KERMIT -- Research Unit Knowledge-based Systems

Journal Papers

Year

All
2018 (1)
2017 (2)
2016 (2)
2015 (1)
2014 (2)
2013 (2)
2012 (1)

(11) A comparative study of pairwise learning methods based on Kernel Ridge Regression
M. Stock, T. Pahikkala, A. Airola, B. De Baets and W. Waegeman
(2018) NEURAL COMPUTATION. 30, 2245-2283.

(10) miSTAR: miRNA target prediction through modeling quantitative and qualitative miRNA binding site information in a stacked model structure
G. Van Peer, A. De Paepe, M. Stock, J. Anckaert, P-J. Volders, J. Vandesompele, B. De Baets and W. Waegeman
(2017) NUCLEIC ACIDS RESEARCH. 45, e51.

(9) Linear filtering reveals false negatives in species interaction data
M. Stock, T. Poisot, W. Waegeman and B. De Baets
(2017) SCIENTIFIC REPORTS. 7, 45908.

(8) Exact and efficient top-K inference for multi-target prediction by querying separable linear relational models
M. Stock, K. Dembczyński, B. De Baets and W. Waegeman
(2016) DATA MINING AND KNOWLEDGE DISCOVERY. 30, 1370-1394.

(7) Data-driven recipe completion using machine learning methods
M. De Clercq, M. Stock, B. De Baets and W. Waegeman
(2016) TRENDS IN FOOD SCIENCE & TECHNOLOGY. 49, 1-13.

(6) A decoy-free approach to the identification of peptides
G. Gonnelli, M. Stock, J. Verwaeren, D. Maddelein, B. De Baets, L. Martens and S. Degroeve
(2015) JOURNAL OF PROTEOME RESEARCH. 14, 1792-1798.

(5) A community effort to assess and improve drug sensitivity prediction algorithms
J.C. Costello, L.M. Heiser, E. Georgii, M. Gönen, M.P. Menden, N.J. Wang, M. Bansal, M. Ammad-ud-din, P. Hintsanen, S.A. Khan, J.-P. Mpindi, O. Kallioniemi, A. Honkela, T. Aittokallio, K. Wennerberg, J.-P. Abbuehl, J. Allen, R.B. Altman, S. Balcome, A. Battle, A. Bender, B. Berger, J. Bernard, M. Bhattacharjee, K. Bhuvaneshwar, A.A. Bieberich, F. Boehm, A. Califano, C. Chan, B. Chen, T.-H. Chen, J. Choi, L.P. Coelho, T. Cokelaer, C.J. Creighton, J. Cui, W. Dampier, V.J. Davisson, B. De Baets, R. Deshpande, B. DiCamillo, M. Dundar, Z. Duren, A. Ertel, H. Fan, H. Fang, R. Gauba, A. Gottlieb, M. Grau, Y. Gusev, M.J. Ha, L. Han, M. Harris, N. Henderson, H.A. Hejase, K. Homicsko, J.P. Hou, W. Hwang, A.P. Ijzerman, B. Karacali, S. Keles, C. Kendziorski, J. Kim, M. Kim, Y. Kim, D.A. Knowles, D. Koller, J. Lee, J.K. Lee, E.B. Lenselink, B. Li, B. Li, J. Li, H. Liang, J. Ma, S. Madhavan, S. Mooney, C.L. Myers, M.A Newton, J.P. Overington, R. Pal, J. Peng, R. Pestell, R.J. Prill, P. Qiu, B. Rajwa, A. Sadanandam, F. Sambo, H. Shin, J. Song, L. Song, A. Sridhar, M. Stock, W. Sun, T. Ta, M. Tadesse, M. Tan, H. Tang, D. Theodorescu, G.M. Toffolo, A. Tozeren, W. Trepicchio, N. Varoquaux, J.-P. Vert, W. Waegeman, T. Walter, Q. Wan, D. Wang, W. Wang, Y. Wang, Z. Wang, J.K. Wegner, T. Wu, T. Xia, G. Xiao, Y. Xie, Y. Xu, J. Yang, Y. Yuan, S. Zhang, X.-S. Zhang, J. Zhao, C. Zuo, H.W.T. van Vlijmen, G.J.P. van Westen, J.J. Collins, D. Gallahan, D. Singer, J. Saez-Rodriguez, S. Kaski, J.W. Gray and G. Stolovitzky
(2014) NATURE BIOTECHNOLOGY. 32, 1202-1212.

(4) Identification of functionally-related enzymes by learning-to-rank methods and cavity-based similarity measures
M. Stock, T. Fober, E. Hüllermeier, S. Glinca, G. Klebe, T. Pahikkala, A. Airola, B. De Baets and W. Waegeman
(2014) IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS. 11, 1157-1169.

(3) Exploration and prediction of interactions between methanotrophs and heterotrophs
M. Stock, S. Hoefman, F.-M. Kerckhof, N. Boon, P. De Vos, B. De Baets, K. Heylen and W. Waegeman
(2013) RESEARCH IN MICROBIOLOGY. 10, 1045-1054.

(2) Efficient regularized least-squares algorithms for conditional ranking on relational data
T. Pahikkala, A. Airola, M. Stock, B. De Baets and W. Waegeman
(2013) MACHINE LEARNING. 93, 321-356.

(1) A kernel-based framework for learning graded relations from data
W. Waegeman, T. Pahikkala, A. Airola, T. Salakoski, M. Stock and B. De Baets
(2012) IEEE TRANSACTIONS ON FUZZY SYSTEMS. 20, 1090-1101.

Journal Papers

Authors

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