Title: | Bayesian Multi-Way Models for Data Translation in Computational Biology Bayesilaisia monisuuntaisia malleja biologisten tietoaineistojen translaatio-ongelmaan |
Author(s): | Suvitaival, Tommi |
Date: | 2014 |
Language: | en |
Pages: | 76 + app. 94 |
Department: | Tietojenkäsittelytieteen laitos Department of Information and Computer Science |
ISBN: | 978-952-60-5933-4 (electronic) 978-952-60-5932-7 (printed) |
Series: | Aalto University publication series DOCTORAL DISSERTATIONS, 171/2014 |
ISSN: | 1799-4942 (electronic) 1799-4934 (printed) 1799-4934 (ISSN-L) |
Supervising professor(s): | Kaski, Samuel, Prof., Aalto University, Department of Information and Computer Science, Finland |
Subject: | Computer science |
Keywords: | ANOVA modeling, Bayesian modeling, computational biology, cross-species modeling, metabolomics, multi-view modeling, toxicogenomics, ANOVA-mallitus, bayesilainen mallitus, laskennallinen biologia, lajienvälinen mallitus, metabolomiikka, usean näkymän mallitus, toksikogenomiikka |
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Abstract:Eroavaisuuksien löytäminen näytteiden välillä on perustavanlaatuinen ongelma niin laskennallisessa biologiassa kuin muissakin tieteissä. Hypoteesia monimutkaisen järjestelmän toiminnasta voidaan tutkia tekemällä koe. Kokeen olosuhteet kontrolloidaan siten, että koeasetelman määrittelemien kovariaattien vaikutus tutkittavaan systeemiin voidaan todeta riippumattomien mittausten avulla. Jos mitattuja muuttujia on paljon ja niillä on keskinäisiä riippuvuuksia, perinteisten tilastollisten mallien olettamukset eivät päde. Tässä väitöskirjassa esitetään laskennallisia menetelmiä tähän ongelmaan ja sen jatko-ongelmiin. |
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Parts:[Publication 1]: Ilkka Huopaniemi, Tommi Suvitaival, Janne Nikkilä, Matej Orešič, and Samuel Kaski. Two-way analysis of high-dimensional collinear data. Data Mining and Knowledge Discovery, Volume 19, Issue 2, Pages 261–276, 2009. DOI 10.1007/s10618-009-0142-5. View at Publisher [Publication 2]: Tommi Suvitaival, Simon Rogers, and Samuel Kaski. Stronger findings from mass spectral data through multi-peak modeling. BMC Bioinformatics, Volume 15, Article 208, 11 pages, 2014. DOI 10.1186/1471-2105-15-208. View at Publisher [Publication 3]: Tommi Suvitaival, Simon Rogers, and Samuel Kaski. Stronger findings for metabolomics through Bayesian modeling of multiple peaks and compound correlations. Bioinformatics, Volume 30, Issue 17, Pages i461–i467, 2014. DOI 10.1093/bioinformatics/btu455. View at Publisher [Publication 4]: Ilkka Huopaniemi, Tommi Suvitaival, Janne Nikkilä, Matej Orešič, and Samuel Kaski. Multivariate multi-way analysis of multi-source data. Bioinformatics, Volume 26, Issue 12, Pages i391–i398, 2010. DOI 10.1093/bioinformatics/btq174. View at Publisher [Publication 5]: Tommi Suvitaival, Juuso A. Parkkinen, Seppo Virtanen, and Samuel Kaski. Cross-organism toxicogenomics with group factor analysis. Systems Biomedicine, Volume 2, eLocation ID e29291, 9 pages, 2014. DOI 10.4161/sysb.29291. View at Publisher [Publication 6]: Ilkka Huopaniemi, Tommi Suvitaival, Matej Orešič, and Samuel Kaski. Graphical multi-way models. In Jose Balcázar, Francesco Bonchi, Aristides Gionis, and Michèle Sebag, editors, Machine Learning and Knowledge Discovery in Databases — European Conference on Machine Learning and Principles and Practice of Knowledge Discovery in Databases, ECML PKDD 2010, Barcelona, Spain, September 20–24, 2010, Proceedings, Part I, Pages 538–553, Springer, Berlin/Heidelberg, Germany, 2010. DOI 10.1007/978-3-642-15880-3_40. View at Publisher [Publication 7]: Tommi Suvitaival, Ilkka Huopaniemi, Matej Orešič, and Samuel Kaski. Cross-species translation of multi-way biomarkers. In Timo Honkela, Włodzisław Duch, Mark Girolami and Samuel Kaski, editors, Artificial Neural Networks and Machine Learning — ICANN 2011, 21st International Conference on Artificial Neural Networks, Espoo, Finland, June 14–17, 2011, Proceedings, Part I, Pages 209–216, Springer, Berlin/Heidelberg, Germany, 2011. DOI 10.1007/978-3-642-21735-7_26. View at Publisher |
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