Finnish Center for Artificial Intelligence, FCAI

Research output

Research output per year 2019 2019 2020 2021 2022 2023 2024 2025

• 63 Conference article in proceedings
• 53 Article
• 2 Abstract
• 2 Paper
• 5 More
  • 2 Conference article
  • 1 Anthology
  • 1 Meeting Abstract
  • 1 Review Article

Research output per year

Research output per year

Search results

• 2025

  Video-Language Critic : Transferable Reward Functions for Language-Conditioned Robotics

  Alakuijala, M., McLean, R., Woungang, I., Farsad, N., Kaski, S., Marttinen, P. & Yuan, K., 2025, In: Transactions on Machine Learning Research. 2025, p. 1-22 22 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Training Policy 100%
  2 Downloads (Pure)
• 2024

  Bayesian reduced rank regression models generalizable neural fingerprints that differentiate between individuals in magnetoencephalography data

  Haakana, J., Merz, S., Kaski, S., Renvall, H. & Salmelin, R., May 2024, In: European Journal of Neuroscience. 59, 9, p. 2320-2335 16 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Magnetoencephalography 100%
  • Fingerprints 100%
  • Reduced Rank Regression 100%
  • Functional Connectivity 40%
  • Humans 20%
  40 Downloads (Pure)

• Collaborative learning from distributed data with differentially private synthetic data

  Prediger, L., Jälkö, J., Honkela, A. & Kaski, S., 14 Jun 2024, In: BMC Medical Informatics and Decision Making. 24, 1, p. 1-14 14 p., 167.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Collaborative Learning 100%
  • Synthetic Data 100%
  • Distributed Data 100%
  • Privacy Preserving 33%
  • Privacy Concern 16%
  1 Citation (Scopus)

  6 Downloads (Pure)

• DesignQuizzer: A Community-Powered Conversational Agent for Learning Visual Design

  Peng, Z., Chen, Q., Shen, Z., Ma, X. & Oulasvirta, A., 23 Apr 2024, In: Proceedings of the ACM on Human-Computer Interaction. 8, CSCW1, 40 p., 44.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  • Conversational Agent 100%
  • User 11%
  • Informal Learning 11%
  1 Citation (Scopus)

• Entity Footprinting: Modeling Contextual User States via Digital Activity Monitoring

  Rezaei Yousefi, Z., Vuong, T., Al-Ghossein, M., Ruotsalo, T., Jacucci, G. & Kaski, S., 22 Apr 2024, In: ACM Transactions on Interactive Intelligent Systems. 14, 2, 26 p., 9.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Monitoring Activity 100%
  • And-States 50%
  • Detection Accuracy 50%
  • Contextual Information 50%
  • Recurrent Neural Network 50%
  1 Citation (Scopus)

  32 Downloads (Pure)

• Human-in-the-loop active learning for goal-oriented molecule generation

  Nahal, Y., Menke, J., Martinelli, J., Heinonen, M., Kabeshov, M., Janet, J. P., Nittinger, E., Engkvist, O. & Kaski, S., 9 Dec 2024, In: Journal of Cheminformatics. 16, 1, 24 p., 138.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Human-in-the-Loop 100%
  • Active Learning 100%
  • Generative Artificial Intelligence 100%
  • Training Data 100%
  • Artificial Intelligence 100%
  10 Downloads (Pure)

• Intelligent digital tools for screening of brain connectivity and dementia risk estimation in people affected by mild cognitive impairment: the AI-Mind clinical study protocol

  Haraldsen, I. H., Hatlestad-Hall, C., Marra, C., Renvall, H., Maestu, F., Acosta-Hernandez, J., Alfonsin, S., Andersson, V., Anand, A., Ayllon, V., Babic, A., Belhadi, A., Birck, C., Bruna, R., Caraglia, N., Carrarini, C., Christensen, E., Cicchetti, A., Daugbjerg, S. & Di Bidino, R. & 49 others, Diaz-Ponce, A., Drews, A., Giuffre, G. M., Georges, J., Gil-Gregorio, P., Gove, D., Govers, T. M., Hallock, H., Hietanen, M., Holmen, L., Hotta, J., Kaski, S., Khadka, R., Kinnunen, A. S., Koivisto, A. M., Kulashekhar, S., Larsen, D., Liljeström, M., Lind, P. G., Marcos Dolado, A., Marshall, S., Merz, S., Miraglia, F., Montonen, J., Mäntynen, V., Oksengard, A. R., Olazaran, J., Paajanen, T., Pena, J. M., Pena, L., Peniche, D. L., Perez, A. S., Radwan, M., Ramirez-Torano, F., Rodriguez-Pedrero, A., Saarinen, T., Salas-Carrillo, M., Salmelin, R., Sousa, S., Suyuthi, A., Toft, M., Toharia, P., Tveitstol, T., Tveter, M., Upreti, R., Vermeulen, R. J., Vecchio, F., Yazidi, A. & Rossini, P. M., 5 Jan 2024, In: Frontiers in Neurorobotics. 17, p. 1-15 15 p., 1289406.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Intelligence 100%
  • Dementia 100%
  • Clinical Study 100%
  • Risk Evaluation 100%
  • Brain 100%
  8 Citations (Scopus)

