Centre of Excellence in Computational Inference, COIN

Organisational unit: Research group

Research outputs

  1. 2020
  2. Accepted/In press

    Parallel Gaussian process surrogate Bayesian inference with noisy likelihood evaluations

    Järvenpää, M., Gutmann, M., Vehtari, A. & Marttinen, P., Feb 2020, (Accepted/In press) In : Bayesian Analysis.

    Research output: Contribution to journalArticleScientificpeer-review

  3. 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

  4. Published

    Expectation Propagation as a Way of Life: A Framework for Bayesian Inference on Partitioned Data

    Vehtari, A., Gelman, A., Sivula, T., Jylanki, P., Tran, D., Sahai, S., Blomstedt, P., Cunningham, J. P., Schiminovich, D. & Robert, C. P., 2020, In : Journal of Machine Learning Research. 21, p. 1-53 53 p.

    Research output: Contribution to journalArticleScientificpeer-review

  5. Accepted/In press

    Geometric Image Correspondence Verification by Dense Pixel Matching

    Laskar, Z., Melekhov, I., Rezazadegan Tavakoli, H., Ylioinas, J. & Kannala, J., 2020, (Accepted/In press) IEEE Winter Conference on Applications of Computer Vision.

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

  6. Accepted/In press

    InfoGraph: Unsupervised and Semi-supervised Graph-Level Representation Learning via Mutual Information Maximization

    Sun, F-Y., Hoffman, J., Verma, V. & Tang, J., 2020, (Accepted/In press) International Conference on Learning Representations.

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

  7. Accepted/In press

    Learning spectrograms with convolutional spectral kernels

    Shen, Z., Heinonen, M. & Kaski, S., 2020, (Accepted/In press) The 23rd International Conference on Artificial Intelligence and Statistic. (Proceedings of Machine Learning Research).

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

  8. Published

    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., 2020, In : MBIO. 11, 1, e03284-19.

    Research output: Contribution to journalArticleScientificpeer-review

  9. Accepted/In press

    SketchTransfer: A New Dataset for Exploring Detail-Invariance and the Abstractions Learned by Deep Networks

    Lamb, A., Ozair, S., Verma, V. & Ha, D., 2020, (Accepted/In press) 2020 Winter Conference on Applications of Computer Vision (WACV ’20).

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

  10. 2019
  11. Published

    Deep Learning Fundus Image Analysis for Diabetic Retinopathy and Macular Edema Grading

    Sahlsten, J., Jaskari, J., Kivinen, J., Turunen, L., Jaanio, E., Hietala, K. & Kaski, K., 1 Dec 2019, In : Scientific Reports. 9, 1, p. 1-11 10750.

    Research output: Contribution to journalArticleScientificpeer-review

  12. Published

    Doubly Stochastic Neighbor Embedding on Spheres

    Lu, Y., Corander, J. & Yang, Z., 1 Dec 2019, In : Pattern Recognition Letters. 128, p. 100-106 7 p.

    Research output: Contribution to journalArticleScientificpeer-review

  13. Accepted/In press

    Machine Teaching of Active Sequential Learners

    Peltola, T., Çelikok, M. M., Daee, P. & Kaski, S., 28 Nov 2019, (Accepted/In press) 33rd Conference on Neural Information Processing Systems (NeurIPS 2019). p. 11202-11213 12 p.

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

  14. Accepted/In press

    Scalable Probabilistic Matrix Factorization with Graph-­Based Priors

    Strahl, J., Peltonen, J., Mamitsuka, H. & Kaski, S., 22 Nov 2019, (Accepted/In press) Proceedings of AAAI-20, AAAI Conference on Artificial Intelligence. AAAI, 9 p.

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

  15. Published

    PicSOM and EURECOM Experiments in TRECVID 2019

    Laria Mantecon, H., Laaksonen, J., Francis, D. & Huet, B., Nov 2019, Proceedings of TRECVID 2019. NIST, 6 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contributionProfessional

  16. Published

    AI4TV 2019: 1st international workshop on AI for smart TV content production, access and delivery

    Troncy, R., Laaksonen, J., Tavakoli, H. R., Nixon, L. & Mezaris, V., 15 Oct 2019, MM 2019 - Proceedings of the 27th ACM International Conference on Multimedia. ACM, p. 2716-2717 2 p. (MM 2019 - Proceedings of the 27th ACM International Conference on Multimedia).

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

  17. Published

    Geometry-aware relational exemplar attention for dense captioning

    Wang, T. J. J., Tavakoli, H. R., Sjöberg, M. & Laaksonen, J., 15 Oct 2019, MULEA 2019 - 1st International Workshop on Multimodal Understanding and Learning for Embodied Applications, co-located with MM 2019. ACM, p. 3-11 9 p.

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

  18. Published

    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 journalArticleScientificpeer-review

  19. 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., Lees, 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

  20. Published

    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 journalArticleScientificpeer-review

  21. 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

  22. Published

    On the utility of neighbourhood singleton-style consistencies for qualitative constraint-based spatial and temporal reasoning

    Sioutis, M., Paparrizou, A. & Janhunen, T., 1 Oct 2019, 26th International Symposium on Temporal Representation and Reasoning, TIME 2019. Gamper, J., Pinchinat, S. & Sciavicco, G. (eds.). Schloss Dagstuhl- Leibniz-Zentrum fur Informatik GmbH, Dagstuhl Publishing, p. 1-17 (Leibniz International Proceedings in Informatics, LIPIcs; vol. 147).

