Thermodynamic modeling of transcription: sensitivity analysis differentiates biological mechanism from mathematical model-induced effects. - Jacqueline M. Dresch; Xiaozhou Liu; David N. Arnosti; Ahmet Ay (BMC Syst. Biol., 2010)

Flanking sequence context-dependent transcription factor binding in early Drosophila development. - Jessica L. Stringham; Adam S. Brown; Robert A. Drewell; Jacqueline M. Dresch (BMC Bioinform., 2013)

Two-Layer Mathematical Modeling of Gene Expression: Incorporating DNA-Level Information and System Dynamics. - Jacqueline M. Dresch; Marc A. Thompson; David N. Arnosti; Chichia Chiu (SIAM J. Appl. Math., 2013)

MARZ: an algorithm to combinatorially analyze gapped n-mer models of transcription factor binding. - Rowan G. Zellers; Robert A. Drewell; Jacqueline M. Dresch (BMC Bioinform., 2015)