 2012. | doi | pdf
  28. Probabilistic Analysis of Probe Reliability in Differential Gene Expression Studies with Short Oligonucleotide Arrays. Leo Lahti, Laura L. Elo, Tero Aittokallio, and Samuel Kaski. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 8(1):217–225, 2011. | doi | pdf
  29. intcomp: a benchmarking pipeline for integrative cancer gene detection algorithms, Leo Lahti, Martin Schäfer, Hans-Ulrich Klein, Silvio Bicciato, and Martin Dugas. , 2011. R-forge | URL
  30. Intestinal microbiota in healthy adults: Temporal analysis reveals individual and common core and relation to intestinal symptoms. Jonna Jalanka-Tuovinen, Anne Salonen, Janne Nikkilä, Outi Immonen, Riina Kekkonen, Leo Lahti, Airi Palva, and Willem M. de Vos. PLoS One, 6(7):e23035, 2011. | URL | pdf
  31. Probabilistic dependency models for data integration in functional genomics, Leo Lahti and Samuel Kaski. , 2011. Machine Learning for Systems Biology workshop, ISMB, Vienna, Austria | pdf
  32. Integrative Analysis of microRNA, mRNA and aCGH Data Reveals Asbestos- and Histology-Related Changes in Lung Cancer. Penny Nymark, Mohamed Guled, Ioana Borze, Ali Faisal, Leo Lahti, Kaisa Salmenkivi, Eeva Kettunen, Sisko Anttila, and Sakari Knuutila. Genes, Chromosomes and Cancer, 50(8):585–597, 2011. | doi | pdf
  33. Array Comparative Genomic Hybridization Reveals Frequent Alterations of G1/S Checkpoint Genes in Undifferentiated Pleomorphic Sarcoma of Bone. Tarja Niini, Leo Lahti, Francesca Michelacci, Shinsuke Ninomiya, Claudia Maria Hattinger, Mohamed Guled, Tom Böhling, Piero Picci, Massimo Serra, and Sakari Knuutila. Genes, Chromosomes and Cancer, 50(5):291–306, 2011. | doi | pdf
  34. Biomarker discovery via dependency analysis of multi-view functional genomics data. In: Ali Faisal, Riku Louhimo, Leo Lahti, Sampsa Hautaniemi, and Samuel Kaski. NIPS 2011 workshop From Statistical Genetics to Predictive Models in Personalized Medicine 2011. | pdf
  35. MicroRNA microarrays on archive bone marrow core biopsies of leukemias - method validation. Ioana Borze, Mohamed Guled, Suad Musse, Anna Raunio, Erkki Elonen, Ulla Saarinen-Pihkala, Marja-Liisa Karjalainen-Lindsberg, Leo Lahti, and Sakari Knuutila. Leukemia Research, 35(2):188–195, 2011. | doi
  36. Probabilistic analysis of the human transcriptome with side information, PhD thesis, Aalto University School of Science and Technology, Faculty of Information and Natural Sciences, Department of Information and Computer Science, December 2010 Leo Lahti. . LaTeX sources and the pdf version are freely available under cc-by license at https://github.com/antagomir/thesis/tree/master/phd10 ; Press release: https://github.com/antagomir/thesis/blob/master/phd10/Vaitostiedote-LeoLahti-20101207.pdf | URL | pdf
  37. Global modeling of transcriptional responses in interaction networks. Leo Lahti, Juha E.A. Knuuttila, and Samuel Kaski. Bioinformatics, 26(21):2713–2720, 2010. R/Matlab implementations available at http://netpro.r-forge.r-project.org/ | doi | URL | pdf
  38. Unique microRNA profile in Dupuytren’s contracture supports deregulation of β-catenin pathway. Neda Mosakhani, Mohamed Guled, Leo Lahti, Ioana Borze, Minna Forsman, Jorma Ryhänen, and Sakari Knuutila. Modern Pathology, 23:1544–1522, 2010. International Dupuytren Award for best research paper in 2011 | doi | pdf
  39. Pairwise integration of functional genomics data, Olli-Pekka Huovilainen and Leo Lahti. , 2010. R/BioConductor: pint | URL
  40. Dependency modeling toolkit, Leo Lahti, Abhishek Tripathi, and Olli-Pekka Huovilainen. , 2010. CRAN: dmt | URL
