Comparative analysis of the annotation systems of Mus musculus high density expression microarray. - Anna Cichonska; Roman Jaksik; Joanna Polanska; Wieslawa Widlak (IWBBIO, 2013)

metaCCA: summary statistics-based multivariate meta-analysis of genome-wide association studies using canonical correlation analysis. - Anna Cichonska; Juho Rousu; Pekka Marttinen; Antti J. Kangas; Pasi Soininen; Terho Lehtimäki; Olli T. Raitakari; Marjo-Riitta Järvelin; Veikko Salomaa; Mika Ala-Korpela; Samuli Ripatti; Matti Pirinen (Bioinform., 2016)

Computational-experimental approach to drug-target interaction mapping: A case study on kinase inhibitors. - Anna Cichonska; Balaguru Ravikumar; Elina Parri; Sanna Timonen; Tapio Pahikkala; Antti Airola; Krister Wennerberg; Juho Rousu; Tero Aittokallio (PLoS Comput. Biol., 2017)

Learning with multiple pairwise kernels for drug bioactivity prediction. - Anna Cichonska; Tapio Pahikkala; Sándor Szedmák; Heli Julkunen; Antti Airola; Markus Heinonen; Tero Aittokallio; Juho Rousu (Bioinform., 2018)

Machine Learning for Systems Pharmacology. - Anna Cichonska (2018)

A Solution for Large Scale Nonlinear Regression with High Rank and Degree at Constant Memory Complexity via Latent Tensor Reconstruction. - Sándor Szedmák; Anna Cichonska; Heli Julkunen; Tapio Pahikkala; Juho Rousu (CoRR, 2020)

Modeling drug combination effects via latent tensor reconstruction. - Tianduanyi Wang; Sándor Szedmák; Haishan Wang; Tero Aittokallio; Tapio Pahikkala; Anna Cichonska; Juho Rousu (Bioinform., 2021)

Preference Optimization for Molecular Language Models. - Ryan Park; Ryan Theisen; Navriti Sahni; Marcel Patek; Anna Cichonska; Rayees Rahman (CoRR, 2023)