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BIOMD0000000608 - Palsson2013 - Fully-integrated immune response model (FIRM)

 

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Reference Publication
Publication ID: 24074340
Palsson S, Hickling TP, Bradshaw-Pierce EL, Zager M, Jooss K, O'Brien PJ, Spilker ME, Palsson BO, Vicini P.
The development of a fully-integrated immune response model (FIRM) simulator of the immune response through integration of multiple subset models.
BMC Syst Biol 2013; 7: 95
Department of Pharmacokinetics, Dynamics and Metabolism, Pfizer Worldwide Research and Development, San Diego, CA, USA. Paolo.Vicini@pfizer.com.  [more]
Model
Original Model: BIOMD0000000608.origin
Submitter: Vijayalakshmi Chelliah
Submission ID: MODEL1603310000
Submission Date: 31 Mar 2016 20:58:31 UTC
Last Modification Date: 25 Apr 2016 15:27:57 UTC
Creation Date: 19 Apr 2016 17:37:38 UTC
Encoders:  Michael Hucka
   Vijayalakshmi Chelliah
   Mary E Spilker
set #1
bqmodel:isDerivedFrom PubMed 3156189
PubMed 5500468
PubMed 15038983
set #2
bqbiol:hasTaxon Taxonomy Mammalia
set #3
bqbiol:isVersionOf Gene Ontology immune response
set #4
bqbiol:hasProperty Human Disease Ontology DOID:399
Notes
Palsson2013 - Fully-integration immune response model (FIRM)

FIRM (The Fully-integrated Immune Response Modeling) is a hybrid construct incorporating multiple existing models of the immune system [De Boer et al., (1985);Bell, (1970); Marino and Kirschner, (2004) ]. FIRM used a pharmacokinetic / pharmacodynamic modelling approach to combine previously published individual models of humoral and cellular response with antigen exposure. This integrated model has a potential to simulate a range of responses under a variety of conditions, for example, the immune response against tuberculosis infection, blood borne pathogen infection, Spontaneous tumour rejection and influence of regulatory T cells (Treg) on tumour rejection.

The SBML model provided here was generated from the matlab code (provided by the authors). The matlab to SBML conversion was done using MOCCASIN version 1.1.0. This model describes the immune response against tuberculosis (TB) infection and reproduces figure 7 of the reference publication.

Note:The following minor edit to the original matlab code was done during the conversion to SBML: The model had two parameters named k3 and K3. To avoid case-insensitive issues during the conversion, K3 was changed to K3s in the original matlap code before using the conversion software. The matlab code of the model provided by the authors (with the above change) can be obtained from the curation tab.

This model is described in the article:

Palsson S, Hickling TP, Bradshaw-Pierce EL, Zager M, Jooss K, O'Brien PJ, Spilker ME, Palsson BO, Vicini P.
BMC Syst Biol. 2013 Sep 28;7:95.

Abstract:

BACKGROUND: The complexity and multiscale nature of the mammalian immune response provides an excellent test bed for the potential of mathematical modeling and simulation to facilitate mechanistic understanding. Historically, mathematical models of the immune response focused on subsets of the immune system and/or specific aspects of the response. Mathematical models have been developed for the humoral side of the immune response, or for the cellular side, or for cytokine kinetics, but rarely have they been proposed to encompass the overall system complexity. We propose here a framework for integration of subset models, based on a system biology approach. RESULTS: A dynamic simulator, the Fully-integrated Immune Response Model (FIRM), was built in a stepwise fashion by integrating published subset models and adding novel features. The approach used to build the model includes the formulation of the network of interacting species and the subsequent introduction of rate laws to describe each biological process. The resulting model represents a multi-organ structure, comprised of the target organ where the immune response takes place, circulating blood, lymphoid T, and lymphoid B tissue. The cell types accounted for include macrophages, a few T-cell lineages (cytotoxic, regulatory, helper 1, and helper 2), and B-cell activation to plasma cells. Four different cytokines were accounted for: IFN-γ, IL-4, IL-10 and IL-12. In addition, generic inflammatory signals are used to represent the kinetics of IL-1, IL-2, and TGF-β. Cell recruitment, differentiation, replication, apoptosis and migration are described as appropriate for the different cell types. The model is a hybrid structure containing information from several mammalian species. The structure of the network was built to be physiologically and biochemically consistent. Rate laws for all the cellular fate processes, growth factor production rates and half-lives, together with antibody production rates and half-lives, are provided. The results demonstrate how this framework can be used to integrate mathematical models of the immune response from several published sources and describe qualitative predictions of global immune system response arising from the integrated, hybrid model. In addition, we show how the model can be expanded to include novel biological findings. Case studies were carried out to simulate TB infection, tumor rejection, response to a blood borne pathogen and the consequences of accounting for regulatory T-cells. CONCLUSIONS: The final result of this work is a postulated and increasingly comprehensive representation of the mammalian immune system, based on physiological knowledge and susceptible to further experimental testing and validation. We believe that the integrated nature of FIRM has the potential to simulate a range of responses under a variety of conditions, from modeling of immune responses after tuberculosis (TB) infection to tumor formation in tissues. FIRM also has the flexibility to be expanded to include both complex and novel immunological response features as our knowledge of the immune system advances.

