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2020
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An Information-Theoretic Approach to Personalized Explainable Machine Learning

Jung, A. & Nardelli, P. H. J., 7 May 2020, In : IEEE Signal Processing Letters. 27, p. 825-829

Research output: Contribution to journalArticleScientificpeer-review

A personalised approach for identifying disease-relevant pathways in heterogeneous diseases

Somani, J., Ramchandran, S. & Lähdesmäki, H., 1 Dec 2020, In : npj Systems Biology and Applications. 6, 1, 17.

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Approximate leave-future-out cross-validation for Bayesian time series models

Bürkner, P. C., Gabry, J. & Vehtari, A., 1 Jan 2020, In : JOURNAL OF STATISTICAL COMPUTATION AND SIMULATION.

Research output: Contribution to journalArticleScientificpeer-review

Open Access

Bonsai - Diverse and Shallow Trees for Extreme Multi-label Classification

Khandagale, S., Xiao, H. & Babbar, R., 17 Jul 2020, (Accepted/In press) In : Machine Learning.

Research output: Contribution to journalArticleScientificpeer-review

Boosting Answer Set Optimization with Weighted Comparator Networks

Bomanson, J. & Janhunen, T., 2020, In : Theory and Practice of Logic Programming. 20, 4, p. 512-551

Research output: Contribution to journalArticleScientificpeer-review

Cloud Gaming With Foveated Video Encoding

Gazi Karam Illahi, G., van Gemert, T., Siekkinen, M., Masala, E. & Oulasvirta, A., Mar 2020, In : ACM TRANSACTIONS ON MULTIMEDIA COMPUTING COMMUNICATIONS AND APPLICATIONS. 16, 1, 7.

Research output: Contribution to journalArticleScientificpeer-review

1 Citation (Scopus)

Data agency at stake: MyData activism and alternative frames of equal participation

Lehtiniemi, T. & Haapoja, J., 2020, In : NEW MEDIA AND SOCIETY. 22, 1, p. 87-104

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1 Citation (Scopus)
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Differentially private cross-silo federated learning

Heikkilä, M., Koskela, A., Shimizu, K., Kaski, S. & Honkela, A., 2020, (Submitted) In : Submitted.

Research output: Contribution to journalArticleScientificpeer-review

Effects of spatial smoothing on group-level differences in functional brain networks

Triana, A. M., Glerean, E., Saramäki, J. & Korhonen, O., 2020, In : Network Neuroscience. 4, 3, p. 556-574 19 p.

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Enhancer prediction in the human genome by probabilistic modelling of the chromatin feature patterns

Osmala, M. & Lähdesmäki, H., 20 Jul 2020, In : BMC Bioinformatics. 21, 1, 37 p.

Research output: Contribution to journalArticleScientificpeer-review

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Evaluation of Out-of-Band Channels for IoT Security

Latvala, S., Sethi, M. & Aura, T., Jan 2020, In : SN Computer Science. 1, 18.

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Expectation propagation as a way of life: A framework for Bayesian inference on partitioned data

Vehtari, A., Gelman, A., Sivula, T., Jylänki, 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

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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.

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Explicit Correlation Amplifiers for Finding Outlier Correlations in Deterministic Subquadratic Time

Karppa, M., Kaski, P., Kohonen, J. & Ó Catháin, P., 1 Jan 2020, In : Algorithmica.

Research output: Contribution to journalArticleScientificpeer-review

Open Access

Formal verification of misbinding attacks on secure device pairing and bootstrapping

Peltonen, A., Sethi, M. & Aura, T., 1 Apr 2020, In : Journal of Information Security and Applications. 51, 102461.

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FullMeSH: Improving large-scale MeSH indexing with full text

Dai, S., You, R., Lu, Z., Huang, X., Mamitsuka, H. & Zhu, S., 1 Mar 2020, In : Bioinformatics. 36, 5, p. 1533-1541 9 p.

