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ENteric Immunity SImulator: A Tool for In Silico Study of Mucosal Immune Responses
The following is a poster Maksudul presented during the 2012 Symposium on Modeling Immune Responses from Complex Data hosted from June [...]

PPAR γ activation drives Th17 cells into a Treg phenotype
Carbo, A., R. Hontecillas, S. Hoops, B. Kronsteiner, P. Lu, K. Wendelsdorf, Y. Mei, S. Eubank, M. Marathe, and J. Bassaganya-Riera [...]

Modulation of immune responses to Clostridium difficile by peroxisome proliferator-activated receptor γ and miRNA-146b
Viladomiu, M., R. Hontecillas, M. Pedragosa, P. Michalak, K. Michalak, R.L. Guerrant, J.K. Roche, C.A. Warren and J. Bassaganya-Riera [...]

Th17 responses driven via PPAR γ blockade lead to faster recovery from enteroaggregative Escherichia
Washington, C., J. Bassaganya-Riera, M. Viladomiu, M. Pedragosa, R.L. Guerrant, J.K. Roche and R. Hontecillas (2012) Th17 responses [...]

Helicobacter pylori infection in pigs is dominated by a Th1 and cytotoxic immune response
Kronsteiner, B., J. Bassaganya-Riera, C. Washington, S. Vento, M. Pedragosa, M. Viladomiu, A. Carbo and R. Hontecillas (2012) [...]

Immunomodulatory actions of lanthionine synthetase C-like 2-based drugs
Lu, P., R. Hontecillas, M. Viladomiu, M. Pedragosa, A. Carbo, D.R. Bevan, S.N. Lewis, and J. Bassaganya-Riera (2012) Immunomodulatory [...]

A lipidomics analysis of influenza infection and PPAR g activation
Monroe, J., J. Bassaganya-Riera, K. Ray, R. Helm, B. Kronsteiner, and R. Hontecillas (2012) A lipidomics analysis of influenza [...]

Computational analysis of peroxisome proliferator-activated receptor-gamma as a nutraceutical target
Stephanie N. Lewis, Zulma Garcia, Lera Brannan, Amir J. Guri, Pinyi Lu, Raquel Hontecillas, Josep Bassaganya-Riera, and David R. Bevan [...]

MIEP team presented COPASI in MIB
COmplex PAthway SImulator: A Tool for Modeling Complex Immunological Systems New discoveries in immunology have triggered the [...]

MIEP team presented ENISI at MIB
ENteric Immunity SImulator: A Tool for in silico Study of Mucosal Immunity ENISI is a tool for mucosal immunologists to test and [...]

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Systems modeling of immune responses to enteric pathogens
Bassaganya-Riera, J. (2013) Invited A.L. Bortree Lecturer; Systems modeling of immune responses to enteric pathogens, Penn State University, State College, PA.

Quantitative Systems Immunology Symposium
Bassaganya-Riera, J. (2013) Invited speaker; Quantitative Systems Immunology Symposium, Boston University, Boston, MA.

Predictive Modeling of Host Responses to Gut Pathogens
Bassaganya-Riera, J. (2013) Invited speaker; Predictive Modeling of Host Responses to Gut Pathogens, University of Louisville, Louisville, KY.

Carotenoids
Bassaganya-Riera, J. (2013) Invited speaker; Carotenoids Gordon Research Conference, Ventura, CA.

Modeling CD4+ T cell differentiation and plasticity
Bassaganya-Riera, J. (2012) Invited speaker; Modeling CD4+ T cell differentiation and plasticity, Yale University, New Haven, CT.

Modeling Immunity for Biodefense Symposium, Center for Biodefense Immune Modeling
Bassaganya-Riera, J. (2012) Invited speaker; Modeling Immunity for Biodefense Symposium, Center for Biodefense Immune Modeling, University of Rochester, Rochester, NY.

Modeling Immune Responses and Immunoinformatics Research
Bassaganya-Riera, J. (2012) Invited speaker; Modeling Immune Responses and Immunoinformatics Research, Arkansas Biosciences Institute, Arkansas State University, Jonesboro, AK.

Development of anti-inflammatories and anti-diabetic drugs and pharmaceuticals
Bassaganya-Riera, J. (2010) Invited speaker; Center for Innovative Technologies; Development of anti-inflammatories and anti-diabetic drugs and pharmaceuticals. Herndon, VA.