This model is hosted on BioModels Database and identified by: MODEL1603310000.

To cite BioModels Database, please use: BioModels: Content, Features, Functionality and Use.

To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide. Please refer to CC0 Public Domain Dedication for more information.

Model
Publication ID: 24074340 Submission Date: 31 Mar 2016 20:58:31 UTC Last Modification Date: 25 Apr 2016 15:27:57 UTC Creation Date: 19 Apr 2016 17:37:38 UTC
Mathematical expressions
Reactions
R_1 R_2 R_3 R_4
R_5 R_6 R_7 R_8
R_9 R_10 R_11 R_12
R_13 R_14 R_15 R_16
R_17 R_18 R_19 R_20
R_21 R_22 R_23 R_24
R_25 R_26 R_27 R_28
R_29 R_30 R_31 R_32
R_33 R_34 R_35 R_36
R_37 R_38 R_39 R_40
R_41 R_42 R_43 R_44
R_45 R_46 R_47 R_48
R_49 R_50 R_51 R_52
R_53 R_54 R_55 R_56
R_57 R_58 R_59 R_60
R_61 R_62 R_63 R_64
R_65 R_66 R_67 R_68
R_69 R_70 R_71 R_72
R_73 R_74 R_75 R_76
R_77 R_78 R_79 R_80
R_81 R_82 R_83 R_84
R_85 R_86 R_87 R_88
R_89 R_90 R_91 R_92
R_93 R_94 R_95 R_96
R_97 R_98 R_99 R_100
R_101 R_102 R_103 R_104
R_105 R_106 R_107 R_108
R_109 R_110 R_111 R_112
R_113 R_114 R_115 R_116
R_117 R_118 R_119 R_120
R_121 R_122 R_123 R_124
R_125 R_126 R_127 R_128
R_129 R_130 R_131 R_132
R_133 R_134 R_135 R_136
R_137 R_138 R_139 R_140
Rules
Assignment Rule (variable: APC) Assignment Rule (variable: Beta91) Assignment Rule (variable: Beta92) Assignment Rule (variable: Beta93)
Assignment Rule (variable: Beta94) Assignment Rule (variable: Beta97) Assignment Rule (variable: Beta98) Assignment Rule (variable: FACTOR)
Assignment Rule (variable: INFLAM) Assignment Rule (variable: K91) Assignment Rule (variable: K92) Assignment Rule (variable: K94)
Assignment Rule (variable: K97) Assignment Rule (variable: K98) Assignment Rule (variable: MA) Assignment Rule (variable: MB)
Assignment Rule (variable: MC) Assignment Rule (variable: MD) Assignment Rule (variable: ME) Assignment Rule (variable: MF)
Assignment Rule (variable: MG) Assignment Rule (variable: MH) Assignment Rule (variable: MI) Assignment Rule (variable: MJ)
Assignment Rule (variable: MK) Assignment Rule (variable: q45c) Assignment Rule (variable: v1) Assignment Rule (variable: v10)
Assignment Rule (variable: v100) Assignment Rule (variable: v11) Assignment Rule (variable: v12) Assignment Rule (variable: v13)
Assignment Rule (variable: v15) Assignment Rule (variable: v16) Assignment Rule (variable: v17) Assignment Rule (variable: v18)
Assignment Rule (variable: v19) Assignment Rule (variable: v2) Assignment Rule (variable: v20) Assignment Rule (variable: v21)
Assignment Rule (variable: v22) Assignment Rule (variable: v23) Assignment Rule (variable: v24) Assignment Rule (variable: v25)
Assignment Rule (variable: v26) Assignment Rule (variable: v27) Assignment Rule (variable: v28) Assignment Rule (variable: v29)
Assignment Rule (variable: v3) Assignment Rule (variable: v31) Assignment Rule (variable: v32) Assignment Rule (variable: v33)
Assignment Rule (variable: v34) Assignment Rule (variable: v35) Assignment Rule (variable: v36) Assignment Rule (variable: v37)
Assignment Rule (variable: v38) Assignment Rule (variable: v39) Assignment Rule (variable: v4) Assignment Rule (variable: v40)
Assignment Rule (variable: v42) Assignment Rule (variable: v43) Assignment Rule (variable: v44) Assignment Rule (variable: v45)
