Statics of Rigid Units Chain. - Tomasz Lipniacki (Int. J. Bifurc. Chaos, 2001)

Single TNFalpha trimers mediating NF-kappaB activation: stochastic robustness of NF-kappaB signaling. - Tomasz Lipniacki; Krzysztof Puszynski; Pawel Paszek; Allan R. Brasier; Marek Kimmel (BMC Bioinform., 2007)

Adjoint Systems for Models of Cell Signaling Pathways and their Application to Parameter Fitting. - Krzysztof Fujarewicz; Marek Kimmel; Tomasz Lipniacki; Andrzej Swierniak (IEEE ACM Trans. Comput. Biol. Bioinform., 2007)

B Cell Activation Triggered by the Formation of the Small Receptor Cluster: A Computational Study. - Beata Hat; Bogdan Kazmierczak; Tomasz Lipniacki (PLoS Comput. Biol., 2011)

Levels of pro-apoptotic regulator Bad and anti-apoptotic regulator Bcl-xL determine the type of the apoptotic logic gate. - Marta N. Bogdal; Beata Hat; Marek Kochanczyk; Tomasz Lipniacki (BMC Syst. Biol., 2013)

A Spatially Extended Model of Kinase-Receptor Interaction. - Elaine Crooks; Bogdan Kazmierczak; Tomasz Lipniacki (SIAM J. Appl. Math., 2013)

Clustering reveals limits of parameter identifiability in multi-parameter models of biochemical dynamics. - Karol Nienaltowski; Michal Wlodarczyk 001; Tomasz Lipniacki; Michal Komorowski (BMC Syst. Biol., 2015)

Feedbacks, Bifurcations, and Cell Fate Decision-Making in the p53 System. - Beata Hat; Marek Kochanczyk; Marta N. Bogdal; Tomasz Lipniacki (PLoS Comput. Biol., 2016)

SPATKIN: a simulator for rule-based modeling of biomolecular site dynamics on surfaces. - Marek Kochanczyk; William S. Hlavacek; Tomasz Lipniacki (Bioinform., 2017)

Computation and measurement of cell decision making errors using single cell data. - Iman Habibi; Raymond Cheong; Tomasz Lipniacki; Andre Levchenko; Effat S. Emamian; Ali Abdi (PLoS Comput. Biol., 2017)

Epidemic model with strain-dependent transmission rate. - Malay Banerjee; Tomasz Lipniacki; Alberto d'Onofrio; Vitaly Volpert (Commun. Nonlinear Sci. Numer. Simul., 2022)

Slow nucleosome dynamics set the transcriptional speed limit and induce RNA polymerase II traffic jams and bursts. - Robert C. Mines; Tomasz Lipniacki; Xiling Shen (PLoS Comput. Biol., 2022)

A Decision Making Model Where the Cell Exhibits Maximum Detection Probability: Statistical Signal Detection Theory and Molecular Experimental Data. - Ali Emadi; Tomasz Lipniacki; Andre Levchenko; Ali Abdi (CISS, 2023)

The MAPK/ERK channel capacity exceeds 6 bit/hour. - Pawel Nalecz-Jawecki; Paolo Armando Gagliardi; Marek Kochanczyk; Coralie Dessauges; Olivier Pertz; Tomasz Lipniacki (PLoS Comput. Biol., 2023)

Information transmission in a cell monolayer: A numerical study. - Pawel Nalecz-Jawecki; Przemyslaw Szyc; Frederic Grabowski; Marek Kochanczyk; Tomasz Lipniacki (PLoS Comput. Biol., 2025)