A Diffusion Model for AIDS in a Closed, Heterosexual Population: Examining Rates of Infection. - Denise E. Kirschner (SIAM J. Appl. Math., 1996)

Understanding the Immune Response in Tuberculosis Using Different Mathematical Models and Biological Scales. - David Gammack; Suman Ganguli; Simeone Marino; Jose L. Segovia-Juarez; Denise E. Kirschner (Multiscale Model. Simul., 2005)

Peptide length-based prediction of peptide-MHC class II binding. - Stewart T. Chang; Debashis Ghosh; Denise E. Kirschner; Jennifer J. Linderman (Bioinform., 2006)

Identifying DNA splice sites using hypernetworks with artificial molecular evolution. - Jose L. Segovia-Juarez; Silvano Colombano; Denise E. Kirschner (Biosyst., 2007)

Differences in Reactivation of Tuberculosis Induced from Anti-TNF Treatments Are Based on Bioavailability in Granulomatous Tissue. - Simeone Marino; Dhruv Sud; Hillarie Plessner; Philana Ling Lin; John Chan; JoAnne L. Flynn; Denise E. Kirschner (PLoS Comput. Biol., 2007)

Data-parallel algorithms for agent-based model simulation of tuberculosis on graphics processing units. - Roshan M. D'Souza; Mikola Lysenko; Simeone Marino; Denise E. Kirschner (SpringSim, 2009)

Identification of Key Processes that Control Tumor Necrosis Factor Availability in a Tuberculosis Granuloma. - Mohammad Fallahi-Sichani; Matthew A. Schaller; Denise E. Kirschner; Steven L. Kunkel; Jennifer J. Linderman (PLoS Comput. Biol., 2010)

In silico evaluation and exploration of antibiotic tuberculosis treatment regimens. - Elsje Pienaar; Véronique Dartois; Jennifer J. Linderman; Denise E. Kirschner (BMC Syst. Biol., 2015)

A Multi-Compartment Hybrid Computational Model Predicts Key Roles for Dendritic Cells in Tuberculosis Infection. - Simeone Marino; Denise E. Kirschner (Comput., 2016)

Computational and Empirical Studies Predict Mycobacterium tuberculosis-Specific T Cells as a Biomarker for Infection Outcome. - Simeone Marino; Hannah P. Gideon; Chang Gong; Shawn Mankad; John T. McCrone; Philana Ling Lin; Jennifer J. Linderman; JoAnne L. Flynn; Denise E. Kirschner (PLoS Comput. Biol., 2016)

Comparing efficacies of moxifloxacin, levofloxacin and gatifloxacin in tuberculosis granulomas using a multi-scale systems pharmacology approach. - Elsje Pienaar; Jansy Sarathy; Brendan Prideaux; Jillian Dietzold; Véronique Dartois; Denise E. Kirschner; Jennifer J. Linderman (PLoS Comput. Biol., 2017)

The Role of Dimensionality in Understanding Granuloma Formation. - Simeone Marino; Caitlin Hult; Paul Wolberg; Jennifer J. Linderman; Denise E. Kirschner (Comput., 2018)

Systems biology predicts that fibrosis in tuberculous granulomas may arise through macrophage-to-myofibroblast transformation. - Stephanie Evans; J. Russell Butler; Joshua T. Mattila; Denise E. Kirschner (PLoS Comput. Biol., 2020)

A computational model tracks whole-lung Mycobacterium tuberculosis infection and predicts factors that inhibit dissemination. - Timothy Wessler; Louis R. Joslyn; H. Jacob Borish; Hannah P. Gideon; JoAnne L. Flynn; Denise E. Kirschner; Jennifer J. Linderman (PLoS Comput. Biol., 2020)

Calibration methods to fit parameters within complex biological models. - Pariksheet Nanda; Denise E. Kirschner (Frontiers Appl. Math. Stat., 2023)

Optimizing tuberculosis treatment efficacy: Comparing the standard regimen with Moxifloxacin-containing regimens. - Maral Budak; Joseph M. Cicchese; Pauline Maiello; H. Jacob Borish; Alexander G. White; Harris B. Chishti; Jaime Tomko; L. James Frye; Daniel Fillmore; Kara Kracinovsky; Jennifer Sakal; Charles A. Scanga; et al. (PLoS Comput. Biol., 2023)