Professorship Kaski S.

Organisational unit: Research group

Research outputs

  1. 2020
  2. Published

    High-dimensional structure learning of binary pairwise Markov networks: A comparative numerical study

    Pensar, J., Xu, Y., Puranen, S., Pesonen, M., Kabashima, Y. & Corander, J., 1 Jan 2020, In : Computational Statistics and Data Analysis. 141, p. 62-76 15 p.

    Research output: Contribution to journalArticleScientificpeer-review

  3. 2019
  4. Published

    Genome-wide epistasis and co-selection study using mutual information

    Pensar, J., Puranen, S., Arnold, B., MacAlasdair, N., Kuronen, J., Tonkin-Hill, G., Pesonen, M., Xu, Y., Sipola, A., Sánchez-Busó, L. & 7 othersLees, J. A., Chewapreecha, C., Bentley, S. D., Harris, S. R., Parkhill, J., Croucher, N. J. & Corander, J., 10 Oct 2019, In : Nucleic Acids Research. 47, 18, p. 1-14 e112.

    Research output: Contribution to journalArticleScientificpeer-review

  5. Published

    Fuzzy least squares twin support vector machines

    Sartakhti, J. S., Afrabandpey, H. & Ghadiri, N., 1 Oct 2019, In : ENGINEERING APPLICATIONS OF ARTIFICIAL INTELLIGENCE. 85, p. 402-409 8 p.

    Research output: Contribution to journalArticleScientificpeer-review

  6. Published

    Single-subject analysis of N400 event-related potential component with five different methods

    Kallionpää, R. E., Pesonen, H., Scheinin, A., Sandman, N., Laitio, R., Scheinin, H., Revonsuo, A. & Valli, K., 1 Oct 2019, In : International Journal of Psychophysiology. 144, p. 14-24 11 p.

    Research output: Contribution to journalArticleScientificpeer-review

  7. Accepted/In press

    Machine Teaching of Active Sequential Learners

    Peltola, T., Çelikok, M. M., Daee, P. & Kaski, S., 4 Sep 2019, (Accepted/In press) 33rd Conference on Neural Information Processing Systems (NeurIPS 2019), Vancouver, Canada.

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

  8. Published

    ADAPTIVE: LeArning DAta-dePendenT, concIse molecular VEctors for fast, accurate metabolite identification from tandem mass spectra

    Nguyen, D. H., Nguyen, C. H. & Mamitsuka, H., 15 Jul 2019, In : Bioinformatics. 35, 14, p. i164-i172 btz319.

    Research output: Contribution to journalArticleScientificpeer-review

  9. Published

    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 journalArticleScientificpeer-review

  10. Published

    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 journalArticleScientificpeer-review

  11. Published

    Representation transfer for differentially private drug sensitivity prediction

    Niinimäki, T., Heikkilä, M. A., Honkela, A. & Kaski, S., 15 Jul 2019, In : Bioinformatics. 35, 14, p. i218-i224 btz373.

    Research output: Contribution to journalArticleScientificpeer-review

  12. Published

    NetGO: improving large-scale protein function prediction with massive network information

    You, R., Yao, S., Xiong, Y., Huang, X., Sun, F., Mamitsuka, H. & Zhu, S., 2 Jul 2019, In : Nucleic Acids Research. 47, W1, p. W379-W387

    Research output: Contribution to journalArticleScientificpeer-review

  13. Published

    Human-in-the-loop Active Covariance Learning for Improving Prediction in Small Data Sets

    Afrabandpey, H., Peltola, T. & Kaski, S., Jul 2019, Proceedings of the Twenty-Eighth International Joint Conference on Artificial Intelligence, IJCAI 2019, Macao, China, August 10-16, 2019. p. 1959-1966 7 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

  14. Published

    Variable opportunities for outcrossing result in hotspots of novel genetic variation in a pathogen metapopulation

    Laine, A-L., Barres, B., Numminen, E. & Siren, J. P., 18 Jun 2019, In : ELIFE. 8, p. 1-17 17 p., 47091.

    Research output: Contribution to journalArticleScientificpeer-review

  15. Published

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

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

    Research output: Contribution to journalArticleScientificpeer-review

  16. Published

    Machine Learning for Marketing

    Mamitsuka, H., 9 Jun 2019, 237 p.