  32 Downloads (Pure)

• Likelihood-free inference in state-space models with unknown dynamics

  Aushev, A., Tran, T., Pesonen, H., Howes, A. & Kaski, S., Feb 2024, In: STATISTICS AND COMPUTING. 34, 1, 27.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Models 100%
  • State Space 100%
  • Inference 100%
  • Space Model 100%
  • Simulation 80%
  1 Citation (Scopus)

  59 Downloads (Pure)

• Metis : a Python-based user interface to collect expert feedback for generative chemistry models

  Menke, J., Nahal, Y., Bjerrum, E. J., Kabeshov, M., Kaski, S. & Engkvist, O., Dec 2024, In: Journal of Cheminformatics. 16, 1, p. 1-9 9 p., 100.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Learning System 100%
  • Closed Loop Systems 100%
  • Natural Scientist 100%
  • Graphical User Interface 100%
  • De Novo Design 100%
  2 Citations (Scopus)

  14 Downloads (Pure)

• Prior knowledge elicitation: The past, present, and future

  Mikkola, P., Martin, O., Halasinamara Chandramouli, S., Hartmann, M., Abril Pla, O., Thomas, O., Pesonen, H., Corander, J., Vehtari, A., Kaski, S., Burkner, P.-C. & Klami, A., Dec 2024, In: Bayesian Analysis. 19, 4, p. 1129–1161 33 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Knowledge Acquisition 100%
  • Elicitation 100%
  • Bayesian 100%
  • Specific Industry 33%
  • Theoretical Framework 12%
  11 Citations (Scopus)

  13 Downloads (Pure)

• Targeted Active Learning for Bayesian Decision-Making

  Filstroff, L., Sundin, I., Mikkola, P., Tiulpin, A., Kylmäoja, J. & Kaski, S., 12 Jun 2024, In: Transactions on Machine Learning Research. 20 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Decision-Making 100%
  • Bayesian Decision 100%
  • Active Learning 100%
  • Learning 100%
  • Bayesian Decision Making 100%
  10 Downloads (Pure)

• Towards modeling evolving longitudinal health trajectories with a transformer-based deep learning model

  Moen, H., Raj, V., Vabalas, A., Perola, M., Kaski, S., Ganna, A. & Marttinen, P., 2024, (Accepted/In press) In: arXiv.org.

  Research output: Contribution to journal › Article › Scientific

  • Transformer-Based Deep Learning 100%
  • Learning Model 100%
  • Early Detection 50%
  • Retrospective Analysis 50%
  • Single Prediction 50%

• Virtual laboratories : Transforming research with AI

  Klami, A., Damoulas, T., Engkvist, O., Rinke, P. & Kaski, S., 27 Aug 2024, In: Data-Centric Engineering. 5, p. 1-20 20 p., e19.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Artificial Intelligence 100%
  • Virtual Laboratories 100%
  • Scientific Domain 33%
  • Scientific Knowledge 33%
  • Software Platform 16%
  54 Downloads (Pure)
• 2023

  ABC of the future

  Pesonen, H., Simola, U., Köhn-Luque, A., Vuollekoski, H., Lai, X., Frigessi, A., Kaski, S., Frazier, D. T., Maneesoonthorn, W., Martin, G. M. & Corander, J., Aug 2023, In: International Statistical Review. 91, 2, p. 243-268

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Computation 100%
  • Models 20%
  • Domains 20%
  • Application 20%
  • Machine Learning 20%
  5 Citations (Scopus)

  18 Downloads (Pure)

• Chemistry-Based Modeling on Phenotype-Based Drug-Induced Liver Injury Annotation : From Public to Proprietary Data

