Immune Response Template (IRT)
is a Quantitative Systems Pharmacology (QSP) platform of immune system and tool for development of QSP and mechanistic models related to immune response.
IRT consist of IRT Database and IRT Navigator. The core of IRT Database is IRT Core Model, a QSP model of immune system. IRT Navigator is an application software providing intuitive interface to work with IRT Database. IRT is an innovative tool allowing users to select all or any reactions and species from IRT Core Model and download it.
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IRT v3.6 description
To simplify the direct implementation of IRT equations into other QSP projects, drugs effects description was removed from the major equations describing cell cycles and cytokines secretion. Last version with implemented drug effects (v.3.5) will be still available for users.
NK:Target immunological synapse was added.
Contents of the IRT Database:
Cell passports (include descriptions of cells recruitment, apoptosis, proliferation, differentiation): B cells, EO (Eosinophils), NEU (Neutrophils), Gr-MDSC (Granulocytic Myeloid-Derived Suppressor Cells), IDEC (Inflammatory dendritic epithelial cells), ILC2 (Innate lymphoid cells type 2), LC (Langerhans cells), MC (Mast cells), Mo-MDSC (Monocytic Myeloid-Derived Suppressor Cells), PBM and macrophages, MoDC cells (Monocyte-Derived Dendritic Cells), cDC (Conventional Dendritic Cells),T cells (Tc0, Tc1, Tc2, Tc9, Tc17, Tc22, Th0, Th1, Th2, Th9, Th17, Th22, Treg), NK (Natural Killer) cells, Target cell.
Cytokines passports (include descriptions of cytokines synthesis, distribution and degradation): IL-1a, IL-1b, IL-2, IL-4, IL-5, IL-6, IL-9, IL-10, IL-12, IL-13, IL-17, IL-19, IL-20, IL-21, IL-22, IL-23, IL-24, IL-25, IL-31, IL-33, IFNa, IFNg, GM-CSF, TNFa, TGFb, Hn, TSLP, PGE2, IgE, NGF, VEGF, MCC, MCT, CCL2, CCL3, CCL4, CCL5, CCL11, CCL20, CXCL9, CCL17, CXCL10.
Immunological synapses passports (include descriptions of surface molecules and complexes) for T cells interacting with B cell, IDEC, LC and macrophage, NK cell interacting with Target.
IRT Core Model characteristics
- 1088 reactions
- 502 time dependent variables
- more than 3250 parameters, 60% are identified by direct calculation or fitting
IRT Onco v1.0 description
IRT Onco is a platform of the immune system in cancer and a tool for QSP modeling related to the tumor-specific immune response.
The Template contains tumor and tumor-draining lymph node compartments specifically included to reflect immune cells traffic in response to the tumor. Content is adapted for QSP projects in Oncology development.
Contents of the IRT Onco Database:
Cell passports (include descriptions of cells recruitment, apoptosis, proliferation, differentiation): B cells, Gr-MDSC (Granulocytic Myeloid-Derived Suppressor Cells), Mo-MDSC (Monocytic Myeloid-Derived Suppressor Cells), PBM and macrophages, DC cells (Dendritic Cells), DC, T cells (Tumor antigen-specific and tumor antigen-non-specific CD8, CD4 and Tregs), NK (Natural Killer) cells, Target cell.
Immunological synapses passports (include descriptions of surface molecules and complexes) for T cells interacting with DC, NK cell and macrophage interacting with Target cell.
IRT Navigator is web-application to provide an access to the content of Immune Response Template database. The latest release includes the following functionality:
- Navigation through the database schemes and tables; visualization of IRT database components: equations, species, parameters.
- Automatic generation of the model based on user’s selection from the database components.
- Export of model code to SBML, Simbiology, SLV formats to open in external software tools.
- Export in Excel table or JSON/YAML format to use as modules in Heta-based modeling platforms.
- Save/Load current state of selected elements.
To learn more about IRT please create an account and try demo.
To purchase access to the full version of IRT please contact us.
Please feel free to contact us by email firstname.lastname@example.org