Regulatory Network Reconstruction Using Stochastic Logical Networks. - Bartek Wilczynski; Jerzy Tiuryn (CMSB, 2006)

Applying dynamic Bayesian networks to perturbed gene expression data. - Norbert Dojer; Anna Gambin; Andrzej Mizera; Bartek Wilczynski; Jerzy Tiuryn (BMC Bioinform., 2006)

Using local gene expression similarities to discover regulatory binding site modules. - Bartek Wilczynski; Torgeir R. Hvidsten; Andriy Kryshtafovych; Jerzy Tiuryn; Henryk Jan Komorowski; Krzysztof Fidelis (BMC Bioinform., 2006)

Reconstruction of Mammalian Cell Cycle Regulatory Network from Microarray Data Using Stochastic Logical Networks. - Bartek Wilczynski; Jerzy Tiuryn (CMSB, 2007)

Biopython: freely available Python tools for computational molecular biology and bioinformatics. - Peter J. A. Cock; Tiago Antao; Jeffrey T. Chang; Brad A. Chapman; Cymon J. Cox; Andrew Dalke; Iddo Friedberg; Thomas Hamelryck; Frank Kauff; Bartek Wilczynski; Michiel J. L. de Hoon (Bioinform., 2009)

BNFinder: exact and efficient method for learning Bayesian networks. - Bartek Wilczynski; Norbert Dojer (Bioinform., 2009)

Finding evolutionarily conserved cis-regulatory modules with a universal set of motifs. - Bartek Wilczynski; Norbert Dojer; Mateusz Patelak; Jerzy Tiuryn (BMC Bioinform., 2009)

A Computer Scientist's Guide to the Regulatory Genome. - Bartek Wilczynski; Torgeir R. Hvidsten (Fundam. Informaticae, 2010)

Modeling Cell Populations in Development using Individual Stochastic Regulatory Networks. - Pawel Bednarz; Bartek Wilczynski (SIMULTECH, 2012)

Predicting Spatial and Temporal Gene Expression Using an Integrative Model of Transcription Factor Occupancy and Chromatin State. - Bartek Wilczynski; Ya-Hsin Liu; Zhen Xuan Yeo; Eileen E. M. Furlong (PLoS Comput. Biol., 2012)

BNFinder2: Faster Bayesian network learning and Bayesian classification. - Norbert Dojer; Pawel Bednarz; Agnieszka Podsiadlo; Bartek Wilczynski (Bioinform., 2013)

Active enhancer positions can be accurately predicted from chromatin marks and collective sequence motif data. - Agnieszka Podsiadlo; Mariusz Wrzesien; Wieslaw Paja; Witold R. Rudnicki; Bartek Wilczynski (BMC Syst. Biol., 2013)

Fast Parallel Bayesian Networks Reconstruction with BNFinder. - Alina Frolova; Bartek Wilczynski (IWBBIO, 2014)

Supervised learning method for predicting chromatin boundary associated insulator elements. - Pawel Bednarz; Bartek Wilczynski (J. Bioinform. Comput. Biol., 2014)

Optimally choosing PWM motif databases and sequence scanning approaches based on ChIP-seq data. - Michal Dabrowski; Norbert Dojer; Izabella Krystkowiak; Bozena Kaminska; Bartek Wilczynski (BMC Bioinform., 2015)

FastBill: An Improved Tool for Prediction of Cis-Regulatory Modules. - Bartek Wilczynski; Jerzy Tiuryn (J. Comput. Biol., 2017)

BPscore: An Effective Metric for Meaningful Comparisons of Structural Chromosome Segmentations. - Rafal Zaborowski; Bartek Wilczynski (J. Comput. Biol., 2019)