Problems of learning in multi-agent systems. - Lenka Lhotská; Jirí Kléma; Olga Stepánková (BASYS, 1998)

Evolving Groups of Basic Decision Trees. - Matej Sprogar; Peter Kokol; Milan Zorman; Vili Podgorelec; Lenka Lhotská; Jirí Kléma (CBMS, 2001)

Notes on Medical Decision Model Creation. - Matej Sprogar; Peter Kokol; Milan Zorman; Vili Podgorelec; Lenka Lhotská; Jirí Kléma (ISMDA, 2001)

Optimized Model Tuning in Medical Systems. - Jirí Kléma; Jirí Kubalík; Jiri Palous (CBMS, 2002)

Data Mining and Resource Allocation: A Case Study. - Olga Stepánková; Jirí Kléma; Stepán Lauryn; Petr Miksovský; Lenka Nováková (BASYS, 2002)

Application of Soft Computing Techniques to Rescue Operation Planning. - Jirí Kubalík; Jirí Kléma; Miroslav Kulich (ICAISC, 2004)

Intelligent Diagnosis and Learning in Centrifugal Pumps. - Jirí Kléma; Ondrej Flek; Jan Kout; Lenka Nováková (BASYS, 2004)

Optimized model tuning in medical systems. - Jirí Kléma; Jirí Kubalík; Lenka Lhotská (Comput. Methods Programs Biomed., 2005)

Mining Plausible Patterns from Genomic Data. - Jirí Kléma; Arnaud Soulet; Bruno Crémilleux; Sylvain Blachon; Olivier Gandrillon (CBMS, 2006)

Efficient Mining Under Rich Constraints Derived from Various Datasets. - Arnaud Soulet; Jirí Kléma; Bruno Crémilleux (KDID, 2006)

Gene expression data mining guided by genomic background knowledge. - Pavel Smrz; Jana Silhavá; Jirí Kléma; Filip Zelezný (SOFSEM (2), 2008)

Constraint-Based Knowledge Discovery from SAGE Data. - Jirí Kléma; Sylvain Blachon; Arnaud Soulet; Bruno Crémilleux; Olivier Gandrillon (Silico Biol., 2008)

Sequential Data Mining: A Comparative Case Study in Development of Atherosclerosis Risk Factors. - Jirí Kléma; Lenka Nováková; Filip Karel; Olga Stepánková; Filip Zelezný (IEEE Trans. Syst. Man Cybern. Part C, 2008)

Integrating Multiple-Platform Expression Data through Gene Set Features. - Matej Holec; Filip Zelezný; Jirí Kléma; Jakub Tolar (ISBRA, 2009)

Combining sequence and itemset mining to discover named entities in biomedical texts: a new type of pattern. - Marc Plantevit; Thierry Charnois; Jirí Kléma; Christophe Rigotti; Bruno Crémilleux (Int. J. Data Min. Model. Manag., 2009)

Comparative Evaluation of Set-Level Techniques in Microarray Classification. - Jirí Kléma; Matej Holec; Filip Zelezný; Jakub Tolar (ISBRA, 2011)

Schizophrenia Prediction with the Adaboost Algorithm. - Jan Hrdlicka; Jirí Kléma (MIE, 2011)

Machine learning applications in bioinformatics. - Jirí Kléma (ITAT, 2012)

Comparative evaluation of set-level techniques in predictive classification of gene expression samples. - Matej Holec; Jirí Kléma; Filip Zelezný; Jakub Tolar (BMC Bioinform., 2012)

Empirical Evidence of the Applicability of Functional Clustering through Gene Expression Classification. - Milos Krejnik; Jirí Kléma (IEEE ACM Trans. Comput. Biol. Bioinform., 2012)

Network-constrained forest for regularized omics data classification. - Michael Andel; Jirí Kléma; Zdenek Krejcík (BIBM, 2014)

Knowledge-based Subtractive Integration of mRNA and miRNA Expression Profiles to Differentiate Myelodysplastic Syndrome. - Jirí Kléma; Jan Zahálka; Michael Andel; Zdenek Krejcík (BIOINFORMATICS, 2014)

Interaction-Based Aggregation of mRNA and miRNA Expression Profiles to Differentiate Myelodysplastic Syndrome. - Jirí Kléma; Jan Zahálka; Michael Andel; Zdenek Krejcík (BIOSTEC (Selected Papers), 2014)

miXGENE Tool for Learning from Heterogeneous Gene Expression Data Using Prior Knowledge. - Matej Holec; Valentin Gologuzov; Jirí Kléma (CBMS, 2014)

Sparse omics-network regularization to increase interpretability and performance of linear classification models. - Michael Andel; Filip Masri; Jirí Kléma; Zdenek Krejcík; Monika Belickova (BIBM, 2015)

Sequential pattern mining for discovering gene interactions and their contextual information from biomedical texts. - Peggy Cellier; Thierry Charnois; Marc Plantevit; Christophe Rigotti; Bruno Crémilleux; Olivier Gandrillon; Jirí Kléma; Jean-Luc Manguin (J. Biomed. Semant., 2015)

Evaluating Model-free Directional Dependency Methods on Single-cell RNA Sequencing Data with Severe Dropout. - Eliska Dvoráková; Sajal Kumar; Jirí Kléma; Filip Zelezný; Karel Drbal; Mingzhou Song 001 (ICBRA, 2019)

Finding semantic patterns in omics data using concept rule learning with an ontology-based refinement operator. - Frantisek Malinka; Filip Zelezný; Jirí Kléma (BioData Min., 2020)

On functional annotation with gene co-expression networks. - Vladimír Kunc; Jirí Kléma (BIBM, 2022)

circGPA: circRNA functional annotation based on probability-generating functions. - Petr Rysavý; Jirí Kléma; Michaela Dostálová Merkerová (BMC Bioinform., 2022)

Directed Evolution of Proteins via Bayesian Optimization in Embedding Space. - Matous Soldát; Jirí Kléma (BIBM, 2024)

GPACDA - circRNA-Disease Association Prediction with Generating Polynomials. - Petr Rysavý; Jirí Kléma; Michaela Dostálová Merkerová (IWBBIO (1), 2024)

Three Decades of Activations: A Comprehensive Survey of 400 Activation Functions for Neural Networks. - Vladimír Kunc; Jirí Kléma (CoRR, 2024)

circGPAcorr: an integrative tool for functional annotation of circular RNAs using expression data. - Petr Rysavý; Alikhan Anuarbekov; Michaela Dostálová Merkerová; Jirí Kléma (BioData Min., 2025)

Utilizing RNA-seq data in monotone iterative generalized linear model to elevate prior knowledge quality of the circRNA-miRNA-mRNA regulatory axis. - Alikhan Anuarbekov; Jirí Kléma (BMC Bioinform., 2025)