A life-like virtual cell membrane using discrete automata. - Gordon Broderick; Melania Rúaini; Eugene Chan; Michael J. Ellison (Silico Biol., 2004)

Extraction of elementary rate constants from global network analysis of E. coli central metabolism. - Jiao Zhao; Douglas Ridgway; Gordon Broderick; Andriy Kovalenko 001; Michael J. Ellison (BMC Syst. Biol., 2008)

Model-Based Therapeutic Correction of Hypothalamic-Pituitary-Adrenal Axis Dysfunction. - Amos Ben-Zvi; Suzanne D. Vernon; Gordon Broderick (PLoS Comput. Biol., 2009)

Selecting Optimal Models Based on Efficiency and Robustness in Multi-valued Biological Networks. - Hooman Sedghamiz; Wenxiang Chen; Mark Rice; L. Darrell Whitley; Gordon Broderick (BIBE, 2017)

High-fidelity discrete modeling of the HPA axis: a study of regulatory plasticity in biology. - Hooman Sedghamiz; Matthew C. Morris; Travis J. A. Craddock; L. Darrell Whitley; Gordon Broderick (BMC Syst. Biol., 2018)

Feedback Regulation of Immune Response to Maximum Exercise in Gulf War Illness. - Cole A. Lyman; Mark J. Clement; Travis J. A. Craddock; Mary Fletcher; Nancy G. Klimas; Gordon Broderick (BCB, 2019)

When the How Outweighs the What: the Pivotal Importance of Context. - Cole A. Lyman; Connor Anderson 001; Matthew C. Morris; Umesh K. Nandal; Marianna J. Martindale; Mark J. Clement; Gordon Broderick (BIBM, 2019)

Predicting the Immune Response to Repurposed Drugs in Coronavirus-induced Cytokine Storm. - Matthew C. Morris; Cole A. Lyman; Spencer Richman; Hong Bao Cao; Chris Cheadle; Gordon Broderick (BIBE, 2020)

Hacking the Immune Response to Infection in Chronic Obstructive Pulmonary Disease. - Matthew C. Morris; Spencer Richman; Cole A. Lyman; Jun Qu; Manoj J. Mammen; Sanjay Sethi; Gordon Broderick (BIBE, 2020)

High Fidelity Modeling of Pulse Dynamics using Logic Networks. - Cole A. Lyman; Matthew C. Morris; Spencer Richman; Hong Bao Cao; Antony Scerri; Chris Cheadle; Gordon Broderick (BIBM, 2021)

Leveraging Drug-Target Interaction Data for the Translation of Computational Models into Clinically Actionable Interventions. - Spencer C. Richmanz; Cole A. Lyman; Matthew C. Morris; Hongbao Cao; Anastasia Nesterovay; Anton Yuryevy; Chris Cheadle; Gordon Broderick (BIBM, 2021)

Refinement of Biological Regulatory Graphs using Functional Enrichment. - Jeffrey M. Page; Matthew C. Morris; Gary R. Skuse; Gordon Broderick (BIBM, 2022)

Mapping Signaling Mechanisms in Neurotoxic Injury from Sparsely Sampled Data Using a Constraint Satisfaction Framework. - Jeffery Page; Kimberly A. Kelly; Lindsay T. Michalovicz; James P. O'Callahghan; Shichen Shen; Xiaoyu Zhu; Jun Qu; Jonathan Boyd; Gordon Broderick (HCI (11), 2024)

Incorporating Regional Brain Connectivity Profiles into the Inference of Exposure-Related Neurobehavioral Burden in Explosive Ordnance Disposal Veterans. - Jeffrey M. Page; Hyuk Oh; Thomas Chacko; Immanuel Babu Henry Samuel; Calvin Lu; Robert D. Forsten; Matthew J. Reinhard; Michelle E. Costanzo; Gordon Broderick (HCI (27), 2024)

Identifying Protein Co-regulatory Network Logic by Solving B-SAT Problems through Gate-based Quantum Computing. - Aspen Erlandsson Brisebois; Jason Broderick; Zahed Khatooni; Heather L. Wilson; Steven Rayan; Gordon Broderick (CoRR, 2025)

GPU-accelerated Modeling of Biological Regulatory Networks. - Joyce Reimer; Pranta Saha; Chris Chen; Neeraj Dhar; Brook Byrns; Steven Rayan; Gordon Broderick (CoRR, 2025)

Reconstructing Biological Pathways by Applying Selective Incremental Learning to (Very) Small Language Models. - Pranta Saha; Joyce Reimer; Brook Byrns; Connor Burbridge; Neeraj Dhar; Jeffrey Chen; Steven Rayan; Gordon Broderick (CoRR, 2025)