  41. NetResponse (functional network analysis), Leo Lahti, Antonio Gusmao, and Olli-Pekka Huovilainen. , 2010. R/Bioconductor: netresponse | doi | URL
  42. Concerning Blackburn’s quasi-realism in securing moral discussion, Leo Lahti. , 2009. (In Finnish) | pdf
  43. RPA: probe reliability and differential gene expression analysis, Leo Lahti. , 2009. R/Bioconductor: RPA | doi | URL
  44. CDKN2A, NF2 and JUN Are Dysregulated Among Other Genes by miRNAs in Malignant Mesothelioma - a miRNA Microarray Analysis. Mohamed Guled, Leo Lahti, Pamela M. Lindholm, Kaisa Salmenkivi, Izhar Bagwan, Andrew G. Nicholson, and Sakari Knuutila. Genes, Chromosomes and Cancer, 48(7):615–623, 2009. | doi | pdf
  45. Dependency detection with similarity constraints. In: Adali T, J.C., Chanussot J and J, L. (eds.) Leo Lahti, Samuel Myllykangas, Sakari Knuutila, and Samuel Kaski. Proc. MLSP’09 IEEE International Workshop on Machine Learning for Signal Processing XIX, pp. 198–203, software, Piscataway, NJ, 2009. R/Bioconductor: pint | URL | pdf
  46. A brief overview on the BioPAX and SBML standards, Leo Lahti. , 2007. (in Finnish) | URL
  47. Gene Expression Profiles in Asbestos-exposed Epithelial and Mesothelial Lung Cell Lines. Penny Nymark, Pamela M. Lindholm, Mikko V. Korpela, Leo Lahti, Salla Ruosaari, Samuel Kaski, Jaakko Hollmen, Sisko Anttila, Vuokko L. Kinnula, and Sakari Knuutila. BMC Genomics, 8(62) 2007. | doi
  48. Integrating probe-level expression changes across generations of Affymetrix arrays. Laura L. Elo, Leo Lahti, Heli Skottman, Minna Kyläniemi, Riitta Lahesmaa, and Tero Aittokallio. Nucleic Acids Research, 33(22):e193, 2005. | doi | pdf
  49. Associative clustering for exploring dependencies between functional genomics data sets. Samuel Kaski, Janne Nikkilä, Janne Sinkkonen, Leo Lahti, Juha Knuuttila, and Christophe Roos. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2(3):203–216, 2005. Special Issue on Machine Learning for Bioinformatics – Part 2 | doi | pdf
  50. Associative Clustering (AC): Technical Details. Janne Sinkkonen, Samuel Kaski, Janne Nikkilä, and Leo Lahti. Helsinki University of Technology, Espoo, Finland 2005. Publications in Computer and Information Science | pdf
  51. Associative Clustering. Janne Sinkkonen, Janne Nikkilä, Leo Lahti, and Samuel Kaski. Springer, Berlin 2004. | URL | pdf
  52. Exploring dependencies in the expression of orthologous man-mouse gene pairs, Leo Lahti, Juha Knuuttila, Janne Nikkilä, and Samuel Kaski. , 2004. In Bioinformatics 2004, Linköping, Sweden, 6 3-6, 2004. A poster.
  53. Comparative functional genome analysis using associative clustering, Master's thesis, Helsinki University of Technology, December 2003 Leo Lahti. . (in Finnish) | URL | pdf
  54. Associative Clustering by Maximizing a Bayes Factor. Janne Sinkkonen, Janne Nikkilä, Leo Lahti, and Samuel Kaski. Helsinki University of Technology, Laboratory of Computer and Information Science, Espoo, Finland 2003. | pdf
  55. Itsesimilaaristen joukkojen Hausdorffin dimension määrittäminen, Leo Lahti. , 2002. Special assignment in Mathematics (in Finnish) | URL
  56. Julian joukko iteraatioden valuma-altaan reunana, Leo Lahti. , 2001. Special assignment in Mathematics (in Finnish) | URL
  57. Louhos blog, Leo Lahti, Joona Lehtomäki, Juuso Parkkinen, and others. . Open government data analytics blog (in Finnish) | URL
  58. rOpenGov blog, Leo Lahti, Joona Lehtomäki, Markus Kainu, Juuso Parkkinen, and others. . Open government data analytics blog | URL
  59. opencomp blog, Leo Lahti. . | URL