  Moein, M., Heinonen, M., Mesens, N., Chamanza, R., Amuzie, C., Will, Y., Ceulemans, H., Kaski, S. & Herman, D., 21 Aug 2023, In: Chemical Research in Toxicology. 36, 8, p. 1238−1247

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Methimazole 100%
  • Toxic Hepatitis 100%
  • Drug 28%
  • Hepatotoxicity 14%
  • Preclinical Toxicology 14%
  4 Citations (Scopus)

  26 Downloads (Pure)

• DPVIm: Differentially Private Variational Inference Improved

  Jälkö, J., Prediger, L., Honkela, A. & Kaski, S., Sept 2023, In: Transactions on Machine Learning Research. 2023

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Parameters 100%
  • Inference 100%
  • Vectors 33%
  • Approximation 16%
  • Gaussian 16%
  25 Downloads (Pure)

• HAPNEST : efficient, large-scale generation and evaluation of synthetic datasets for genotypes and phenotypes

  Wharrie, S., Yang, Z., Raj, V., Monti, R., Gupta, R., Wang, Y., Martin, A., O'Connor, L. J., Kaski, S., Marttinen, P., Palamara, P. F., Lippert, C. & Ganna, A., 2 Sept 2023, In: Bioinformatics (Oxford, England). 39, 9, p. 1-10 10 p., btad535.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Evaluation 100%
  • Genotype 100%
  • Synthetic Datasets 100%
  • Genotyping 100%
  • Phenotype 100%
  8 Citations (Scopus)

  16 Downloads (Pure)

• Modeling needs user modeling

  Çelikok, M. M., Murena, P. A. & Kaski, S., 2023, In: Frontiers in Artificial Intelligence. 6, p. 1-6 6 p., 1097891.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Modeling 100%
  • User Modeling 100%
  • Models 75%
  • User 50%
  • Machine Learning 50%
  1 Citation (Scopus)

  28 Downloads (Pure)

• Online Simulator-Based Experimental Design for Cognitive Model Selection

  Aushev, A., Putkonen, A., Clarté, G., Chandramouli, S., Acerbi, L., Kaski, S. & Howes, A., Dec 2023, In: Computational Brain and Behavior. 6, 4, p. 719-737 19 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Experiments 100%
  • Design 100%
  • Models 100%
  • Model Selection 100%
  • Experimental Design 100%
  1 Citation (Scopus)

  23 Downloads (Pure)

• Stochastic cluster embedding

  Yang, Z., Chen, Y., Sedov, D., Kaski, S. & Corander, J., Feb 2023, In: STATISTICS AND COMPUTING. 33, 1, p. 1-14 14 p., 12.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Embedding 100%
  • Visualization 42%
  • Embedding Method 28%
  • Software 14%
  • Experimental Result 14%
  2 Citations (Scopus)

  54 Downloads (Pure)

• The influence of inter-regional delays in generating large-scale brain networks of phase synchronization

  Williams, N., Ojanperä, A., Siebenhühner, F., Toselli, B., Palva, S., Arnulfo, G., Kaski, S. & Palva, J. M., 1 Oct 2023, In: NeuroImage. 279, p. 1-22 22 p., 120318.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Network Model 100%
  • Magnetoencephalography 100%
  • Communication 33%
  • Approximate Bayesian Computation 22%
  • Brain 16%
  3 Citations (Scopus)

  60 Downloads (Pure)

• Toward AI assistants that let designers design

  De Peuter, S., Oulasvirta, A. & Kaski, S., Mar 2023, In: AI Magazine. 44, 1, p. 85-96 12 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Artificial Intelligence 100%
  • Design 100%
  • Models 16%
  • User 16%
  • Reasoning 16%
  9 Citations (Scopus)

  177 Downloads (Pure)
• 2022

  Accounting for stellar activity signals in radial-velocity data by using change point detection techniques star

  Simola, U., Bonfanti, A., Dumusque, X., Cisewski-Kehe, J., Kaski, S. & Corander, J., 23 Aug 2022, In: Astronomy and Astrophysics. 664, p. 1-29 29 p., 127.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Datum 100%
  • Detection 100%
  • Accounting 100%
  • Stars 100%
  • Radial-Velocity Method 100%
  7 Citations (Scopus)

  54 Downloads (Pure)

• DIVERSE: Bayesian Data IntegratiVE learning for precise drug ResponSE prediction