Modeling Immunity to Enteric Pathogens
Bassaganya-Riera, J. (2010) Invited speaker; Modeling Immunity to Enteric Pathogens. Middle Atlantic Regional Center for Emerging Infectious Diseases and Biodefense Annual Meeting, Philadephia, PA.

Modeling Immunity to Enteric Pathogens
Bassaganya-Riera,J. (2010) Invited speaker; Modeling Immunity to Enteric Pathogens. Modeling Immunity for Biodefense Contract Initiation Meeting, Bethesda, MD.

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Phase III Placebo-Controlled, Randomized Clinical Trial with Synthetic Crohn's disease Patients to Evaluate Treatment Response
Abedi, V., P. Lu, R. Hontecillas, M. Verma, G. Vess, C. Philipson, A. Carbo, A. Leber, N.T. Juni, S. Hoops, J. Bassaganya-Riera. Emerging Trends in Computational Biology, Bioinformatics, and Systems Biology – Systems & Applications. In Press: Elsevier/MK 2015.

Modeling exercises
Abedi, V., S. Hoops, R. Hontecillas, A. Carbo, C. Philipson, M. Viladomiu, A. Leber, P. Lu, J. Bassaganya-Riera. Computational Immunology: Models and Tools. Elsevier 2015.

Multiscale Modeling: Concepts, Technologies, and Use Cases in Immunology
Abedi, V., R. Hontecillas, A. Carbo, C. Philipson, S. Hoops, J. Bassaganya-Riera. Computational Immunology: Models and Tools. Elsevier 2015.

From Big Data Analytics and Network Inference to Systems Modeling
Michalak, P., B.W. Sobral, V. Abedi, Y.B. Kim, X. Deng, C. Philipson, M. Viladomiu, P. Lu, K. Wendelsdorf, R. Hontecillas, J. Bassaganya-Riera. Computational Immunology: Models and Tools. Elsevier 2015.

Agent-Based Modeling and High Performance Computing
Alam, M., V. Abedi, J. Bassaganya-Riera, K. Wendelsdorf, K. Bisset, X. Deng, S. Eubank, R. Hontecillas, S. Hoops, M. Marathe. Computational Immunology: Models and Tools. Elsevier 2015.

Ordinary Differential Equations (ODE) based Modeling
Hoops, S., R. Hontecillas, V. Abedi, A. Leber, C. Philipson, A. Carbo, J. Bassaganya-Riera. Computational Immunology: Models and Tools. Elsevier 2015.

Immunoinformatics cybernfrastructure for modeling and analytics
Hoops, S., B.W. Sobral, P. Michalak, V. Abedi, B. Kronsteiner, R. Hontecillas, M. Viladomiu, J. Bassaganya-Riera. Computational Immunology: Models and Tools. Elsevier 2015.

Use of Computational Modeling in Immunological Research
Hontecillas, R., J. Bassaganya-Riera, C. Philipson, A. Leber, M. Viladomiu, A. Carbo, K. Wendelsdorf, S. Hoops. Computational Immunology: Models and Tools. Elsevier 2015.

Computational Modeling
Bassaganya-Riera, J., R. Hontecillas, V. Abedi, A. Carbo, C. Philipson, S. Hoops. Computational Immunology: Models and Tools. Elsevier 2015.

Introduction to Computational Immunology
Bassaganya-Riera, J., R. Hontecillas. Computational Immunology: Models and Tools. Elsevier 2015.

Modulation of CD8+ T cell Responses by Conjugated Linoleic Acid
Bassaganya-Riera, J, R. Hontecillas. Advances in CLA Research. Champaign, IL: American Oil Chemists Society Press 2006.

Computational Immunology: Models, tools and approaches for systems immunology
Bassaganya-Riera, J.. Elsevier 2015.

Literature mining and ontology mapping applied to big data
Abedi V, M. Yeasin, R. Zand. Mining Big Data to Improve National Security. Elsevier 2015.