Research output: Contribution to journalArticleScientificpeer-review

Gaming Algorithmic Hate-Speech Detection: Stakes, Parties, and Moves

Haapoja, J., Laaksonen, S-M. & Lampinen, A., 2020, In : Social Media + Society. 6, 2

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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

1 Citation (Scopus)

Interindividual variability and lateralization of μ-opioid receptors in the human brain: Individual differences in the μ-opioid receptor system

Kantonen, T., Karjalainen, T., Isojärvi, J., Nuutila, P., Tuisku, J., Rinne, J., Hietala, J., Kaasinen, V., Kalliokoski, K., Scheinin, H., Hirvonen, J., Vehtari, A. & Nummenmaa, L., 15 Aug 2020, In : NeuroImage. 217, 8 p., 116922.

Research output: Contribution to journalArticleScientificpeer-review

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1 Citation (Scopus)
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Minimum mode saddle point searches using Gaussian process regression with inverse-distance covariance function

Koistinen, O-P., Ásgeirsson, V., Vehtari, A. & Jonsson, H., 14 Jan 2020, In : Journal of Chemical Theory and Computation. 16, 1, p. 499-509

Research output: Contribution to journalArticleScientificpeer-review

1 Citation (Scopus)

Multi-locus interactions and the build-up of reproductive isolation

Satokangas, I., Martin, S. H., Helanterä, H., Saramäki, J. & Kulmuni, J., 31 Aug 2020, In : Philosophical transactions of the Royal Society of London. Series B, Biological sciences. 375, 1806

Research output: Contribution to journalArticleScientificpeer-review

On the Duality Between Network Flows and Network Lasso

Jung, A., 2020, In : IEEE Signal Processing Letters. 27, p. 940-944 5 p., 9103236.

Research output: Contribution to journalArticleScientificpeer-review

On the Sample Complexity of Graphical Model Selection From Non-Stationary Samples

Tran Quang, N., Jung, A. & Abramenko, O., 1 Jan 2020, In : IEEE Transactions on Signal Processing. 68, p. 17-32

Research output: Contribution to journalArticleScientificpeer-review

Open Access

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

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

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Platformed Interactions: How Social Media Platforms Relate to Candidate–Constituent Interaction During Finnish 2015 Election Campaigning

Nelimarkka, M., Laaksonen, S. M., Tuokko, M. & Valkonen, T., 2020, In : Social Media and Society. 6, 2

Research output: Contribution to journalArticleScientificpeer-review

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Relaxing the strong triadic closure problem for edge strength inference

Adriaens, F., De Bie, T., Gionis, A., Lijffijt, J., Matakos, A. & Rozenshtein, P., 17 Jan 2020, In : Data Mining and Knowledge Discovery.

Research output: Contribution to journalArticleScientificpeer-review

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The Datafication of Hate: Expectations and Challenges in Automated Hate Speech Monitoring

Laaksonen, S-M., Haapoja, J., Kinnunen, T., Nelimarkka, M. & Pöyhtäri, R., 2020, In : Frontiers in Big Data. 3

Research output: Contribution to journalArticleScientificpeer-review

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Virtual Machine Consolidation with Multiple Usage Prediction for Energy-Efficient Cloud Data Centers

Nguyen, T. H., Francesco, M. D. & Yla-Jaaski, A., Jan 2020, In : IEEE TRANSACTIONS ON SERVICES COMPUTING. 13, 1, p. 186-199 14 p., 7807360.

Research output: Contribution to journalArticleScientificpeer-review

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12 Citations (Scopus)
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2019

(Re)design to mitigate political polarization: Reflecting Habermas’ ideal communication space in the United States of America and Finland

Nelimarkka, M., Rancy, J. P., Grygiel, J. & Semaan, B., 1 Nov 2019, In : Proceedings of the ACM on Human-Computer Interaction . 3, CSCW, p. 1-25 141.

Research output: Contribution to journalArticleScientificpeer-review

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

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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

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5 Citations (Scopus)
64 Downloads (Pure)

Affective economy of national-populist images: Investigating national and transnational online networks through visual big data

Hokka, J. & Nelimarkka, M., 21 Aug 2019, In : NEW MEDIA AND SOCIETY. 23 p., 1461444819868686.