  Guvencpaltun, B., Kaski, S. & Mamitsuka, H., 11 Apr 2022, In: IEEE/ACM Transactions on Computational Biology and Bioinformatics. 19, 4, p. 2197-2207 11 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Learning 100%
  • Forecasting 100%
  • Drug Response 100%
  • Drug 100%
  • Cross-Validation 80%
  1 Citation (Scopus)

  99 Downloads (Pure)

• Gene–gene interaction detection with deep learning

  Cui, T., El Mekkaoui, K., Reinvall, J., Havulinna, A. S., Marttinen, P. & Kaski, S., 12 Nov 2022, In: Communications Biology. 5, 1, p. 1-12 12 p., 1238.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Deep Learning 100%
  • Detection 100%
  • Design 33%
  • Representation 33%
  • Procedures 33%
  11 Citations (Scopus)

  92 Downloads (Pure)

• Human-in-the-loop assisted de novo molecular design

  Sundin, I., Voronov, A., Xiao, H., Papadopoulos, K., Bjerrum, E. J., Heinonen, M., Patronov, A., Kaski, S. & Engkvist, O., Dec 2022, In: Journal of Cheminformatics. 14, 1, p. 1-16 16 p., 86.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Design 100%
  • Human-in-the-Loop 100%
  • Scoring Function 100%
  • Molecule 66%
  • User 50%
  13 Citations (Scopus)

  114 Downloads (Pure)

• Identification of multiplicatively acting modulatory mutational signatures in cancer

  Kičiatovas, D., Guo, Q., Kailas, M., Pesonen, H., Corander, J., Kaski, S., Pitkänen, E. & Mustonen, V., Dec 2022, In: BMC Bioinformatics. 23, 1, p. 1-15 15 p., 522.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Analysis 100%
  • Malignant Neoplasm 100%
  • Identification 100%
  • Models 75%
  • Taxonomy 75%
  2 Citations (Scopus)

  32 Downloads (Pure)

• Learning to type with mobile keyboards: Findings with a randomized keyboard

  Jiang, X., Jokinen, J. P. P., Oulasvirta, A. & Ren, X., Jan 2022, In: Computers in Human Behavior. 126, 11 p., 106992.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Keyboard 100%
  • User 50%
  • Smartphones 25%
  • Learning Process 25%
  • Accuracy 25%
  7 Citations (Scopus)

  239 Downloads (Pure)

• Likelihood-Free Inference with Deep Gaussian Processes

  Aushev, A., Pesonen, H., Heinonen, M., Corander, J. & Kaski, S., Oct 2022, In: Computational Statistics & Data Analysis. 174, p. 1-19 19 p., 107529.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Gaussian Process 100%
  • Models 75%
  • Optimization 75%
  • Performance 75%
  • Target Distribution 50%
  61 Downloads (Pure)

• The relationship between electrophysiological and hemodynamic measures of neural activity varies across picture naming tasks: A multimodal magnetoencephalography-functional magnetic resonance imaging study

  Mononen, T., Kujala, J., Liljeström, M., Leppäaho, E., Kaski, S. & Salmelin, R., 3 Nov 2022, In: Frontiers in Neuroscience. 16, p. 1-16 16 p., 1019572.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Magnetoencephalography 100%
  • Functional Magnetic Resonance Imaging 100%
  • Neural Activity 100%
  • Correlation 33%
  • Brain 22%
  96 Downloads (Pure)
• 2021

  Bayesian inference of ODEs with Gaussian processes

  Hegde, P., Yıldız, Ç., Lähdesmäki, H., Kaski, S. & Heinonen, M., 2021, (Unpublished) In: arXiv.org.

  Research output: Contribution to journal › Article › Scientific

• Entity Recommendation for Everyday Digital Tasks

  Jacucci, G., Daee, P., Vuong, T., Andolina, S., Klouche, K., Sjöberg, M., Ruotsalo, T. & Kaski, S., Oct 2021, In: ACM Transactions on Computer-Human Interaction. 28, 5, 41 p., 3458919.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Contexts 100%
  • Computing 50%
  • Service 50%
  • Application 50%
  • User 50%
  16 Citations (Scopus)

  118 Downloads (Pure)

• Informative Bayesian Neural Network Priors for Weak Signals

  Cui, T., Havulinna, A. S., Marttinen, P. & Kaski, S., 2021, In: Bayesian Analysis.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Domain Knowledge 100%
  • Application 66%
  • Sparsity 66%
  • Explained Variance 66%
  • Models 33%
  1 Citation (Scopus)

