to appear |
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11 | Suleiman A. Khan, Ali Faisal, John Patrick Mpindi, Juuso A. Parkkinen, Tuomo Kalliokoski, Antti Poso, Olli P. Kallioniemi, Krister Wennerberg, and Samuel Kaski. Comprehensive data-driven analysis of the impact of chemoinformatic structure on the genome-wide biological response profiles of cancer cells to 1159 drugs. BMC Bioinformatics, to appear. |
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2012 |
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10 | Ali Faisal, Jussi Gillberg, Jaakko Peltonen, Gayle Leen, and Samuel Kaski. Sparse nonparametric topic model for transfer learning. In Proceedings of 20th European Symposium on Artificial Neural Networks, Computational Intelligence and Machine Learning, pages 269–274, 2012. |
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9 | José Caldas, Nils Gehlenborg, Eeva Kettunen, Ali Faisal, Mikko Rönty, Andrew G. Nicholson, Sakari Knuutila, Alvis Brazma, and Samuel Kaski. Data-driven information retrieval in heterogeneous collections of transcriptomics data links SIM2s to malignant pleural mesothelioma. Bioinformatics, 28(2):246–253, 2012. Supplementary data and source code are available from http://www.ebi.ac.uk/fg/research/rex. |
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2011 |
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8 | Ali Faisal, Riku Louhimo, Leo Lahti, Sampsa Hautaniemi, and Samuel Kaski. Biomarker discovery via dependency analysis of multi-view functional genomics data. In NIPS 2011 workshop "From Statistical Genetics to Predictive Models in Personalized Medicine", 2011. Extended abstract. |
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7 | Riku Louhimo, Viljami Aittomäki, Ali Faisal, Marko Laakso, Ping Chen, Kristian Ovaska, Erkka Valo, Leo Lahti, Vladimir Rogojin, Samuel Kaski, and Sampsa Hautaniemi. Systematic use of computational methods allows stratifying treatment responders in glioblastoma multiforme. In Proceedings of CAMDA 2011 conference, Critical Assessment of Massive Data Analysis, 2011. Source code available at http://csbi.ltdk.helsinki.fi/camda/. |
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6 | Penny Nymark, Mohamed Guled, Ioana Borze, Ali Faisal, Leo Lahti, Kaisa Salmenkivi, Eeva Kettunen, Sisko Anttila, and Sakari Knuutila. Integrative analysis of microRNA, mRNA and aCGH data reveals asbestos- and histology-related changes in lung cancer. Genes, Chromosomes and Cancer, 50(8):585–597, 2011. |
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2010 |
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5 | Ali Faisal, Frank Dondelinger, Dirk Husmeier, and Colin M. Beale. Inferring species interaction networks from species abundance data: A comparative evaluation of various statistical and machine learning methods. Ecological Informatics, 2010. |
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4 | Ali Faisal, Antti Karilainen, Ming Li, Pavan Ramkumar, Pauli Salminen, Marja Turunen, and Olli Pitkänen. Creating a flourishing innovation climate. In Yrjo Neuvo and Sami Ylonen, editors, Bit Bang II - Engergising Innovation, Innovating Energy, pages 8–31. Helsinki University Print, 2010. |
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2009 |
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3 | José Caldas, Nils Gehlenborg, Ali Faisal, Alvis Brazma, and Samuel Kaski. Probabilistic retrieval and visualization of biologically relevant microarray experiments. BMC Bioinformatics, 10:P1, 2009. Poster abstract for the 5th ISCB Student Council. Best poster award. |
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2 | José Caldas, Nils Gehlenborg, Ali Faisal, Alvis Brazma, and Samuel Kaski. Probabilistic retrieval and visualization of biologically relevant microarray experiments. Bioinformatics, 2009. Proc. ISMB/ECCB 2009. |
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2007 |
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1 | Ali Faisal. Europe survival against production outsourcing. In The aging European and ageing Europe. BRIGHT, 2007. |
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