Research output per year
Research output per year
Organisation profile
Organisation profile
Computational Life Sciences
Department of Computer Science Research area
Research on Computational modelling, data analysis and design of biological systems.
The research area covers the multi-disciplinary activities on computational modelling, data analysis and design of biological systems. The field focuses on the development of original computational methods and their application in collaboration with leading national and international experts in different branches of life sciences.
The research area is linked to health-related research programmes in HIIT and FCAI, and Aalto key research areas of Health and Wellbeing as well as Materials and Sustainable Use of Natural Resources.
Research topics: bioinformatics, cheminformatics, complex systems, computational chemistry, computational immunology, computational metabolomics, computational systems biology, DNA nanotechnology, medical imaging, neuroinformatics, personalized medicine, pharmacoinformatics, statistical epidemology, synthetic biology.
Research area webpage: https://www.aalto.fi/en/department-of-computer-science/computational-life-sciences
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. Our work contributes towards the following SDG(s):
Collaborations and top research areas from the last five years
Recent external collaboration on country/territory level. Dive into details by clicking on the dots or
Profiles
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Talayeh Aledavood
- Department of Computer Science - University Lecturer
- Lecturer Aledavood Talayeh group - University Lecturer
- Computer Science Lecturers - University Lecturer
- Computer Science - Computational Life Sciences (CSLife) - Research area - University Lecturer
Person: Teaching staff
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Wilhelmiina Hämäläinen
- Department of Computer Science - Senior University Lecturer
- Computer Science Lecturers - Senior University Lecturer
- Computer Science - Artificial Intelligence and Machine Learning (AIML) - Research area - Senior University Lecturer
- Computer Science - Computational Life Sciences (CSLife) - Research area - Senior University Lecturer
- Lecturer Hämäläinen Wilhelmiina group - Senior University Lecturer
Person: Teaching staff
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Harri Lähdesmäki
- Department of Computer Science - Professor (Associate Professor)
- Helsinki Institute for Information Technology (HIIT)
- Computer Science Professors - Professor (Associate Professor)
- Computer Science - Artificial Intelligence and Machine Learning (AIML) - Research area - Professor (Associate Professor)
- Computer Science - Computational Life Sciences (CSLife) - Research area - Professor (Associate Professor)
- Professorship Lähdesmäki Harri - Professor (Associate Professor)
Person: Professors, tenure track
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Clustering students’ text form feedback data: comparison of eight vector space models
Hämäläinen, W., Rybicki, J.-M., Malmi, L., Jung, A. & Pollari-Malmi, K., 24 Jan 2025, ICBDE '24: Proceedings of the 2024 7th International Conference on Big Data and Education. New York: ACM, p. 57-64 8 p.Research output: Chapter in Book/Report/Conference proceeding › Conference article in proceedings › Scientific › peer-review
Open AccessFile10 Downloads (Pure) -
MassSpecGym : A benchmark for the discovery and identification of molecules
Bushuiev, R., Bushuiev, A., de Jonge, N. F., Young, A., Kretschmer, F., Samusevich, R., Heirman, J., Wang, F., Zhang, L., Dührkop, K., Ludwig, M., Haupt, N. A., Kalia, A., Brungs, C., Schmid, R., Greiner, R., Wang, B., Wishart, D. S., Liu, L. P. & Rousu, J. & 10 others, , 2025, Advances in Neural Information Processing Systems 37 (NeurIPS 2024). Curran Associates Inc., p. 1-18 18 p. (Advances in Neural Information Processing Systems).Research output: Chapter in Book/Report/Conference proceeding › Conference article in proceedings › Scientific › peer-review
Open Access -
Multimodal Digital Phenotyping Study in Patients With Major Depressive Episodes and Healthy Controls (Mobile Monitoring of Mood): Observational Longitudinal Study
Aledavood, T., Luong, N., Baryshnikov, I., Darst, R., Heikkilä, R., Ikäheimonen, A., Martikkala, A., Riihimäki, K., Saleva, O., Triana, A. M. & Isometsä, E., 2025, In: JMIR Mental Health. 12, e63622 .Research output: Contribution to journal › Article › Scientific › peer-review
Open AccessFile4 Downloads (Pure)
Datasets
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Additional file 2 of Modeling binding specificities of transcription factor pairs with random forests
Antikainen, A. A. (Creator), Heinonen, M. (Creator) & Lähdesmäki, H. (Creator), figshare, 6 Jun 2022
DOI: 10.6084/m9.figshare.20003421, https://springernature.figshare.com/articles/dataset/Additional_file_2_of_Modeling_binding_specificities_of_transcription_factor_pairs_with_random_forests/20003421
Dataset
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Additional file 4 of Probabilistic modeling methods for cell-free DNA methylation based cancer classification
Halla-aho, V. (Creator) & Lähdesmäki, H. (Creator), figshare, 2022
DOI: 10.6084/m9.figshare.19518516, https://springernature.figshare.com/articles/dataset/Additional_file_4_of_Probabilistic_modeling_methods_for_cell-free_DNA_methylation_based_cancer_classification/19518516
Dataset
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Fitted BRAID and Hill functions, and cross-validation splits, for scaled-up comboKR in "Scaling up drug combination surface prediction"
Huusari, R. (Creator), Wang, T. (Creator), Szedmak, S. (Creator), Dias, D. (Contributor), Aittokallio, T. (Contributor) & Rousu, J. (Contributor), Zenodo, 17 Dec 2024
DOI: 10.5281/zenodo.14509937, https://doi.org/10.5281/zenodo.14509938
Dataset
Prizes
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Algorithmic design methods and tools for DNA nanotechnology
Orponen, P. (Recipient), 27 Feb 2023
Prize: Granted funding (personal grants)
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Knight First Class of the Order of the White Rose of Finland
Orponen, P. (Recipient), 6 Dec 2021
Prize: Award or honor granted for academic or artistic career
Activities
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Finnish Academy of Science and Letters (External organisation)
Orponen, P. (Member)
2024Activity: Memberships (typically long-term positions of trust) › Regular membership of a society or network
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Informatics Europe (External organisation)
Orponen, P. (Member)
2024Activity: Memberships (typically long-term positions of trust) › Position of trust in an academic community
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Clustering students’ text form feedback data: comparison of eight vector space models
Rybicki, J.-M. (Speaker), Hämäläinen, W. (Contributor), Malmi, L. (Contributor), Jung, A. (Contributor) & Pollari-Malmi, K. (Contributor)
25 Sept 2024Activity: Talk or presentation types › Conference presentation
Press/Media
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Research Findings from Aalto University Update Understanding of Machine Learning (EPIC-TRACE: predicting TCR binding to unseen epitopes using attention and contextualized embeddings)
27/12/2023
1 item of Media coverage
Press/Media: Media appearance
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University of Turku and Abo Akademi University Researchers Target Type 1 Diabetes (Serum APOC1 levels are decreased in young autoantibody positive children who rapidly progress to type 1 diabetes)
10/10/2023
1 item of Media coverage
Press/Media: Media appearance
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Research Data from University of Turku and Abo Akademi University Update Understanding of Data Analytics (Permutation-based significance analysis reduces the type 1 error rate in bisulphite sequencing data analysis of human umbilical cord blood ...)
05/10/2023
1 item of Media coverage
Press/Media: Media appearance