  108 Downloads (Pure)

• Is this company a lead customer? Estimating stages of B2B buying journey

  Marvasti, N. B., Huhtala, J.-P., Yousefi, Z. R., Vaniala, I., Upreti, B., Malo, P., Kaski, S. & Tikkanen, H., Aug 2021, In: Industrial Marketing Management. 97, p. 126-133 8 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Company 100%
  • Customer 100%
  • Lead 100%
  • Hidden Markov Models 100%
  • Enterprises 66%
  16 Citations (Scopus)

  375 Downloads (Pure)

• Online content match-making in B2B markets: Application of neural content modeling

  Upreti, B. R., Huhtala, J.-P., Tikkanen, H., Malo, P., Marvasti, N., Kaski, S., Vaniala, I. & Mattila, P., 12 Jan 2021, In: Industrial Marketing Management. 93, p. 32-40 9 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  • Application 100%
  • Online Content 100%
  • Content Marketing 100%
  • Models 66%
  • Channels 66%
  7 Citations (Scopus)

• Privacy-preserving data sharing via probabilistic modeling

  Jälkö, J., Lagerspetz, E., Haukka, J., Tarkoma, S., Honkela, A. & Kaski, S., 9 Jul 2021, In: Patterns. 2, 7, 10 p., 100271.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Modeling 100%
  • Privacy Preserving 100%
  • Data Sharing 100%
  • Synthetic Data 100%
  • Models 20%
  10 Citations (Scopus)

  67 Downloads (Pure)
• 2020

  Adaptive feature guidance: Modelling visual search with graphical layouts

  Jokinen, J. P. P., Wang, Z., Sarcar, S., Oulasvirta, A. & Ren, X., 1 Apr 2020, In: International Journal of Human Computer Studies. 136, 22 p., 102376.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Visual Search 100%
  • Models 100%
  • Long-Term Memory 66%
  • Humans 33%
  • Practitioners 33%
  29 Citations (Scopus)

  252 Downloads (Pure)

• A decision-theoretic approach for model interpretability in Bayesian framework

  Afrabandpey, H., Peltola, T., Piironen, J., Vehtari, A. & Kaski, S., 1 Sept 2020, In: Machine Learning. 109, 9-10, p. 1855-1876 22 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Models 100%
  • Theoretic Approach 100%
  • Interpretability 100%
  • Bayesian Framework 100%
  • Bayesian 100%
  15 Citations (Scopus)

  152 Downloads (Pure)

• Combinatorial Optimization of Graphical User Interface Designs

  Oulasvirta, A., Dayama, N. R., Shiripour, M., John, M. & Karrenbauer, A., Mar 2020, In: Proceedings of the IEEE. 108, 3, p. 434-464 31 p., 9000519.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Graphical User Interface 100%
  • Combinatorial Optimisation 100%
  • User Interface Design 100%
  • Design 75%
  • Survey 50%
  88 Citations (Scopus)

  154 Downloads (Pure)

• Interactive faceted query suggestion for exploratory search: Whole-session effectiveness and interaction engagement

  Ruotsalo, T., Jacucci, G. & Kaski, S., 1 Jul 2020, In: Journal of the Association for Information Science and Technology. 71, 7, p. 742-756 15 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  • User 100%
  • Availability 33%
  • Information Retrieval 33%
  • Relevant Information 33%
  • Control Condition 33%
  17 Citations (Scopus)

• Plasmids shaped the recent emergence of the major nosocomial pathogen Enterococcus faecium

  Arredondo-Alonso, S., Top, J., McNally, A., Puranen, S., Pesonen, M., Pensar, J., Marttinen, P., Braat, J., Rogers, M., van Schaik, W., Kaski, S., Willems, R. J. L., Corander, J. & Schürch, A., 1 Jan 2020, In: MBIO. 11, 1, 17 p., e03284-19.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Infectious Agent 100%
  • Enterococcus faecium 100%
  • Gene 14%
  • Electric Potential 14%
  • Animal 14%
  93 Citations (Scopus)

  120 Downloads (Pure)

• Substrate specificity of 2-deoxy-D-ribose 5-phosphate aldolase (DERA) assessed by different protein engineering and machine learning methods

