CellLine, a stochastic cell lineage simulator. - Andre S. Ribeiro; Daniel A. Charlebois; Jason Lloyd-Price (Bioinform., 2007)

SGN Sim, a Stochastic Genetic Networks Simulator. - Andre S. Ribeiro; Jason Lloyd-Price (Bioinform., 2007)

Dynamic Agent-Based Model of Hand-Preference Behavior Patterns in the Mouse. - Andre S. Ribeiro; Jason Lloyd-Price; Brenda A. Eales; Fred G. Biddle (Adapt. Behav., 2010)

Information propagation within the Genetic Network of Saccharomyces cerevisiae. - Sharif Chowdhury; Jason Lloyd-Price; Olli-Pekka Smolander; Wayne C. V. Baici; Timothy R. Hughes; Olli Yli-Harja; Gordon Chua; Andre S. Ribeiro (BMC Syst. Biol., 2010)

Diversity of temporal correlations between genes in models of noisy and noiseless gene networks. - Andre S. Ribeiro; Jason Lloyd-Price; Sharif Chowdhury; Olli Yli-Harja (Biosyst., 2011)

Stochastic sequence-level model of coupled transcription and translation in prokaryotes. - Jarno Mäkelä; Jason Lloyd-Price; Olli Yli-Harja; Andre S. Ribeiro (BMC Bioinform., 2011)

In vivo kinetics of transcription initiation of the lar promoter in Escherichia coli. Evidence for a sequential mechanism with two rate-limiting steps. - Meenakshisundaram Kandhavelu; Henrik Mannerström; Abhishekh Gupta; Antti Häkkinen; Jason Lloyd-Price; Olli Yli-Harja; Andre S. Ribeiro (BMC Syst. Biol., 2011)

SGNS2: a compartmentalized stochastic chemical kinetics simulator for dynamic cell populations. - Jason Lloyd-Price; Abhishekh Gupta; Andre S. Ribeiro (Bioinform., 2012)

Effects of gene length on the dynamics of gene expression. - Andre S. Ribeiro; Antti Häkkinen; Jason Lloyd-Price (Comput. Biol. Chem., 2012)

In silico analysis of division times of Escherichia coli populations as a function of the partitioning scheme of non-functional proteins. - Abhishekh Gupta; Jason Lloyd-Price; Andre S. Ribeiro (Silico Biol., 2012)

Modelling Polar Retention of Complexes in Escherichia coli. - Abhishekh Gupta; Jason Lloyd-Price; Andre S. Ribeiro (CMSB, 2014)

Temperature-Dependent Model of Multi-step Transcription Initiation in Escherichia coli Based on Live Single-Cell Measurements. - Samuel M. D. Oliveira; Antti Häkkinen; Jason Lloyd-Price; Huy Tran; Vinodh Kandavalli; Andre S. Ribeiro (PLoS Comput. Biol., 2016)

sgnesR: An R package for simulating gene expression data from an underlying real gene network structure considering delay parameters. - Shailesh Tripathi; Jason Lloyd-Price; Andre S. Ribeiro; Olli Yli-Harja; Matthias Dehmer; Frank Emmert-Streib (BMC Bioinform., 2017)

High-sensitivity pattern discovery in large, paired multiomic datasets. - Andrew R. Ghazi; Kathleen Sucipto; Ali Rahnavard; Eric A. Franzosa; Lauren J. McIver; Jason Lloyd-Price; Emma H. Schwager; George Weingart; Yo Sup Moon; Xochitl C. Morgan; Levi Waldron; Curtis Huttenhower (Bioinform., 2022)