    Research output: Book/ReportBookProfessional

  17. Published

    Parameter Inference for Computational Cognitive Models with Approximate Bayesian Computation

    Kangasrääsiö, A., Jokinen, J. P. P., Oulasvirta, A., Howes, A. & Kaski, S., 1 Jun 2019, In : COGNITIVE SCIENCE. 43, 6, 40 p., 12738.

    Research output: Contribution to journalArticleScientificpeer-review

  18. Published

    Variable opportunities for outcrossing result in hotspots of novel genetic variation in a pathogen metapopulation: Spatially variable opportunities for outcrossing in an obligate pathogen

    Laine, A. L., Barrès, B., Numminen, E. & Sirén, J. P., 1 Jun 2019, In : ELIFE. 8

    Research output: Contribution to journalArticleScientificpeer-review

  19. Published

    Efficient acquisition rules for model-based approximate Bayesian computation

    Järvenpää, M., Gutmann, M. U., Pleska, A., Vehtari, A. & Marttinen, P., Jun 2019, In : Bayesian Analysis. 14, 2, p. 595-622 28 p.

    Research output: Contribution to journalArticleScientificpeer-review

  20. Published

    Emergence of ceftazidime-avibactam-resistant Klebsiella pneumoniae during treatment, Finland, December 2018

    Räisänen, K., Koivula, I., Ilmavirta, H., Puranen, S., Kallonen, T., Lyytikäinen, O. & Jalava, J., 1 May 2019, In : EUROSURVEILLANCE. 24, 19, p. 1-3

    Research output: Contribution to journalArticleScientificpeer-review

  21. Published

    Harmonizable mixture kernels with variational Fourier features

    Shen, Z., Heinonen, M. & Kaski, S., May 2019, The 22nd International Conference on Artificial Intelligence and Statistic. p. 1812-1821 (Proceedings of Machine Learning Research; vol. 89).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

  22. Published

    Optimal Probabilistic Work Extraction beyond the Free Energy Difference with a Single-Electron Device

    Maillet, O., Erdman, P. A., Cavina, V., Bhandari, B., Mannila, E. T., Peltonen, J. T., Mari, A., Taddei, F., Jarzynski, C., Giovannetti, V. & 1 othersPekola, J. P., 18 Apr 2019, In : Physical Review Letters. 122, 15, p. 1-6 150604.

    Research output: Contribution to journalArticleScientificpeer-review

  23. Published

    A Bayesian model of acquisition and clearance of bacterial colonization incorporating within-host variation

    Järvenpää, M., Sater, M. R. A., Lagoudas, G. K., Blainey, P. C., Miller, L. G., McKinnell, J. A., Huang, S. S., Grad, Y. H. & Marttinen, P., 1 Apr 2019, In : PLoS computational biology. 15, 4, p. 1-25 e1006534.

    Research output: Contribution to journalArticleScientificpeer-review

  24. Published

    Discovering heritable modes of MEG spectral power

    Leppäaho, E., Renvall, H., Salmela, E., Kere, J., Salmelin, R. & Kaski, S., 1 Apr 2019, In : Human Brain Mapping . 40, 5, p. 1391-1402 12 p.

    Research output: Contribution to journalArticleScientificpeer-review

  25. Published

    Gaussian kernels for incomplete data

    Mesquita, D. P. P., Gomes, J. P. P., Corona, F., Souza, A. H. & Nobre, J. S., 1 Apr 2019, In : Applied Soft Computing Journal. 77, p. 356-365 10 p.

    Research output: Contribution to journalArticleScientificpeer-review

  26. Published

    Mobile Brainwaves: On the Interchangeability of Simple authentication Tasks with Low-Cost, Single-Electrode EEG Devices

    Haukipuro, E-S., Kolehmainen, V., Myllärinen, J., Remander, S., Salo, J., Takko, T., Nguyen, L., Sigg, S. & Findling, R., 1 Apr 2019, In : IEICE Transactions on Communications. E102-B, 4, p. 760-767 8 p.

    Research output: Contribution to journalArticleScientificpeer-review

  27. Published

    Deep learning with differential Gaussian process flows

    Hegde, P., Heinonen, M., Lähdesmäki, H. & Kaski, S., Apr 2019, The 22nd International Conference on Artificial Intelligence and Statistic. Vol. 89. p. 1-15 16 p. (Proceedings of Machine Learning Research; vol. 89).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

  28. Published

    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. & 1 othersBlankertz, B., 12 Mar 2019, In : JOURNAL OF THE ASSOCIATION FOR INFORMATION SCIENCE AND TECHNOLOGY. 14 p.