  Voutilainen, S., Heinonen, M., Andberg, M., Jokinen, E., Maaheimo, H., Pääkkönen, J., Hakulinen, N., Rouvinen, J., Lähdesmäki, H., Kaski, S., Rousu, J., Penttilä, M. & Koivula, A., Dec 2020, In: Applied Microbiology and Biotechnology. 104, 24, p. 10515-10529 15 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Learning 100%
  • Protein Engineering 100%
  • Enzyme Specificity 100%
  • Aldolase 100%
  • Protein 100%
  26 Citations (Scopus)

  118 Downloads (Pure)
• 2019

  Bayesian metabolic flux analysis reveals intracellular flux couplings

  Heinonen, M., Osmala, M., Mannerström, H., Wallenius, J., Kaski, S., Rousu, J. & Lähdesmäki, H., 15 Jul 2019, In: Bioinformatics. 35, 14, p. i548-i557 btz315.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Steady State 100%
  • Metabolic Flux Analysis 100%
  • Stoichiometry 50%
  • Flux Analysis 50%
  • Clostridium acetobutylicum 50%
  17 Citations (Scopus)

  155 Downloads (Pure)

• Block HSIC Lasso: Model-free biomarker detection for ultra-high dimensional data

  Climente-González, H., Azencott, C. A., Kaski, S. & Yamada, M., 15 Jul 2019, In: Bioinformatics. 35, 14, p. i427-i435 btz333.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Models 100%
  • Detection 100%
  • High Dimensional Data 100%
  • RNA Sequence 100%
  • Functions 50%
  59 Citations (Scopus)

  129 Downloads (Pure)

• Community assessment to advance computational prediction of cancer drug combinations in a pharmacogenomic screen

  Kaski, S., Marttinen, P. & AstraZeneca-Sanger Drug Combination DREAM Consortium, 17 Jun 2019, In: Nature Communications. 10, 1, p. 1-17 17 p., 2674.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Malignant Neoplasm 100%
  • Drug Combination 100%
  • Community Assessment 100%
  • Pharmacogenomics 100%
  • Drug 50%
  227 Citations (Scopus)

  119 Downloads (Pure)

• Distributed Bayesian matrix factorization with limited communication

  Qin, X., Blomstedt, P., Leppäaho, E., Parviainen, P. & Kaski, S., 1 Oct 2019, In: Machine Learning. 108, 10, p. 1805–1830

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Communication 100%
  • Matrix Factorization 100%
  • Computation 50%
  • Accuracy 25%
  • Posterior Distribution 25%
  5 Citations (Scopus)

  180 Downloads (Pure)

• Improving drug response prediction by integrating multiple data sources: matrix factorization, kernel and network-based approaches

  Guvenc, B., Mamitsuka, H. & Kaski, S., 2019, In: Briefings in Bioinformatics. 22, 1, p. 346-359 14 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Drug Response 100%
  • Drug 100%
  • Cell Line 28%
  • Chemotherapeutic Agent 28%
  • Personalized Medicine 28%
  53 Citations (Scopus)

  301 Downloads (Pure)

• Integrating neurophysiologic relevance feedback in intent modeling for information retrieval

  Jacucci, G., Barral, O., Daee, P., Wenzel, M., Serim, B., Ruotsalo, T., Pluchino, P., Freeman, J., Gamberini, L., Kaski, S. & Blankertz, B., 12 Mar 2019, In: Journal of the Association for Information Science and Technology. 14 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Modeling 100%
  • Information Retrieval 100%
  • Intents 100%
  • Relevance Feedback 100%
  • Intention 100%
  21 Citations (Scopus)

  244 Downloads (Pure)

• Local dimension reduction of summary statistics for likelihood-free inference

  Siren, J. & Kaski, S., 4 Oct 2019, In: STATISTICS AND COMPUTING. 12 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Transformations 100%
  • Dimension Reduction 100%
  • Localization 100%
  • Summary Statistic 100%
  • Models 66%
  91 Downloads (Pure)

• Modelling G×E with historical weather information improves genomic prediction in new environments

  Gillberg, J., Marttinen, P., Mamitsuka, H. & Kaski, S., 15 Oct 2019, In: Bioinformatics (Oxford, England). 35, 20, p. 4045-4052 8 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Genotyping 100%
  • Genotype 100%
  • Environment 100%
  • Reaction Yield 27%
  • Barley 27%
  30 Citations (Scopus)

  95 Downloads (Pure)