Search Results - "Pensar, Johan"

Genome evolution and the emergence of pathogenicity in avian Escherichia coli by Mageiros, Leonardos, Méric, Guillaume, Bayliss, Sion C., Pensar, Johan, Pascoe, Ben, Mourkas, Evangelos, Calland, Jessica K., Yahara, Koji, Murray, Susan, Wilkinson, Thomas S., Williams, Lisa K., Hitchings, Matthew D., Porter, Jonathan, Kemmett, Kirsty, Feil, Edward J., Jolley, Keith A., Williams, Nicola J., Corander, Jukka, Sheppard, Samuel K.

“…Chickens are the most common birds on Earth and colibacillosis is among the most common diseases affecting them. This major threat to animal welfare and safe…”
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Labeled directed acyclic graphs: a generalization of context-specific independence in directed graphical models by Pensar, Johan, Nyman, Henrik, Koski, Timo, Corander, Jukka

“…We introduce a novel class of labeled directed acyclic graph (LDAG) models for finite sets of discrete variables. LDAGs generalize earlier proposals for…”
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Disease-associated genotypes of the commensal skin bacterium Staphylococcus epidermidis by Méric, Guillaume, Mageiros, Leonardos, Pensar, Johan, Laabei, Maisem, Yahara, Koji, Pascoe, Ben, Kittiwan, Nattinee, Tadee, Phacharaporn, Post, Virginia, Lamble, Sarah, Bowden, Rory, Bray, James E., Morgenstern, Mario, Jolley, Keith A., Maiden, Martin C. J., Feil, Edward J., Didelot, Xavier, Miragaia, Maria, de Lencastre, Herminia, Moriarty, T. Fintan, Rohde, Holger, Massey, Ruth, Mack, Dietrich, Corander, Jukka, Sheppard, Samuel K.

“…Some of the most common infectious diseases are caused by bacteria that naturally colonise humans asymptomatically. Combating these opportunistic pathogens…”
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DagSim: Combining DAG-based model structure with unconstrained data types and relations for flexible, transparent, and modularized data simulation by Al Hajj, Ghadi S, Pensar, Johan, Sandve, Geir K

“…Data simulation is fundamental for machine learning and causal inference, as it allows exploration of scenarios and assessment of methods in settings with full…”
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High-dimensional structure learning of sparse vector autoregressive models using fractional marginal pseudo-likelihood by Suotsalo, Kimmo, Xu, Yingying, Corander, Jukka, Pensar, Johan

“…Learning vector autoregressive models from multivariate time series is conventionally approached through least squares or maximum likelihood estimation. These…”
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Author Correction: Genome evolution and the emergence of pathogenicity in avian Escherichia coli by Mageiros, Leonardos, Méric, Guillaume, Bayliss, Sion C., Pensar, Johan, Pascoe, Ben, Mourkas, Evangelos, Calland, Jessica K., Yahara, Koji, Murray, Susan, Wilkinson, Thomas S., Williams, Lisa K., Hitchings, Matthew D., Porter, Jonathan, Kemmett, Kirsty, Feil, Edward J., Jolley, Keith A., Williams, Nicola J., Corander, Jukka, Sheppard, Samuel K.

“…A Correction to this paper has been published: https://doi.org/10.1038/s41467-021-22238-5…”
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High-dimensional structure learning of binary pairwise Markov networks: A comparative numerical study by Pensar, Johan, Xu, Yingying, Puranen, Santeri, Pesonen, Maiju, Kabashima, Yoshiyuki, Corander, Jukka

“…Learning the undirected graph structure of a Markov network from data is a problem that has received a lot of attention during the last few decades. As a…”
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A Bayesian Decision-Support Tool for Child Sexual Abuse Assessment and Investigation by Tadei, Alessandro, Pensar, Johan, Corander, Jukka, Finnilä, Katarina, Santtila, Pekka, Antfolk, Jan

“…In assessments of child sexual abuse (CSA) allegations, informative background information is often overlooked or not used properly. We therefore created and…”
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New Pathogenesis Mechanisms and Translational Leads Identified by Multidimensional Analysis of Necrotizing Myositis in Primates by Kachroo, Priyanka, Eraso, Jesus M, Olsen, Randall J, Zhu, Luchang, Kubiak, Samantha L, Pruitt, Layne, Yerramilli, Prasanti, Cantu, Concepcion C, Ojeda Saavedra, Matthew, Pensar, Johan, Corander, Jukka, Jenkins, Leslie, Kao, Lillian, Granillo, Alejandro, Porter, Adeline R, DeLeo, Frank R, Musser, James M

