Choice of units of analysis and modeling strategies in multilevel hierarchical models. - José Cortiñas Abrahantes; Geert Molenberghs; Tomasz Burzykowski; Ziv Shkedy; Ariel Alonso Abad; Didier Renard (Comput. Stat. Data Anal., 2004)

Finding Clusters of Positive and Negative Coregulated Genes in Gene Expression Data. - Kerstin Koch; Stefan Schönauer; Ivy Jansen; Jan Van den Bussche; Tomasz Burzykowski (BIBE, 2007)

Comparison of different estimation procedures for proportional hazards model with random effects. - José Cortiñas Abrahantes; Catherine Legrand; Tomasz Burzykowski; Paul Janssen; Vincent Ducrocq; Luc Duchateau (Comput. Stat. Data Anal., 2007)

Performance of Gene Selection and Classification Methods in a Microarray Setting: A Simulation Study. - Suzy Van Sanden; Dan Lin 004; Tomasz Burzykowski (Commun. Stat. Simul. Comput., 2008)

A Comparison of Procedures for Controlling the False Discovery Rate in the Presence of Small Variance Genes: A Simulation Study. - Dan Lin 004; Ziv Shkedy; Tomasz Burzykowski; Willem Talloen; Luc Bijnens (Commun. Stat. Simul. Comput., 2009)

Statistical power calculations for clustered continuous data. - Andrzey T. Galecki; S. Chen; J. A. Faulkner; James A. Ashton-Miller; Tomasz Burzykowski (Int. J. Knowl. Eng. Soft Data Paradigms, 2009)

Simplified modeling strategies for surrogate validation with multivariate failure-time data. - José Cortiñas Abrahantes; Tomasz Burzykowski (Comput. Stat. Data Anal., 2010)

Comparative assessment of trial-level surrogacy measures for candidate time-to-event surrogate endpoints in clinical trials. - Qian Shi; Lindsay A. Renfro; Brian M. Bot; Tomasz Burzykowski; Marc Buyse; Daniel J. Sargent (Comput. Stat. Data Anal., 2011)

A Nonhomogeneous Hidden Markov Model for Gene Mapping Based on Next-Generation Sequencing Data. - Fatemeh Zamanzad Ghavidel; Jürgen Claesen; Tomasz Burzykowski (J. Comput. Biol., 2015)

PLS-SEM Mediation Analysis of Gene-Expression Data for the Evaluation of a Drug Effect. - Daniele Pepe; Tomasz Burzykowski (CIBB, 2016)

A Multivariate Negative-Binomial Model with Random Effects for Differential Gene-Expression Analysis of Correlated mRNA Sequencing Data. - Denis Kazakiewicz; Jürgen Claesen; Katarzyna Górczak; Dariusz Plewczynski; Tomasz Burzykowski (J. Comput. Biol., 2019)

A Conceptual Framework for Abundance Estimation of Genomic Targets in the Presence of Ambiguous Short Sequencing Reads. - Katarzyna Górczak; Jürgen Claesen; Tomasz Burzykowski (J. Comput. Biol., 2020)

A varying-coefficient model for the analysis of methylation sequencing data. - Katarzyna Górczak; Tomasz Burzykowski; Jürgen Claesen (Comput. Biol. Chem., 2024)

Operational characteristics of univariate generalized pairwise comparisons with missing data. - Vaiva Deltuvaite-Thomas; Tomasz Burzykowski (Commun. Stat. Simul. Comput., 2025)

metaGEENOME: an integrated framework for differential abundance analysis of microbiome data in cross-sectional and longitudinal studies. - Ahmed Abdelkader; Nur A. Ferdous; Mohamed El-Hadidi; Tomasz Burzykowski; Mohamed Mysara (BMC Bioinform., 2025)