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

  23. Accepted/In press

    Deep Contextual Attention for Human-Object Interaction Detection

    Wang, T., Anwer, R. M., Khan, M. H., Khan, F. S., Pang, Y., Shao, L. & Laaksonen, J., Oct 2019, (Accepted/In press) Proceedings of the International Conference on Computer Vision (ICCV2019). IEEE, p. 5694-5702

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

  24. Published
  25. Published

    Forgetting in Modular Answer Set Programming

    Goncalves, R., Janhunen, T., Knorr, M., Leite, J. & Woltran, S., 17 Jul 2019, Proceedings of the 33rd AAAI Conference on Artificial Intelligence. AAAI PRESS, p. 2843-2850 8 p. (Proceedings of the AAAI Conference on Artificial Intelligence).

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

  26. 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

  27. 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

  28. 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

  29. Published

    Learning Image Relations with Contrast Association Networks

    Lu, Y., Yang, Z., Kannala, J. & Kaski, S., 1 Jul 2019, 2019 International Joint Conference on Neural Networks, IJCNN 2019. IEEE, 7 p. 8852344. (Proceedings of the International Joint Conference on Neural Networks; vol. 2019-July).

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

  30. 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 28th International Joint Conference on Artificial Intelligence, IJCAI 2019. p. 1959-1966 8 p. (IJCAI International Joint Conference on Artificial Intelligence).

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

  31. 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

  32. 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

  33. Published

    A user study to compare two conversational assistants designed for people with hearing impairments

    Virkkunen, A., Lukkarila, J., Palomäki, K. & Kurimo, M., Jun 2019, Proceedings of the Eighth Workshop on Speech and Language Processing for Assistive Technologies. p. 1-8 8 p.

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

  34. 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

  35. 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

  36. Published

    International genomic definition of pneumococcal lineages, to contextualise disease, antibiotic resistance and vaccine impact

    Global Pneumococcal Sequencing, May 2019, In : Ebiomedicine. 43, p. 338-346 9 p.

    Research output: Contribution to journalArticleScientificpeer-review

  37. Published

    Thermal power of heat flow through a qubit

    Aurell, E. & Montana, F., 19 Apr 2019, In : Physical Review E. 99, 4, p. 1-14 042130.

    Research output: Contribution to journalArticleScientificpeer-review

  38. Published

    An additive Gaussian process regression model for interpretable non-parametric analysis of longitudinal data

    Cheng, L., Ramchandran, S., Vatanen, T., Lietzén, N., Lahesmaa, R., Vehtari, A. & Lähdesmäki, H., 17 Apr 2019, In : Nature Communications. 10, 1, p. 1-11 11 p., 1798.

    Research output: Contribution to journalArticleScientificpeer-review

  39. Published

    Variable selection for Gaussian processes via sensitivity analysis of the posterior predictive distribution

    Paananen, T., Piironen, J., Andersen, M. & Vehtari, A., 16 Apr 2019, Proceedings of the 22nd International Conference on Artificial Intelligence and Statistics. 10 p. (Proceedings of Machine Learning Research; vol. 89).

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

  40. 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

  41. 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

  42. 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

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

    Research output: Contribution to journalArticleScientificpeer-review

  44. 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. IEEE, p. 273-282 10 p. 8658619

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

  45. 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). IEEE, p. 1061-1069 9 p. 8658796

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

  46. 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., Strope, B., Do, H., Kumaraswami, M., Vuopio, J., Gröndahl-Yli-Hannuksela, K., Kristinsson, K. G., Gottfredsson, M., Pesonen, M., Pensar, J., Davenport, E. R. & 11 others, 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

  47. Published

    DCA for genome-wide epistasis analysis: The statistical genetics perspective

    Gao, C. Y., Cecconi, F., Vulpiani, A., Zhou, H. J. & Aurell, E., 29 Jan 2019, In : Physical Biology. 16, 2, 026002.

    Research output: Contribution to journalArticleScientificpeer-review

  48. Published

    North Sámi morphological segmentation with low-resource semi-supervised sequence labeling

    Grönroos, S-A., Virpioja, S. & Kurimo, M., 7 Jan 2019, Fifth Workshop on Computational Linguistics for Uralic Languages: Proceedings of the Workshop. p. 15-26 12 p.

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

  49. Published

    Adversarial mixup resynthesizers

    Beckham, C., Honari, S., Verma, V., Lamb, A., Ghadiri, F., Hjelm, R. D. & Pal, C., 1 Jan 2019.

    Research output: Contribution to conferencePaperScientificpeer-review

  50. Published

    Diagnosing Data Pipeline Failures Using Action Languages

    Bomanson, J. & Brik, A., 1 Jan 2019, Logic Programming and Nonmonotonic Reasoning - 15th International Conference, LPNMR 2019, Proceedings. Lierler, Y., Woltran, S. & Balduccini, M. (eds.). p. 181-194 14 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 11481 LNAI).

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

  51. 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

  52. Published

    Multi-stream Convolutional Networks for Indoor Scene Recognition

    Anwer, R. M., Khan, F. S., Laaksonen, J. & Zaki, N., 1 Jan 2019, Computer Analysis of Images and Patterns - 18th International Conference, CAIP 2019, Proceedings. Vento, M. & Percannella, G. (eds.). p. 196-208 13 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 11678 LNCS).

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

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