Research output: Contribution to journalArticleScientificpeer-review

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Aihemallinnus sekä muut ohjaamattomat koneoppimismenetelmät yhteiskuntatieteellisessä tutkimuksessa: kriittisiä havaintoja

Nelimarkka, M., 2019, In : Politiikka. 61, 1, p. 6-33

Research output: Contribution to journalArticleScientificpeer-review

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An adaptive prefix-assignment technique for symmetry reduction

Junttila, T., Karppa, M., Kaski, P. & Kohonen, J., Jul 2019, In : JOURNAL OF SYMBOLIC COMPUTATION. 99, p. 21-49

Research output: Contribution to journalArticleScientificpeer-review

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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

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4 Citations (Scopus)
139 Downloads (Pure)

Analyzing the power consumption behavior of a large scale data center

Khan, K. N., Scepanovic, S., Niemi, T., Nurminen, J. K., von Alfthan, S. & Lehto, O. P., Mar 2019, In : Computer Science - Research and Development. 34, 1, p. 61–70 10 p.

Research output: Contribution to journalArticleScientificpeer-review

2 Citations (Scopus)

Assessment of large-scale transitions in public transport networks using open timetable data: case of Helsinki metro extension

Weckström, C., Kujala, R., Mladenovic, M. & Saramäki, J., 1 Jul 2019, In : Journal of Transport Geography. 79, 13 p., 102470.

Research output: Contribution to journalArticleScientificpeer-review

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4 Citations (Scopus)
106 Downloads (Pure)

AuDI: Towards Autonomous IoT Device-Type Identification using Periodic Communication

Marchal, S., Miettinen, M., Nguyen, T. D., Sadeghi, A-R. & Asokan, N., Jun 2019, In : IEEE Journal on Selected Areas in Communications. 37, 6, p. 1402-1412 11 p., 8664655.

Research output: Contribution to journalArticleScientificpeer-review

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7 Citations (Scopus)
256 Downloads (Pure)

Augmenting objects at home through programmable sensor tokens: A design journey

Bellucci, A., Vianello, A., Florack, Y., Micallef, L. & Jacucci, G., 2019, In : International Journal of Human-Computer Studies. 122, p. 211-231 21 p.

Research output: Contribution to journalArticleScientificpeer-review

5 Citations (Scopus)

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

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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

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1 Citation (Scopus)
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Chameleon: Latency and Resolution Aware Task Offloading for Visual-Based Assisted Driving

Zhu, C., Chiang, Y-H., Mehrabi, A., Xiao, Y., Yla-Jaaski, A. & Ji, Y., Sep 2019, In : IEEE Transactions on Vehicular Technology. 68, 9, p. 9038-9048 11 p., 8768075.

Research output: Contribution to journalArticleScientificpeer-review

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2 Citations (Scopus)
39 Downloads (Pure)

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

Kaski, S. & Marttinen, P., 17 Jun 2019, In : Nature Communications. 10, 1, p. 1-17 17 p., 2674.

Research output: Contribution to journalArticleScientificpeer-review

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24 Citations (Scopus)
88 Downloads (Pure)

Constrained synthesis from component libraries

Iannopollo, A., Tripakis, S. & Sangiovanni-Vincentelli, A., 15 Feb 2019, In : Science of Computer Programming. 171, p. 21-41 21 p.

Research output: Contribution to journalArticleScientificpeer-review

1 Citation (Scopus)

Data-driven multiscale modeling reveals the role of metabolic coupling for the spatio-temporal growth dynamics of yeast colonies

Intosalmi, J., Scott, A. C., Hays, M., Flann, N., Yli-Harja, O., Lähdesmäki, H., Dudley, A. M. & Skupin, A., 19 Dec 2019, In : BMC Molecular and Cell Biology. 20, 1, 59.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Deep Convolutional Reconstruction For Gradient-Domain Rendering

Kettunen, M., Harkonen, E. & Lehtinen, J., Jul 2019, In : ACM Transactions on Graphics. 38, 4, 12 p., 126.

Research output: Contribution to journalArticleScientificpeer-review

Open Access

Deep Learning Spectroscopy: Neural Networks for Molecular Excitation Spectra

Ghosh, K., Stuke, A., Todorović, M., Jørgensen, P. B., Schmidt, M. N., Vehtari, A. & Rinke, P., 3 May 2019, In : Advanced Science. 6, 9, p. 1-7 7 p., 1801367.

Research output: Contribution to journalArticleScientificpeer-review

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24 Citations (Scopus)
159 Downloads (Pure)