Research output per year
Research output per year
Personal profile
Artistic and research interests
I work on computational biology and probabilistic machine learning with applications in biomedicine.
Expertise related to UN Sustainable Development Goals
In 2015, UN member states agreed to 17 global Sustainable Development Goals (SDGs) to end poverty, protect the planet and ensure prosperity for all. This person’s work contributes towards the following SDG(s):
Keywords
- Computational biology
- Machine learning
- Deep generative models
- Bioinformatics
- Artificial intelligence
- Probabilistic modelling
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Network
Recent external collaboration on country/territory level. Dive into details by clicking on the dots or
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Early DNA methylation changes in children developing beta cell autoimmunity at a young age
Starskaia, I., Laajala, E., Grönroos, T., Härkönen, T., Junttila, S., Kattelus, R., Kallionpää, H., Laiho, A., Suni, V., Tillmann, V., Lund, R., Elo, L. L., Lähdesmäki, H., Knip, M., Kalim, U. U. & Lahesmaa, R., May 2022, In: Diabetologia. 65, 5, p. 844-860 17 p.Research output: Contribution to journal › Article › Scientific › peer-review
Open AccessFile6 Downloads (Pure) -
LuxRep: a technical replicate-aware method for bisulfite sequencing data analysis
Malonzo, M. H., Halla-aho, V., Konki, M., Lund, R. J. & Lähdesmäki, H., Dec 2022, In: BMC Bioinformatics. 23, 1, p. 1-19 19 p., 41.Research output: Contribution to journal › Article › Scientific › peer-review
Open AccessFile11 Downloads (Pure) -
PairGP: Gaussian process modeling of longitudinal data from paired multi-condition studies
Vantini, M., Mannerström, H., Rautio, S., Ahlfors, H., Stockinger, B. & Lähdesmäki, H., Apr 2022, In: COMPUTERS IN BIOLOGY AND MEDICINE. 143, p. 1-7 7 p., 105268.Research output: Contribution to journal › Article › Scientific › peer-review
Open AccessFile12 Downloads (Pure) -
Permutation-based significance analysis reduces the type 1 error rate in bisulfite sequencing data analysis of human umbilical cord blood samples
Laajala, E., Halla-aho, V., Grönroos, T., Kalim, U. U., Vähä-Mäkilä, M., Nurmio, M., Kallionpää, H., Lietzén, N., Mykkänen, J., Rasool, O., Toppari, J., Orešič, M., Knip, M., Lund, R., Lahesmaa, R. & Lähdesmäki, H., 6 Mar 2022, (E-pub ahead of print) In: Epigenetics. 20 p.Research output: Contribution to journal › Article › Scientific › peer-review
Open Access -
Probabilistic modeling methods for cell-free DNA methylation based cancer classification
Halla-aho, V. & Lähdesmäki, H., 4 Apr 2022, In: BMC Bioinformatics. 23, 1, 24 p., 119.Research output: Contribution to journal › Article › Scientific › peer-review
Open AccessFile9 Downloads (Pure)
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Immunoregulation and Therapeutic Precision in Rheumatoid Arthritis
Lähdesmäki, H., Jokinen, E., Halla-aho, V., Dumitrescu, A., Lankinen, A. & Osmala, M.
01/01/2021 → 31/12/2022
Project: Academy of Finland: Other research funding
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Bridging the Reality Gap in Autonomous Learning
Lähdesmäki, H., Iakovlev, V., Laajala, E., Korpela, D. & Jokinen, E.
01/01/2020 → 31/12/2022
Project: Academy of Finland: Other research funding
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FCAI: Finnish Center for Artificial Intelligence (FCAI)
01/01/2019 → 31/12/2022
Project: Academy of Finland: Other research funding
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Immunoregulation and Therapeutic Precision in Rheumatoid Arthritis
Jokinen, E., Lähdesmäki, H., Osmala, M., Somani, J. & Dumitrescu, A.