“…A fundamental goal of contemporary biomedical research is to understand the molecular basis of disease pathogenesis and exploit this information to develop…”
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The immuneML ecosystem for machine learning analysis of adaptive immune receptor repertoires by Pavlović, Milena, Scheffer, Lonneke, Motwani, Keshav, Kanduri, Chakravarthi, Kompova, Radmila, Vazov, Nikolay, Waagan, Knut, Bernal, Fabian L. M., Costa, Alexandre Almeida, Corrie, Brian, Akbar, Rahmad, Al Hajj, Ghadi S., Balaban, Gabriel, Brusko, Todd M., Chernigovskaya, Maria, Christley, Scott, Cowell, Lindsay G., Frank, Robert, Grytten, Ivar, Gundersen, Sveinung, Haff, Ingrid Hobæk, Hovig, Eivind, Hsieh, Ping-Han, Klambauer, Günter, Kuijjer, Marieke L., Lund-Andersen, Christin, Martini, Antonio, Minotto, Thomas, Pensar, Johan, Rand, Knut, Riccardi, Enrico, Robert, Philippe A., Rocha, Artur, Slabodkin, Andrei, Snapkov, Igor, Sollid, Ludvig M., Titov, Dmytro, Weber, Cédric R., Widrich, Michael, Yaari, Gur, Greiff, Victor, Sandve, Geir Kjetil

“…Adaptive immune receptor repertoires (AIRR) are key targets for biomedical research as they record past and ongoing adaptive immune responses. The capacity of…”
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The Genetics of Sexuality and Aggression (GSA) Twin Samples in Finland by Johansson, Ada, Jern, Patrick, Santtila, Pekka, von der Pahlen, Bettina, Eriksson, Elias, Westberg, Lars, Nyman, Henrik, Pensar, Johan, Corander, Jukka, Sandnabba, N. Kenneth

“…The Genetics of Sexuality and Aggression (GSA) project was launched at the Abo Akademi University in Turku, Finland in 2005 and has so far undertaken two major…”
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SuperDCA for genome-wide epistasis analysis by Puranen, Santeri, Pesonen, Maiju, Pensar, Johan, Xu, Ying Ying, Lees, John A, Bentley, Stephen D, Croucher, Nicholas J, Corander, Jukka

“…The potential for genome-wide modelling of epistasis has recently surfaced given the possibility of sequencing densely sampled populations and the emerging…”
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Locally interpretable tree boosting: An application to house price prediction by Hjort, Anders, Scheel, Ida, Sommervoll, Dag Einar, Pensar, Johan

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Locally interpretable tree boosting: An application to house price prediction by Hjort, Anders Dahl, Scheel, Ida, Sommervoll, Dag Einar, Pensar, Johan

“…We introduce Locally Interpretable Tree Boosting (LitBoost), a tree boosting model tailored to applications where the data comes from several heterogeneous yet…”
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House price prediction with gradient boosted trees under different loss functions by Hjort, Anders, Pensar, Johan, Scheel, Ida, Sommervoll, Dag Einar

“…Many banks and credit institutions are required to assess the value of dwellings in their mortgage portfolio. This valuation often relies on an Automated…”
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Representing local structure in Bayesian networks by Boolean functions by Zou, Yuan, Pensar, Johan, Roos, Teemu

“…•We propose an algorithm for learning Bayesian networks with local structure.•The method is based on a logistic parametrization with interaction terms, Lasso,…”
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Causal discovery for the microbiome by Corander, Jukka, Hanage, William P, Pensar, Johan

“…Measurement and manipulation of the microbiome is generally considered to have great potential for understanding the causes of complex diseases in humans,…”
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The role of local partial independence in learning of Bayesian networks by Pensar, Johan, Nyman, Henrik, Lintusaari, Jarno, Corander, Jukka

“…Bayesian networks are one of the most widely used tools for modeling multivariate systems. It has been demonstrated that more expressive models, which can…”
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Marginal Pseudo-Likelihood Learning of Discrete Markov Network Structures by Pensar, Johan, Nyman, Henrik, Niiranen, Juha, Corander, Jukka

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Structure Learning of Contextual Markov Networks using Marginal Pseudo-likelihood by PENSAR, JOHAN, NYMAN, HENRIK, CORANDER, JUKKA

“…Markov networks are popular models for discrete multivariate systems where the dependence structure of the variables is specified by an undirected graph. To…”
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