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Publications by Yvan Saeys, incl. "extra muros" papers
This page shows "extra muros" publications from Yvan Saeys (without IRC as affiliation).
For copyright reasons, PDF-versions of our publications are available on the intranet only (login required 
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Publications of Yvan SAEYS in the UGent bibliography
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Meyer, P, Siwo, G, Zeevi, D, Sharon, E, Norel, R, Segal, E, Stolovitzky, G, Dream6 consortium, t, Saeys, Y, Marchal, K. Inferring gene expression from ribosomal promoter sequences, a crowdsourcing approach Genome Res 23, 1928-1937, 2013. (Epub 2013 Aug 15) 
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Abeel, T, Van Parys, T, Saeys, Y, Galagan, J, Van de Peer, Y. GenomeView, a next-generation genome browser Nucl Acids Res 40, , 2012. (Epub 2012)
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Huynh-Thu, VA, Saeys, Y, Wehenkel, L, Geurts, P. Statistical interpretation of machine learning-based feature importance scores for biomarker discovery Bioinformatics 28, 1766-1774, 2012. (Epub 2012 Apr 25)
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Marbach, D, Costello, JC, Küffner, R, Vega, NM, Prill, RJ, Camacho, DM, Allison, KR, Kellis, M, Collins, JJ, Stolovitzky, G, the Dream5, Consortium, Saeys, Y. Wisdom of crowds for robust gene network inference Nat Methods 9, 796-804, 2012. (Epub 2012)
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Fostier, J, Proost, S, Dhoedt, B, Saeys, Y, Demeester, P, Van de Peer, Y, Vandepoele, K. A greedy, graph-based algorithm for the alignment of multiple homologous gene lists Bioinformatics 27, 749-756, 2011. (Epub 2011 Jan 6)
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Van Landeghem, S, De Baets, B, Van de Peer, Y, Saeys, Y. High-precision bio-molecular event extraction from text using parallel binary classifiers Comput Intell 27, 645-664, 2011. (Epub 2011)
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Abeel, T, Helleputte, T, Van de Peer, Y, Dupont, P, Saeys, Y. Robust biomarker identification for cancer diagnosis with ensemble feature selection methods Bioinformatics 26, 392-398, 2010. (Epub 2009 Nov 25)
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Middag, C, Saeys, Y, Martens, J-P. Towards an ASR-free objective analysis of pathological speech Interspeech 2010, 294-297, 2010. (Epub 2010)
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Van Landeghem, S, Abeel, T, Saeys, Y, Van de Peer, Y. Discriminative and informative features for biomolecular text mining with ensemble feature selection Bioinformatics 26, i554-i560, 2010. (Epub 2010)
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Abeel, T, Van de Peer, Y, Saeys, Y. Toward a gold standard for promoter prediction evaluation Bioinformatics 25, I313-I320, 2009. (Epub 2009)
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Abeel, T, Saeys, Y, Bonnet, E, Rouzé, P, Van de Peer, Y. Generic eukaryotic core promoter prediction using structural features of DNA Genome Res 18, 310-323, 2008. (Epub 2007 Dec 20)
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Abeel, T, Saeys, Y, Rouzé, P, Van de Peer, Y. ProSOM : core promoter prediction based on unsupervised clustering of DNA physical profiles Bioinformatics 24, I24-I31, 2008. (Epub 2008)
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Armañanzas, R, Inza, I, Santana, R, Saeys, Y, Flores, JL, Lozano, JA, Van de Peer, Y, Blanco, R, Robles, V, Bielza, C, Larranaga, P. A review of estimation of distribution algorithms in bioinformatics BioData Mining 1, 1-12, 2008. (Epub 2008)
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Van Bel, M, Saeys, Y, Van de Peer, Y. FunSiP : a modular and extensible classifier for the prediction of functional sites in DNA Bioinformatics 24, 1532-1533, 2008. (Epub 2008 May 12)
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Michoel, T, Maere, S, Bonnet, E, Joshi, AM, Saeys, Y, Van den Bulcke, T, Van Leemput, K, Van Remortel, P, Kuiper, M, Marchal, K, Van de Peer, Y. Validating module network learning algorithms using simulated data BMC Bioinformatics 8, s5, 2007. (Epub 2007)
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Saeys, Y, Abeel, T, Degroeve, S, Van de Peer, Y. Translation initiation site prediction on a genomic scale : beauty in simplicity Bioinformatics 23, i418-i423, 2007. (Epub 2007)
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Saeys, Y, Inza, I, Larrañaga, P. A review of feature selection techniques in bioinformatics Bioinformatics 23, 2507-2517, 2007. (Epub 2007)
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Saeys, Y, Rouzé, P, Van de Peer, Y. In search of the small ones: improved prediction of short exons in vertebrates, plants, fungi and protists Bioinformatics 23, 414-420, 2007. (Epub 2007 Jan 4)
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Derelle, E, Ferraz, C, Rombauts, S, Rouzé, P, Worden, AZ, Robbens, S, Partensky, F, Degroeve, S, Echeynié, S, Cooke, R, Saeys, Y, Wuyts, J, Jabbari, K, Bowler, C, Panaud, O, Piégu, B, Ball, SG, Ral, J-P, Bouget, F-Y, Piganeau, G, De Baets, B, Picard, A, Delseny, M, Demaille, J, Van de Peer, Y, Moreau, H. Genome analysis of the smallest free-living eukaryote Ostreococcus tauri unveils many unique features Proc Natl Acad Sci USA 103, 11647-11652, 2006. (Epub 2006 Jul 25)
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Degroeve, S, Saeys, Y, De Baets, B, Rouzé, P, Van de Peer, Y. SpliceMachine : predicting splice sites from high-dimensional local context representations Bioinformatics 21, 1332-1338, 2005. (Epub 2004 Nov 25)
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Florquin, K, Saeys, Y, Degroeve, S, Rouzé, P, Van de Peer, Y. Large-scale structural analysis of the core promoter in mammalian and plant genomes Nucl Acids Res 33, 4255-4264, 2005. (Epub 2005)
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Saeys, Y, Degroeve, S, Aeyels, D, Rouze, P, Van de Peer, Y. Feature selection for splice site prediction: A new method using EDA-based feature ranking BMC Bioinformatics 5, 64, 2004. (Epub 2004 May 21)
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Simillion, C, Vandepoele, K, Saeys, Y, Van de Peer, Y. Building genomic profiles for uncovering segmental homology in the twilight zone Genome Res 14, 1095-1106, 2004. (Epub 2004)
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Raes, J, Vandepoele, K, Simillion, C, Saeys, Y, Van de Peer, Y. Investigating ancient duplication events in the Arabidopsis genome J Struct Funct Genomics 3, 117-129, 2003. (Epub 2003)
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Saeys, Y, Degroeve, S, Aeyels, D, Van de Peer, Y, Rouze, P. Fast feature selection using a simple estimation of distribution algorithm : a case study on splice site prediction Bioinformatics 19, ii179-ii188, 2003. (Epub 2003)
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Vandepoele, K, Saeys, Y, Simillion, C, Raes, J, Van de Peer, Y. The automatic detection of homologous regions (ADHoRe) and its application to microcolinearity between Arabidopsis and rice Genome Res 12, 1792-1801, 2002. (Epub 2002)
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