ENteric Immunity SImulator: A Tool for in silico Study of Gut Immunopathologies. - Katherine V. Wendelsdorf; Josep Bassaganya-Riera; Keith R. Bisset; Stephen G. Eubank; Raquel Hontecillas; Madhav V. Marathe (BIBM, 2011)

ENISI Visual, an agent-based simulator for modeling gut immunity. - Yongguo Mei; Raquel Hontecillas; Xiaoying Zhang; Keith R. Bisset; Stephen G. Eubank; Stefan Hoops; Madhav V. Marathe; Josep Bassaganya-Riera (BIBM, 2012)

High-Performance Interaction-Based Simulation of Gut Immunopathologies with ENteric Immunity Simulator (ENISI). - Keith R. Bisset; Md. Maksudul Alam; Josep Bassaganya-Riera; Adria Carbo; Stephen G. Eubank; Raquel Hontecillas; Stefan Hoops; Yongguo Mei; Katherine V. Wendelsdorf; Dawen Xie; Jae-Seung Yeom; Madhav V. Marathe (IPDPS, 2012)

ENISI SDE: A novel web-based stochastic modeling tool for computational biology. - Yongguo Mei; Adria Carbo; Raquel Hontecillas; Josep Bassaganya-Riera (BIBM, 2013)

Neural network models for classifying immune cell subsets. - Yongguo Mei; Raquel Hontecillas; Xiaoying Zhang; Adria Carbo; Josep Bassaganya-Riera (BIBM, 2013)

Systems Modeling of Molecular Mechanisms Controlling Cytokine-driven CD4+ T Cell Differentiation and Phenotype Plasticity. - Adria Carbo; Raquel Hontecillas; Barbara Kronsteiner; Monica Viladomiu; Mireia Pedragosa; Pinyi Lu; Casandra W. Philipson; Stefan Hoops; Madhav V. Marathe; Stephen G. Eubank; Keith R. Bisset; Katherine V. Wendelsdorf; et al. (PLoS Comput. Biol., 2013)

ENISI MSM: A novel multi-scale modeling platform for computational immunology. - Yongguo Mei; Adria Carbo; Raquel Hontecillas; Stefan Hoops; Nathan Liles; Pinyi Lu; Casandra W. Philipson; Josep Bassaganya-Riera (BIBM, 2014)

ENISI multiscale modeling of mucosal immune responses driven by high performance computing. - Vida Abedi; Raquel Hontecillas; Stefan Hoops; Nathan Liles; Adria Carbo; Pinyi Lu; Casandra W. Philipson; Josep Bassaganya-Riera (BIBM, 2015)

Supervised learning methods in modeling of CD4+ T cell heterogeneity. - Pinyi Lu; Vida Abedi; Yongguo Mei; Raquel Hontecillas; Stefan Hoops; Adria Carbo; Josep Bassaganya-Riera (BioData Min., 2015)

Pharmacophore modeling improves virtual screening for novel peroxisome proliferator-activated receptor-gamma ligands. - Stephanie N. Lewis; Zulma Garcia; Raquel Hontecillas; Josep Bassaganya-Riera; David R. Bevan (J. Comput. Aided Mol. Des., 2015)

ENISI SDE: A New Web-Based Tool for Modeling Stochastic Processes. - Yongguo Mei; Adria Carbo; Stefan Hoops; Raquel Hontecillas; Josep Bassaganya-Riera (IEEE ACM Trans. Comput. Biol. Bioinform., 2015)

Multiscale modeling of mucosal immune responses. - Yongguo Mei; Vida Abedi; Adria Carbo; Xiaoying Zhang; Pinyi Lu; Casandra W. Philipson; Raquel Hontecillas; Stefan Hoops; Nathan Liles; Josep Bassaganya-Riera (BMC Bioinform., 2015)

Modeling new immunoregulatory therapeutics as antimicrobial alternatives for treating Clostridium difficile infection. - Andrew Leber; Raquel Hontecillas; Vida Abedi; Nuria Tubau-Juni; Victoria Zoccoli-Rodriguez; Caroline Stewart; Josep Bassaganya-Riera (Artif. Intell. Medicine, 2017)

Multi-Resolution Sensitivity Analysis of Model of Immune Response to Helicobacter pylori Infection via Spatio-Temporal Metamodeling. - Xi Chen 040; Wenjing Wang; Guangrui Xie; Raquel Hontecillas; Meghna Verma; Andrew Leber; Josep Bassaganya-Riera; Vida Abedi (Frontiers Appl. Math. Stat., 2019)