Supervised Learning with Artificial Neural Network in Modeling of Cell Differentiation Process
Lu, P, V. Abedi, Y. Mei, R. Hontecillas, C. Philipson, S. Hoops, A. Carbo, J. Bassaganya-Riera,. Emerging Trends in Computational Biology, Bioinformatics, and Systems Biology (1st ed.). Burlington, Massachusetts: Morgan Kaufmann (an imprint of Elsevier) 2015. 1-18

Method of Using Punicic Acid to Enhance Immune Response and Prevent Metabolic Disorders.
Bassaganya-Riera, J.
International Patent Application Serial No. PCT/US2005/001811 U.S. Patent No: 8,258,188

Method of Using Punicic Acid to Enhance Immune Response and Prevent Metabolic Disorders.
Bassaganya-Riera, J.
European Patent Application Serial No. 05711709.5

Method of Using Punicic Acid to Enhance Immune Response and Prevent Metabolic Disorders.
Bassaganya-Riera, J.
Chinese Patent Application Serial No. 2005800088789

Method of Using Catalpic Acid to Treat and Prevent Metabolic Disorders.
Bassaganya-Riera, J.
U.S. Patent No: 7,687,544

Method of Using Abscisic Acid to Treat and Prevent Diabetes and Inflammation.
Bassaganya-Riera, J., A.J. Guri, and R. Hontecillas
U.S. Patent No: 7,741,367.

Method of Using Abscisic Acid to Treat and Prevent Diseases and Disorders.
Bassaganya-Riera, J., A.J. Guri, and R. Hontecillas
U.S. Patent No: 1,986,624.

Method of Using Abscisic Acid to Treat and Prevent Diabetes and Inflammation.
Bassaganya-Riera, J., A.J. Guri, and R. Hontecillas
International Patent Application Serial No. PCT/US2007/003366

Method of Using Abscisic Acid to Treat and Prevent Diabetes and Inflammation.
Bassaganya-Riera, J., A.J. Guri, and R. Hontecillas
European Patent Application Serial No. 07763254.5

Method of Using Catalpic Acid to Treat and Prevent Hyperinsulinemia.
Bassaganya-Riera, J.
U.S. Patent No: 7,834,058

Method of Using Catalpic Acid to Dyslipidemia.
Bassaganya-Riera, J.
U.S. Patent No: 8,084,500

Method of using Conjugated Linoleic Acid to Enhance Thymocyte Development.
M. O’Shea and Bassaganya-Riera, J.
European Patent Application Serial No. 06250952.6

Method of using probiotic bacteria to prevent obesity and type 2 diabetes.
Bassaganya-Riera, J., R. Hontecillas, MG Dominguez-Bello, B. Sobral
U.S. Provisional Patent Application No: 60/942,016.

Method of Using Nutraceuticals for Ameliorating Hypertension and Vascular Inflammation.
Bassaganya-Riera, J., A.J. Guri, and R. Hontecillas
(08.094 VTIP Disclosure); U.S. Provisional Patent Application No: 61/095662. U.S. Patent Application No. 12/869,237.

Method of synergistically enhancing the therapeutic efficacy and safety of medications through a combination therapy.
Bassaganya-Riera, J., A.J. Guri, and R. Hontecillas
(09-070 VTIP Disclosure); U.S. Provisional Patent Application No: 61/147773. U.S. Patent Application No. 12/695,915; 13/905,888 & EU10736394.7

Method of synergistically enhancing the therapeutic efficacy and safety of medications through a combination therapy.
Bassaganya-Riera, J., A.J. Guri, and R. Hontecillas
International Patent Application Serial No. PCT/US2010/022390.

Method of using ABA for preventing and treating gut inflammatory disorders.
Bassaganya-Riera, J., A.J. Guri, and R. Hontecillas
(10-066 VTIP Disclosure). CIP Application No: 12/712,899; Issued 8,367,727

Method of using lanthionine synthetase component C-like proteins as molecular targets for preventing and treating diseases and disorders.
Bassaganya-Riera, J., P. Lu, and R. Hontecillas
(10-116 VTIP) Provisional Patent Application No: 61/331,086; U.S. Patent Application No. 13/100,795

Method of using lanthionine synthetase component C-like proteins as molecular targets for preventing and treating diseases and disorders.
Bassaganya-Riera, J., P. Lu, and R. Hontecillas
(10-116 VTIP) PCT/US11/35185. Notice of Allowance 13/100,795 and EU 11778258.1

Method of Preventing and Treating Inflammatory Diseases and Disorders with Abscisic Acid.
Bassaganya-Riera, J., A.J. Guri, and R. Hontecillas
(10-134 VTIP) Provisional Patent Application No: 61/348,326, International application number: PCT/US11/38063. Issue fee paid

Novel LANCL2-based Therapeutics.
Bassaganya-Riera, J., A. Carbo, J. Cooper, R. Gandour, and R. Hontecillas
Provisional Patent Applications No: 62/068,322 & 62/101,164.