    Research output: Contribution to journalArticleScientificpeer-review

  29. Published

    Digging deeper into egocentric gaze prediction

    Tavakoli, H. R., Rahtu, E., Kannala, J. & Borji, A., 4 Mar 2019, Proceedings - 2019 IEEE Winter Conference on Applications of Computer Vision, WACV 2019. Institute of Electrical and Electronics Engineers, p. 273-282 10 p. 8658619

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

  30. Published

    Semantic matching by weakly supervised 2D point set registration

    Laskar, Z., Tavakoli, H. R. & Kannala, J., 4 Mar 2019, 2019 IEEE WINTER CONFERENCE ON APPLICATIONS OF COMPUTER VISION (WACV). Institute of Electrical and Electronics Engineers, p. 1061-1069 9 p. 8658796

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

  31. Published

    Integrated analysis of population genomics, transcriptomics and virulence provides novel insights into Streptococcus pyogenes pathogenesis

    Kachroo, P., Eraso, J. M., Olsen, R. J., Beres, S. B., Zhu, L., Nasser, W., Bernard, P. E., Cantu, C. C., Saavedra, M. O., Arredondo, M. J. & 21 othersStrope, B., Do, H., Kumaraswami, M., Vuopio, J., Gröndahl-Yli-Hannuksela, K., Kristinsson, K. G., Gottfredsson, M., Pesonen, M., Pensar, J., Davenport, E. R., Clark, A. G., Corander, J., Caugant, D. A., Gaini, S., Magnussen, M. D., Kubiak, S. L., Nguyen, H. A. T., Long, S. W., Porter, A. R., DeLeo, F. R. & Musser, J. M., 1 Mar 2019, In : NATURE GENETICS. 51, 3, p. 548-559 12 p.

    Research output: Contribution to journalArticleScientificpeer-review

  32. Published

    Maternal pre- and postnatal anxiety symptoms and infant attention disengagement from emotional faces

    Kataja, E. L., Karlsson, L., Parsons, C. E., Pelto, J., Pesonen, H., Häikiö, T., Hyönä, J., Nolvi, S., Korja, R. & Karlsson, H., 15 Jan 2019, In : Journal of Affective Disorders. 243, p. 280-289 10 p.

    Research output: Contribution to journalArticleScientificpeer-review

  33. Published

    Artificial Neural Networks with Random Weights for Incomplete Datasets

    Mesquita, D. P. P., Gomes, J. P. P. & Rodrigues, L. R., 1 Jan 2019, In : Neural Processing Letters. 28 p.

    Research output: Contribution to journalArticleScientificpeer-review

  34. Published

    CalCleaveMKL: a Tool for Calpain Cleavage Prediction

    duVerle, D. A. & Mamitsuka, H., 1 Jan 2019, Calpain. p. 121-147 27 p. (Methods in molecular biology; vol. 1915).

    Research output: Chapter in Book/Report/Conference proceedingChapterScientificpeer-review

  35. Published

    Distributed Bayesian matrix factorization with limited communication

    Qin, X., Blomstedt, P., Leppäaho, E., Parviainen, P. & Kaski, S., 1 Jan 2019, In : Machine Learning. p. 1-26

    Research output: Contribution to journalArticleScientificpeer-review

  36. E-pub ahead of print

    Scaling up the effects of inbreeding depression from individuals to metapopulations

    Nonaka, E., Sirén, J., Somervuo, P., Ruokolainen, L., Ovaskainen, O. & Hanski, I., 1 Jan 2019, In : Journal of Animal Ecology.

    Research output: Contribution to journalArticleScientificpeer-review

  37. Published

    Tiler: Software for human-guided data exploration

    Henelius, A., Oikarinen, E. & Puolamäki, K., 1 Jan 2019, Machine Learning and Knowledge Discovery in Databases - European Conference, ECML PKDD 2018, Proceedings. Brefeld, U., Marascu, A., Pinelli, F., Curry, E., MacNamee, B., Hurley, N., Daly, E. & Berlingerio, M. (eds.). Springer Verlag, p. 672-676 5 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 11053 LNAI).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

