Saad2017 - immune checkpoint and BCG in superficial bladder cancer

Model Identifier
BIOMD0000000746
Short description
The paper describes a model on the Dynamics of Immune Checkpoints, Immune System, and BCG in the Treatment of Superficial Bladder Cancer.
Created by COPASI 4.25 (Build 207)
This model is described in the article:
Dynamics of Immune Checkpoints, Immune System, and BCG in the Treatment of Superficial Bladder Cancer
Farouk Tijjani Saad, Evren Hincal, and Bilgen Kaymakamzade
Computational and Mathematical Methods in Medicine, vol. 2017, no. 3573082
Abstract:
This paper aims to study the dynamics of immune suppressors/checkpoints, immune system, and BCG in the treatment of superficial bladder cancer. Programmed cell death protein-1 (PD-1), cytotoxic T-lymphocyte-associated antigen 4 (CTLA4), and transforming growth factor-beta (TGF-b) are some of the examples of immune suppressors/checkpoints. They are responsible for deactivating the immune system and enhancing immunological tolerance. Moreover, they categorically downregulate and suppress the immune system by preventing and blocking the activation of T-cells, which in turn decreases autoimmunity and enhances self- tolerance. In cancer immunotherapy, the immune checkpoints/suppressors prevent and block the immune cells from attacking, spreading, and killing the cancer cells, which leads to cancer growth and development. We formulate a mathematical model that studies three possible dynamics of the treatment and establish the effects of the immune checkpoints on the immune system and the treatment at large. Although the effect cannot be seen explicitly in the analysis of the model, we show it by numerical simulations.
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Format
SBML
(L3V1)
Related Publication
-
Dynamics of Immune Checkpoints, Immune System, and BCG in the Treatment of Superficial Bladder Cancer.
- Saad FT, Hincal E, Kaymakamzade B
- Computational and mathematical methods in medicine , 1/ 2017 , Volume 2017 , pages: 3573082 , PubMed ID: 29312460
- Department of Mathematics, Near East University, North Nicosia, Northern Cyprus, Mersin 10, Turkey.
- This paper aims to study the dynamics of immune suppressors/checkpoints, immune system, and BCG in the treatment of superficial bladder cancer. Programmed cell death protein-1 (PD-1), cytotoxic T-lymphocyte-associated antigen 4 (CTLA4), and transforming growth factor-beta (TGF-β) are some of the examples of immune suppressors/checkpoints. They are responsible for deactivating the immune system and enhancing immunological tolerance. Moreover, they categorically downregulate and suppress the immune system by preventing and blocking the activation of T-cells, which in turn decreases autoimmunity and enhances self-tolerance. In cancer immunotherapy, the immune checkpoints/suppressors prevent and block the immune cells from attacking, spreading, and killing the cancer cells, which leads to cancer growth and development. We formulate a mathematical model that studies three possible dynamics of the treatment and establish the effects of the immune checkpoints on the immune system and the treatment at large. Although the effect cannot be seen explicitly in the analysis of the model, we show it by numerical simulations.
Contributors
Submitter of the first revision: Jinghao Men
Submitter of this revision: Jinghao Men
Modellers: Jinghao Men
Submitter of this revision: Jinghao Men
Modellers: Jinghao Men
Metadata information
is (2 statements)
isDescribedBy (1 statement)
hasTaxon (1 statement)
isVersionOf (1 statement)
hasProperty (2 statements)
occursIn (1 statement)
isDescribedBy (1 statement)
hasTaxon (1 statement)
isVersionOf (1 statement)
hasProperty (2 statements)
Mathematical Modelling Ontology
Ordinary differential equation model
Experimental Factor Ontology bladder carcinoma
Experimental Factor Ontology bladder carcinoma
occursIn (1 statement)
Curation status
Curated
Modelling approach(es)
Tags
Connected external resources
Name | Description | Size | Actions |
---|---|---|---|
Model files |
|||
Saad2017.xml | SBML L3V1 representation of checkpoint-immune-BCG-bladder cancer model | 67.25 KB | Preview | Download |
Additional files |
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Fig.1'.png | Fig.1 generated in the no treatment submodel | 10.99 KB | Preview | Download |
Fig.1.png | Fig.1 generated in the no treatment submodel | 13.79 KB | Preview | Download |
Fig.2B.png | Fig.2 generated in the no checkpoint submodel | 10.69 KB | Preview | Download |
Fig.2C.png | Fig.2 generated in the no checkpoint submodel | 11.68 KB | Preview | Download |
Fig.2E.png | Fig.2 generated in the no checkpoint submodel | 11.60 KB | Preview | Download |
Fig.3'.png | Fig.3 generated in the main model | 10.84 KB | Preview | Download |
Saad2017-no checkpoint.cps | CPS file of the submodel in COPASI | 70.08 KB | Preview | Download |
Saad2017-no checkpoint.xml | submodel-no checkpoint | 57.86 KB | Preview | Download |
Saad2017-no treatment.cps | CPS file of the submodel in COPASI | 79.27 KB | Preview | Download |
Saad2017-no treatment.xml | submodel-no treatment | 66.55 KB | Preview | Download |
Saad2017.cps | CPS file of the model in COPASI | 82.58 KB | Preview | Download |
Saad2017.sedml | Auto-generated SEDML file | 1.09 KB | Preview | Download |
- Model originally submitted by : Jinghao Men
- Submitted: Jul 10, 2019 12:56:18 PM
- Last Modified: Jul 10, 2019 12:56:18 PM
Revisions
Legends
: Variable used inside SBML models
: Variable used inside SBML models
Species
Species | Initial Concentration/Amount |
---|---|
B Mycobacterium bovis BCG |
0.0 mmol |
C 0000362 ; malignant cell |
100000.0 mmol |
E Effector Immune Cell |
0.0 mmol |
P Transforming growth factor beta-1 ; Cytotoxic T-lymphocyte protein 4 ; Programmed cell death protein 1 |
0.0 mmol |
Reactions
Reactions | Rate | Parameters |
---|---|---|
=> B | bladder_cancer_tme*b | b = 650000.0 1/d |
C => ; E, P | bladder_cancer_tme*alpha1*E*C/(P+k) | alpha1 = 1.1E-7 1/d; k = 2000.0 1 |
=> E; B, P | bladder_cancer_tme*a2*B*E/(P+k) | k = 2000.0 1; a2 = 0.052 1/d |
B => | bladder_cancer_tme*u2*B | u2 = 0.1 1/d |
P => | bladder_cancer_tme*u3*P | u3 = 166.32 1/d |
=> P | bladder_cancer_tme*delta | delta = 151932.0 1/d |
E => | bladder_cancer_tme*u1*E | u1 = 0.041 1/d |
=> C | bladder_cancer_tme*r*C | r = 0.0033 1/d |
E => ; C | bladder_cancer_tme*alpha2*E*C | alpha2 = 3.45E-10 1/d |
=> E; C, P | bladder_cancer_tme*a1*C*E/(P+k) | k = 2000.0 1; a1 = 0.25 1/d |
Curator's comment:
(added: 10 Jul 2019, 12:55:33, updated: 10 Jul 2019, 12:55:33)
(added: 10 Jul 2019, 12:55:33, updated: 10 Jul 2019, 12:55:33)
Publication figure 3 reproduced as per literature. Other figures are produced in the submodels. Figure data is generated using COPASI 4.25 (build 197).