KEGGanim: pathway animations for high-throughput data. - Priit Adler; Jüri Reimand; Jürgen Jänes; Raivo Kolde; Hedi Peterson; Jaak Vilo (Bioinform., 2008)

Robust rank aggregation for gene list integration and meta-analysis. - Raivo Kolde; Sven Laur; Priit Adler; Jaak Vilo (Bioinform., 2012)

GOsummaries: an R Package for Visual Functional Annotation of Experimental Data. - Raivo Kolde; Jaak Vilo (F1000Research, 2015)

seqlm: an MDL based method for identifying differentially methylated regions in high density methylation array data. - Raivo Kolde; Kaspar Märtens; Kaie Lokk; Sven Laur; Jaak Vilo (Bioinform., 2016)

Modeling Patient Treatment Trajectories Using Markov Chains for Cost Analysis. - Markus Haug; Raivo Kolde; Marek Oja; Maarja Pajusalu (MIE, 2023)

Information Extraction from Medical Texts with BERT Using Human-in-the-Loop Labeling. - Hendrik Suvalov; Sven Laur; Raivo Kolde (MIE, 2023)

Implementing a Nordic-Baltic Federated Health Data Network: a case report. - Taridzo Chomutare; Aleksandar Babic; Laura-Maria Peltonen; Silja Elunurm; Peter Lundberg; Arne Jönsson; Emma Eneling; Ciprian-Virgil Gerstenberger; Troels Siggaard; Raivo Kolde; Oskar Jerdhaf; Martin Hansson; et al. (CoRR, 2024)

Markov modeling for cost-effectiveness using federated health data network. - Markus Haug; Marek Oja; Maarja Pajusalu; Kerli Mooses; Sulev Reisberg; Jaak Vilo; Antonio Fernández Giménez; Thomas Falconer; Ana Danilovic; Filip Maljkovic; Dalia Dawoud; Raivo Kolde (J. Am. Medical Informatics Assoc., 2024)

Repeatable process for extracting health data from HL7 CDA documents. - Harry-Anton Talvik; Marek Oja; Sirli Tamm; Kerli Mooses; Dage Särg; Marcus Lõo; Õie Renata Siimon; Hendrik Suvalov; Raivo Kolde; Jaak Vilo; Sulev Reisberg; Sven Laur (J. Biomed. Informatics, 2025)