Digital humanities and computational social science

  1. Digitaaliset ihmistieteet ja historiantutkimus. Mikko Tolonen and Leo Lahti. 2018. (in Finnish). In: Hannikainen, MO and Danielsbacka, M and Tepora, T (eds.). Menneisyyden rakentajat. Gaudeamus, Helsinki, 2018. | URL
  2. Retrieval and Analysis of Eurostat Open Data with the eurostat Package. Leo Lahti, Janne Huovari, Markus Kainu, and Przemysław Biecek. The R Journal, 9(1):385–392, 2017. | URL | pdf
  3. Aatehistoria ja digitaalisten aineistojen mahdollisuudet. Mikko Tolonen and Leo Lahti. Ennen & Nyt 2, 2 2015. | URL | pdf
  4. A quantitative study of history in the English short-title catalogue (ESTC) 1470-1800. Leo Lahti, Niko Ilomäki, and Mikko Tolonen. LIBER Quarterly, 25(2):87–116, 2015. | doi | pdf

Open science

  1. Open Data Science. In: Leo Lahti. Advances in Intelligent Data Analysis XVII. Lecture Notes in Computer Science 11191., Springer Nature, India, 2018. Conference proceedings. | pdf
  2. Turun yliopiston avoimen tutkimuksen politiikka / Open Research Policy. University of Turku. 2018. (in Finnish) | URL | pdf
  3. Opening academic publishing: development and application of systematic evaluation criteria. Anna Björk, Juho-Matti Paavolainen, Teemu Ropponen, Mikael Laakso, and Leo Lahti. Open Science and Research Initiative (ATT) 2018. Report on the openness of major scientific publishers commissioned by Finnish Ministry of Education and Culture | URL | pdf
  4. Beyond Open Access - The Changing Culture of Producing and Disseminating Scientific Knowledge. In: Heidi Laine, Leo Lahti, Anne Lehto, Samuli Ollila, and Markus Miettinen. Proceedings of the 19th International Academic Mindtrek Conference in Tampere, Finland, September 22-24, ACM, New York, NY, USA, 2015. | URL | pdf
  5. The Open Science Peer Review Oath. Jelena Aleksic, Adrian Alexa, Teresa K Attwood, Neil Chue Hong, Martin Dahlö, Robert Davey, Holger Dinkel, Konrad U Förstner, Ivo Grigorov, Jean-Karim Hériché, Leo Lahti, Dan MacLean, Michael L Markie, Jenny Molloy, Maria Victoria Schneider, Camille Scott, Richard Smith-Unna, and Bruno Miguel Vieira. F1000Research, 3:271, 2015. AllBio: Open Science & Reproducibility Best Practice Workshop | doi

Theses and assignments

For source material (LaTeX code, figures etc.) of these theses, see Github.

  1. Probabilistic analysis of the human transcriptome with side information, PhD thesis, Aalto University School of Science and Technology, Faculty of Information and Natural Sciences, Department of Information and Computer Science, December 2010 Leo Lahti. . LaTeX sources and the pdf version are freely available under cc-by license at https://github.com/antagomir/thesis/tree/master/phd10 ; Press release: https://github.com/antagomir/thesis/blob/master/phd10/Vaitostiedote-LeoLahti-20101207.pdf | URL | pdf
  2. Concerning Blackburn’s quasi-realism in securing moral discussion, Leo Lahti. , 2009. (In Finnish) | pdf
  3. A brief overview on the BioPAX and SBML standards, Leo Lahti. , 2007. (in Finnish) | URL
  4. Comparative functional genome analysis using associative clustering, Master's thesis, Helsinki University of Technology, December 2003 Leo Lahti. . (in Finnish) | URL | pdf
  5. Itsesimilaaristen joukkojen Hausdorffin dimension määrittäminen, Leo Lahti. , 2002. Special assignment in Mathematics (in Finnish) | URL
  6. Julian joukko iteraatioden valuma-altaan reunana, Leo Lahti. , 2001. Special assignment in Mathematics (in Finnish) | URL

Technical reports and outreach

  1. Associative Clustering (AC): Technical Details. Janne Sinkkonen, Samuel Kaski, Janne Nikkilä, and Leo Lahti. Helsinki University of Technology, Espoo, Finland 2005. Publications in Computer and Information Science | pdf
  2. Associative Clustering by Maximizing a Bayes Factor. Janne Sinkkonen, Janne Nikkilä, Leo Lahti, and Samuel Kaski. Helsinki University of Technology, Laboratory of Computer and Information Science, Espoo, Finland 2003. | pdf
  1. Microbiome Yarns: human biome reproduction, evolution and visual acuity. Kenneth Timmis, Franziska Jebok, Manfred Molinari Gabriellaand Rohde, and Leo Lahti. Microbial Biotechnology, 11(1):149–159, 2018. Comics piece for the popularization of microbiome research. | doi
  1. Spheres of “public” in eighteenth-century Britain. In: Mark J Hill, Antti Kanner, Jani Marjanen, Ville Vaara, Eetu Mäkelä, Leo Lahti, and Mikko Tolonen. Prodeedings of the Digital Humanities in the Nordics Conference, , Helsinki, Finland, 2018.
  2. Printing in a Periphery: a Quantitative Study of Finnish Knowledge Production, 1640-1828. In: Mikko Tolonen, Niko Ilomäki, Hege Roivainen, and Leo Lahti. Digital Humanities 2016: Conference Abstracts, pp. 383–385, Jagiellonian University & Pedagogical University, Kraków, Krakow, Poland, 2016. | URL
  3. Intestinal microbiota, individuality and health. In: Computational Methods Aiding Early-Stage Drug Design (Dagstuhl Seminar 13212). Leo Lahti. Dagstuhl Reports, 3(5):78–94, 2013. | doi | URL
  4. Biomarker discovery via dependency analysis of multi-view functional genomics data. In: Ali Faisal, Riku Louhimo, Leo Lahti, Sampsa Hautaniemi, and Samuel Kaski. NIPS 2011 workshop From Statistical Genetics to Predictive Models in Personalized Medicine 2011. | pdf
  5. Associative Clustering. Janne Sinkkonen, Janne Nikkilä, Leo Lahti, and Samuel Kaski. Springer, Berlin 2004. | URL | pdf