01/01/2018 → 31/12/2020
Project: Academy of Finland: Other research funding
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FGCI: Finnish Grid and Cloud Infrastructure Stage 2 : enabling data sciences
01/01/2018 → 31/12/2019
Project: Academy of Finland: Other research funding
Datasets
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A probabilistic generative model for quantification of DNA modifications enables analysis of demethylation pathways
Äijö, T. (Contributor), Huang, Y. (Contributor), Mannerström, H. (Contributor), Chavez, L. (Contributor), Tsagaratou, A. (Contributor), Rao, A. (Contributor) & Lähdesmäki, H. (Contributor), 1 Jan 2016
DOI: 10.6084/m9.figshare.c.3604346.v1, https://figshare.com/collections/A_probabilistic_generative_model_for_quantification_of_DNA_modifications_enables_analysis_of_demethylation_pathways/3604346/1
Dataset
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Analyzing Th17 cell differentiation dynamics using a novel integrative modeling framework for time-course RNA sequencing data
Intosalmi, J. (Contributor), Ahlfors, H. (Contributor), Rautio, S. (Contributor), Mannerström, H. (Creator), Chen, Z. (Contributor), Lahesmaa, R. (Contributor), Stockinger, B. (Contributor) & Lähdesmäki, H. (Contributor), 1 Jan 2015
DOI: 10.6084/m9.figshare.c.3612158.v1, https://figshare.com/collections/Analyzing_Th17_cell_differentiation_dynamics_using_a_novel_integrative_modeling_framework_for_time-course_RNA_sequencing_data/3612158/1
Dataset
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Identification of global regulators of T-helper cell lineage specification
Kanduri, K. (Creator), Tripathi, S. (Creator), Larjo, A. (Creator), Mannerström, H. (Creator), Ullah, U. (Creator), Lund, R. (Creator), Hawkins, D. (Creator), Ren, B. (Creator), Lähdesmäki, H. (Creator) & Lahesmaa, R. (Creator), 1 Jan 2015
DOI: 10.6084/m9.figshare.c.3642353.v1, https://figshare.com/collections/Identification_of_global_regulators_of_T-helper_cell_lineage_specification/3642353/1
Dataset
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Probabilistic modeling methods for cell-free DNA methylation based cancer classification
Halla-aho, V. (Contributor) & Lähdesmäki, H. (Contributor), 1 Jan 2022
DOI: 10.6084/m9.figshare.c.5931075.v1, https://springernature.figshare.com/collections/Probabilistic_modeling_methods_for_cell-free_DNA_methylation_based_cancer_classification/5931075/1 and 4 more links, https://springernature.figshare.com/articles/dataset/Additional_file_2_of_Probabilistic_modeling_methods_for_cell-free_DNA_methylation_based_cancer_classification/19518510/1, https://springernature.figshare.com/articles/dataset/Additional_file_3_of_Probabilistic_modeling_methods_for_cell-free_DNA_methylation_based_cancer_classification/19518513/1, https://springernature.figshare.com/articles/dataset/Additional_file_4_of_Probabilistic_modeling_methods_for_cell-free_DNA_methylation_based_cancer_classification/19518516/1, https://springernature.figshare.com/articles/journal_contribution/Additional_file_1_of_Probabilistic_modeling_methods_for_cell-free_DNA_methylation_based_cancer_classification/19518507/1 (show fewer)
Dataset
Prizes
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Elias Tillandz prize 2012 for article
Lähdesmäki, Harri (Recipient), 2012
Prize: Award or honor granted for a specific work
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Elias Tillandz prize 2013 for article
Lähdesmäki, Harri (Recipient), 2013
Prize: Award or honor granted for a specific work
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IARIA Best Paper Award for our paper
Lähdesmäki, Harri (Recipient), 2008
Prize: Award or honor granted for a specific work
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Tampere Science Foundation award for the best doctoral thesis
Lähdesmäki, Harri (Recipient), 2005
Prize: Award or honor granted for a specific work
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The first position in the 5th Dialogue for Reverse Engineering Assessments and Methods (DREAM)
Lähdesmäki, Harri (Recipient), 16 Nov 2010
Prize: Award or honor granted for a specific work
Activities
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Faster Bayesian inference in Joint Species Distribution Models
Gleb Tikhonov (Speaker), Jarno Vanhatalo (Contributor), Otso Ovaskainen (Contributor) & Harri Lähdesmäki (Contributor)
22 Jun 2020 → 26 Jun 2020Activity: Talk or presentation types › Conference presentation
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International Workshop on Machine Learning in Systems Biology
Harri Lähdesmäki (Member)
3 Sep 2016 → 4 Sep 2016Activity: Participating in or organising an event types › Membership of an organizing committee or other positions of trust of a conference or a seminar
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Foreign Organisation
Harri Lähdesmäki (Visiting researcher)
17 May 2016Activity: Visiting an external institution types › Visit abroad
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Evaluator of a docent application, at University of Helsinki
Harri Lähdesmäki (Examiner)
2016Activity: Examination types › Statement of assessment of docentship
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School of Science (Organisational unit)
Harri Lähdesmäki (Member)
Mar 2016 → Jan 2017Activity: Membership types › Position of trust in an academic community
Press / Media
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Suomalaistutkijoiden kehittämä tekoäly ennustaa, mikä puolustusjärjestelmän avain sopii koronaviruksen lukkoihin
Emmi Jokinen & Harri Lähdesmäki
22/04/2021
1 item of Media coverage
Press/Media: Media appearance
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Suomalaistutkijat kehittivät tekoälyn auttamaan koronataistelussa – ”Malli on sovellettavissa periaatteessa kaikkia kohtaamiamme taudinaiheuttajia vastaan”
Emmi Jokinen & Harri Lähdesmäki
22/04/2021
1 item of Media coverage
Press/Media: Media appearance
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Biologisten mekanismien alkulähteillä
16/05/2019
1 item of Media coverage
Press/Media: Media appearance