General formulation and evaluation of agglomerative clustering methods with metric and non-metric distances. - Jorma Boberg; Tapio Salakoski (Pattern Recognit., 1993)

Representative noise-free complete-link classification with application to protein structures. - Jorma Boberg; Tapio Salakoski (Pattern Recognit., 1997)

BioWAP, mobile Internet service for bioinformatics. - Pentti Riikonen; Jorma Boberg; Tapio Salakoski; Mauno Vihinen (Bioinform., 2001)

Mobile access to biological databases on the Internet. - Pentti Riikonen; Jorma Boberg; Tapio Salakoski; Mauno Vihinen (IEEE Trans. Biomed. Eng., 2002)

Analysis of Link Grammar on Biomedical Dependency Corpus Targeted at Protein-Protein Interactions. - Sampo Pyysalo; Filip Ginter; Tapio Pahikkala; Jorma Boberg; Jouni Järvinen; Tapio Salakoski; Jeppe Koivula (NLPBA/BioNLP, 2004)

Extracting Protein-Protein Interaction Sentences by Applying Rough Set Data Analysis. - Filip Ginter; Tapio Pahikkala; Sampo Pyysalo; Jorma Boberg; Jouni Järvinen; Tapio Salakoski (Rough Sets and Current Trends in Computing, 2004)

Ontology-Based Feature Transformations: A Data-Driven Approach. - Filip Ginter; Sampo Pyysalo; Jorma Boberg; Jouni Järvinen; Tapio Salakoski (EsTAL, 2004)

New Techniques for Disambiguation in Natural Language and Their Application to Biological Text. - Filip Ginter; Jorma Boberg; Jouni Järvinen; Tapio Salakoski (J. Mach. Learn. Res., 2004)

Kernels Incorporating Word Positional Information in Natural Language Disambiguation Tasks. - Tapio Pahikkala; Sampo Pyysalo; Filip Ginter; Jorma Boberg; Jouni Järvinen; Tapio Salakoski (FLAIRS, 2005)

Regularized Least-Squares for Parse Ranking. - Evgeni Tsivtsivadze; Tapio Pahikkala; Sampo Pyysalo; Jorma Boberg; Aleksandr Mylläri; Tapio Salakoski (IDA, 2005)

Contextual weighting for Support Vector Machines in literature mining: an application to gene versus protein name disambiguation. - Tapio Pahikkala; Filip Ginter; Jorma Boberg; Jouni Järvinen; Tapio Salakoski (BMC Bioinform., 2005)

Regular Approximation of Link Grammar. - Filip Ginter; Sampo Pyysalo; Jorma Boberg; Tapio Salakoski (FinTAL, 2006)

Incorporating External Information in Bayesian Classifiers Via Linear Feature Transformations. - Tapio Pahikkala; Jorma Boberg; Aleksandr Mylläri; Tapio Salakoski (FinTAL, 2006)

Locality-Convolution Kernel and Its Application to Dependency Parse Ranking. - Evgeni Tsivtsivadze; Tapio Pahikkala; Jorma Boberg; Tapio Salakoski (IEA/AIE, 2006)

Evaluation of two dependency parsers on biomedical corpus targeted at protein-protein interactions. - Sampo Pyysalo; Filip Ginter; Tapio Pahikkala; Jorma Boberg; Jouni Järvinen; Tapio Salakoski (Int. J. Medical Informatics, 2006)

Locality Kernels for Protein Classification. - Evgeni Tsivtsivadze; Jorma Boberg; Tapio Salakoski (WABI, 2007)

BioInfer: a corpus for information extraction in the biomedical domain. - Sampo Pyysalo; Filip Ginter; Juho Heimonen; Jari Björne; Jorma Boberg; Jouni Järvinen; Tapio Salakoski (BMC Bioinform., 2007)

Efficient AUC Maximization with Regularized Least-Squares. - Tapio Pahikkala; Antti Airola; Hanna Suominen; Jorma Boberg; Tapio Salakoski (SCAI, 2008)

A Sparse Regularized Least-Squares Preference Learning Algorithm. - Evgeni Tsivtsivadze; Tapio Pahikkala; Antti Airola; Jorma Boberg; Tapio Salakoski (SCAI, 2008)

Kernels for Text Analysis. - Evgeni Tsivtsivadze; Tapio Pahikkala; Jorma Boberg; Tapio Salakoski (Advances of Computational Intelligence in Industrial Systems, 2008)

Efficient Hold-Out for Subset of Regressors. - Tapio Pahikkala; Hanna Suominen; Jorma Boberg; Tapio Salakoski (ICANNGA, 2009)

Locality kernels for sequential data and their applications to parse ranking. - Evgeni Tsivtsivadze; Tapio Pahikkala; Jorma Boberg; Tapio Salakoski (Appl. Intell., 2009)

Matrix representations, linear transformations, and kernels for disambiguation in natural language. - Tapio Pahikkala; Sampo Pyysalo; Jorma Boberg; Jouni Järvinen; Tapio Salakoski (Mach. Learn., 2009)

An efficient algorithm for learning to rank from preference graphs. - Tapio Pahikkala; Evgeni Tsivtsivadze; Antti Airola; Jouni Järvinen; Jorma Boberg (Mach. Learn., 2009)

Co-Regularized Least-Squares for Label Ranking. - Evgeni Tsivtsivadze; Tapio Pahikkala; Jorma Boberg; Tapio Salakoski; Tom Heskes (Preference Learning, 2010)

Applying Permutation Tests for Assessing the Statistical Significance of Wrapper Based Feature Selection. - Antti Airola; Tapio Pahikkala; Jorma Boberg; Tapio Salakoski (ICMLA, 2010)

Efficient cross-validation for kernelized least-squares regression with sparse basis expansions. - Tapio Pahikkala; Hanna Suominen; Jorma Boberg (Mach. Learn., 2012)