GenePath: a system for inference of genetic networks and proposal of genetic experiments. - Blaz Zupan; Ivan Bratko; Janez Demsar; Peter Juvan; Tomaz Curk; Urban Borstnik; J. Robert Beck; John A. Halter; Adam Kuspa; Gad Shaulsky (Artif. Intell. Medicine, 2003)

Clustering gene expression data with Temporal Abstractions. - Lucia Sacchi; Riccardo Bellazzi; Cristiana Larizza; Paolo Magni; Tomaz Curk; Uros Petrovic; Blaz Zupan (MedInfo, 2004)

Orange: From Experimental Machine Learning to Interactive Data Mining. - Janez Demsar; Blaz Zupan; Gregor Leban; Tomaz Curk (PKDD, 2004)

Microarray data mining with visual programming. - Tomaz Curk; Janez Demsar; Qikai Xu; Gregor Leban; Uros Petrovic; Ivan Bratko; Gad Shaulsky; Blaz Zupan (Bioinform., 2005)

VizRank: finding informative data projections in functional genomics by machine learning. - Gregor Leban; Ivan Bratko; Uros Petrovic; Tomaz Curk; Blaz Zupan (Bioinform., 2005)

TA-clustering: Cluster analysis of gene expression profiles through Temporal Abstractions. - Lucia Sacchi; Riccardo Bellazzi; Cristiana Larizza; Paolo Magni; Tomaz Curk; Uros Petrovic; Blaz Zupan (Int. J. Medical Informatics, 2005)

Polyketide synthase genes and the natural products potential of Dictyostelium discoideum. - Jurica Zucko; N. Skunca; Tomaz Curk; Blaz Zupan; Paul F. Long; John Cullum; R. H. Kessin; Daslav Hranueli (Bioinform., 2007)

On Quality of Different Annotation Sources for Gene Expression Analysis. - Francesca Mulas; Tomaz Curk; Riccardo Bellazzi; Blaz Zupan (AIME, 2009)

dictyExpress: a Dictyostelium discoideum gene expression database with an explorative data analysis web-based interface. - Gregor Rot; Anup Parikh; Tomaz Curk; Adam Kuspa; Gad Shaulsky; Blaz Zupan (BMC Bioinform., 2009)

dictyBase - a Dictyostelium bioinformatics resource update. - Petra Fey; Pascale Gaudet; Tomaz Curk; Blaz Zupan; Eric M. Just; Siddhartha Basu; Sohel N. Merchant; Yulia A. Bushmanova; Gad Shaulsky; Warren A. Kibbe; Rex L. Chisholm (Nucleic Acids Res., 2009)

On utility of gene set signatures in gene expression-based cancer class prediction. - Minca Mramor; Marko Toplak; Gregor Leban; Tomaz Curk; Janez Demsar; Blaz Zupan (MLSB, 2010)

A Subgroup Discovery Approach for Relating Chemical Structure and Phenotype Data in Chemical Genomics. - Lan Umek; Petra Kaferle; Mojca Mattiazzi; Ales Erjavec; Crtomir Gorup; Tomaz Curk; Uros Petrovic; Blaz Zupan (MLSB, 2010)

Similarity of Transcription Profiles for Genes in Gene Sets. - Marko Toplak; Tomaz Curk; Blaz Zupan (ICANNGA (2), 2011)

SNPsyn: detection and exploration of SNP-SNP interactions. - Tomaz Curk; Gregor Rot; Blaz Zupan (Nucleic Acids Res., 2011)

Orange: data mining toolbox in python. - Janez Demsar; Tomaz Curk; Ales Erjavec; Crtomir Gorup; Tomaz Hocevar; Mitar Milutinovic; Martin Mozina; Matija Polajnar; Marko Toplak; Anze Staric; Miha Stajdohar; Lan Umek; et al. (J. Mach. Learn. Res., 2013)

Heterogeneous computing architecture for fast detection of SNP-SNP interactions. - Davor Sluga; Tomaz Curk; Blaz Zupan; Uros Lotric (BMC Bioinform., 2014)

Recursive splicing in long vertebrate genes. - Christopher R. Sibley; Warren Emmett; Lorea Blazquez; Ana Faro; Nejc Haberman; Michael Briese; Daniah Trabzuni; Mina Ryten; Michael E. Weale; John Hardy; Miha Modic; Tomaz Curk; et al. (Nat., 2015)

Orthogonal matrix factorization enables integrative analysis of multiple RNA binding proteins. - Martin Strazar; Marinka Zitnik; Blaz Zupan; Jernej Ule; Tomaz Curk (Bioinform., 2016)

Learning the kernel matrix via predictive low-rank approximations. - Martin Strazar; Tomaz Curk (CoRR, 2016)

Generating inter-dependent data streams for recommender systems. - Martin Jakomin; Tomaz Curk; Zoran Bosnic (Simul. Model. Pract. Theory, 2018)

Approximate multiple kernel learning with least-angle regression. - Martin Strazar; Tomaz Curk (Neurocomputing, 2019)

Data embedding and prediction by sparse tropical matrix factorization. - Amra Omanovic; Hilal Kazan; Polona Oblak; Tomaz Curk (CoRR, 2020)

Relation chaining in binary positive-only recommender systems. - Rok Gomiscek; Tomaz Curk (Expert Syst. Appl., 2020)

Simultaneous incremental matrix factorization for streaming recommender systems. - Martin Jakomin; Zoran Bosnic; Tomaz Curk (Expert Syst. Appl., 2020)

Sparse data embedding and prediction by tropical matrix factorization. - Amra Omanovic; Hilal Kazan; Polona Oblak; Tomaz Curk (BMC Bioinform., 2021)

FastSTMF: Efficient tropical matrix factorization algorithm for sparse data. - Amra Omanovic; Polona Oblak; Tomaz Curk (CoRR, 2022)

Matrix Tri-Factorization Over the Tropical Semiring. - Amra Omanovic; Polona Oblak; Tomaz Curk (IEEE Access, 2023)

Open data and quantitative techniques for anthropology of road traffic. - Ajda Pretnar Zagar; Tomaz Hocevar; Tomaz Curk (EPJ Data Sci., 2023)

Latent Embedding Based on a Transcription-Decay Decomposition of mRNA Dynamics Using Self-supervised CoxPH. - Martin Spendl; Tomaz Curk; Blaz Zupan (DS (1), 2024)

Teaching bioinformatics through the analysis of SARS-CoV-2: project-based training for computer science students. - Pavlin G. Policar; Martin Spendl; Tomaz Curk; Blaz Zupan (Bioinform., 2024)

Automated Assignment Grading with Large Language Models: Insights From a Bioinformatics Course. - Pavlin G. Policar; Martin Spendl; Tomaz Curk; Blaz Zupan (CoRR, 2025)