  38. Published

    Towards Cycle-Consistent Models for Text and Image Retrieval

    Cornia, M., Baraldi, L., Rezazadegan Tavakoli, H. & Cucchiara, R., 1 Jan 2019, Computer Vision – ECCV 2018 Workshops, Proceedings. Leal-Taixé, L. & Roth, S. (eds.). p. 687-691 5 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 11132 LNCS).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

  39. Published

    Active Learning for Decision-Making from Imbalanced Observational Data

    Sundin, I., Schulam, P., Siivola, E., Vehtari, A., Saria, S. & Kaski, S., 2019, Proceedings of the 36th International Conference on Machine Learning. (Proceedings of Machine Learning Research; vol. 97).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

  40. Accepted/In press

    Bottom-up Attention, Model of

    Borji, A., Rezazadegan Tavakoli, H. & Bylinskii, Z., 2019, (Accepted/In press) Encyclopedia of Computational Neuroscience .

    Research output: Chapter in Book/Report/Conference proceedingChapterScientificpeer-review

  41. Accepted/In press

    Deep convolutional Gaussian processes

    Blomqvist, K., Kaski, S. & Heinonen, M., 2019, (Accepted/In press) ECML/PKDD.

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

  42. Published

    Fast and Robust Multi-View Multi-Task Learning via Group Sparsity

    Sun, L., Nguyen, C. H. & Mamitsuka, H., 2019, Proceedings of the Twenty-Eighth International Joint Conference on Artificial Intelligence, IJCAI 2019, Macao, China, August 10-16, 2019. p. 3499-3505 7 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

  43. Published

    Multiplicative Sparse Feature Decomposition for Efficient Multi-View Multi-Task Learning

    Sun, L., Nguyen, C. H. & Mamitsuka, H., 2019, Proceedings of the Twenty-Eighth International Joint Conference on Artificial Intelligence (IJCAI-19). p. 3506-3512 7 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

  44. Published

    Steps Forward in Approximate Computational Inference

    Lintusaari, J., 2019, Aalto University. 153 p.

    Research output: ThesisDoctoral ThesisCollection of Articles

  45. Accepted/In press

    Understanding and Visualizing Deep Visual Saliency Models

    He, S., Rezazadegan Tavakoli, H., Borji, A. & Pugeault, N., 2019, (Accepted/In press) IEEE.

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

  46. 2018
  47. Published

    PicSOM Content-Based Information Retrieval System: software source release version 0.37

    Laaksonen, J., 17 Dec 2018

    Research output: Artistic and non-textual formSoftwareScientific

  48. Published

    DeepCaption: PyTorch-based framework for image captioning research using deep learning

    Sjöberg, M., Polis, A., Surikuchi, A. & Laaksonen, J., 5 Dec 2018

    Research output: Artistic and non-textual formSoftwareScientific

  49. Published

    Biosignals reflect pair-dynamics in collaborative work: EDA and ECG study of pair-programming in a classroom environment

    Ahonen, L., Cowley, B. U., Hellas, A. & Puolamäki, K., 1 Dec 2018, In : Scientific Reports. 8, 1, p. 1-16 3138.

    Research output: Contribution to journalArticleScientificpeer-review

  50. Published

    Gaussian process modelling in approximate bayesian computation to estimate horizontal gene transfer in Bacteria

    Järvenpää, M., Gutmann, M. U., Vehtari, A. K. I. & Marttinen, P., 1 Dec 2018, In : Annals of Applied Statistics. 12, 4, p. 2228-2251 24 p.

    Research output: Contribution to journalArticleScientificpeer-review

  51. Published

    Peace of mind and anxiety in the waking state are related to the affective content of dreams

    Sikka, P., Pesonen, H. & Revonsuo, A., 1 Dec 2018, In : Scientific Reports. 8, 1, p. 1-13 12762.

    Research output: Contribution to journalArticleScientificpeer-review

  52. Published

    A Bayesian model of acquisition and clearance of bacterial colonization

    Järvenpää, M., Sater, M., Lagoudas, G., Blainey, P. C., Miller, L., McKinnell, J., Huang, S., Grad, Y. & Marttinen, P., Dec 2018

    Research output: Other contributionScientificpeer-review

  53. Published

    Supervised low rank indefinite kernel approximation using minimum enclosing balls

    Schleif, F. M., Gisbrecht, A. & Tino, P., 27 Nov 2018, In : Neurocomputing. 318, p. 213-226 14 p.

    Research output: Contribution to journalArticleScientificpeer-review

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