Assignment Rule (variable: v46) Assignment Rule (variable: v47) Assignment Rule (variable: v48) Assignment Rule (variable: v49)
Assignment Rule (variable: v5) Assignment Rule (variable: v50) Assignment Rule (variable: v51) Assignment Rule (variable: v52)
Assignment Rule (variable: v53) Assignment Rule (variable: v54) Assignment Rule (variable: v55) Assignment Rule (variable: v56)
Assignment Rule (variable: v6) Assignment Rule (variable: v60) Assignment Rule (variable: v61) Assignment Rule (variable: v62)
Assignment Rule (variable: v63) Assignment Rule (variable: v68) Assignment Rule (variable: v69) Assignment Rule (variable: v7)
Assignment Rule (variable: v72) Assignment Rule (variable: v73) Assignment Rule (variable: v74) Assignment Rule (variable: v75)
Assignment Rule (variable: v78) Assignment Rule (variable: v79) Assignment Rule (variable: v8) Assignment Rule (variable: v80)
Assignment Rule (variable: v81) Assignment Rule (variable: v84) Assignment Rule (variable: v85) Assignment Rule (variable: v86)
Assignment Rule (variable: v88) Assignment Rule (variable: v89) Assignment Rule (variable: v9) Assignment Rule (variable: v90)
Assignment Rule (variable: v91) Assignment Rule (variable: v92) Assignment Rule (variable: v93) Assignment Rule (variable: v94)
Assignment Rule (variable: v95) Assignment Rule (variable: v96) Assignment Rule (variable: v97) Assignment Rule (variable: v98)
Assignment Rule (variable: v99) Assignment Rule (variable: vMI) Assignment Rule (variable: volSite)  
Physical entities
Compartments Species
compartmentOne x_1 x_2 x_3
x_4 x_5 x_6
x_7 x_8 x_9
x_10 x_11 x_12
x_13 x_14 x_15
x_16 x_17 x_18
x_19 x_20 x_21
x_22 x_23 x_24
x_25 x_26 x_27
x_28 x_29 x_30
x_31 x_32 x_33
x_34 x_35 x_36
x_37 x_38 x_39
x_40 x_41 x_42
x_43 x_44 x_45
x_46 x_47 x_48
x_49 x_50 x_51
x_52    
Global parameters
Alpha4 Alpha5 Alpha6 Alpha61
Alpha62 Beta90 c2 c4
c12 c15 c17 c22
c24 c25 c52 c55
c72 c80 cF cf11
cf12 cf27 cf28 cf29
cf86 cI ci12 ci72
ci80 cii80 Delta11 Delta12
Delta21 Delta27 Delta29 Delta36
Delta38 Delta39 Delta43 Delta50
Delta54 Delta57 Deltai12 Deltai27
endpoint Eta10 Eta13 Eta14
Eta16 Eta18 Eta20 Eta26
Eta28 Eta30 Eta33 Eta35
Eta44 Eta47 Eta48 Eta49
Eta53 Eta56 Eta58 Eta60
Eta69 Eta73 Eta75 Eta79
Eta81 Eta83 Eta84 Eta85
Eta95 Eta96 Eta99 Eta100
fi12 fi27 fi29 fii27
Gamma17 Gamma23 Gamma24 Gamma31
Gamma32 Gamma37 Gamma40 Gamma41
Gamma51 Gamma52 k2 k3
K3s k7 k63 K90
K93 Mu1 Mu8 Mu9
Mu15 Mu19 Mu22 Mu25
Mu28 Mu42 Mu55 Mu59
Mu86 MuI Mui9 P46
P87 P88 P89 q68a
q68b q72a q72b q72c
q72d q72e q74 q78a
q78b q80 q82 Rho9
Rho15 Rho19 Rho21 Rho34
Rho50 Rho80 v14 v30
v41 v57 v58 v59
v64 v65 v66 v67
v70 v71 v76 v77
v82 v83 v87 volBlood
volLung volLymphB volLymphT volMA
volMI volMR volT volTB
w9 APC Beta91 Beta92
Beta93 Beta94 Beta97 Beta98
FACTOR INFLAM K91 K92
K94 K97 K98 MA
MB MC MD ME
MF MG MH MI
MJ MK q45c v1
v10 v100 v11 v12
v13 v15 v16 v17
v18 v19 v2 v20
v21 v22 v23 v24
v25 v26 v27 v28
v29 v3 v31 v32
v33 v34 v35 v36
v37 v38 v39 v4
v40 v42 v43 v44
v45 v46 v47 v48
v49 v5 v50 v51
v52 v53 v54 v55
v56 v6 v60 v61
v62 v63 v68 v69
v7 v72 v73 v74
v75 v78 v79 v8
v80 v81 v84 v85
v86 v88 v89 v9
v90 v91 v92 v93
v94 v95 v96 v97
v98 v99 vMI volSite
c59 c61 c62 cAPC
q45a q45b    
Reactions (140)
 
 R_1 [x_4] + [x_51] → [x_52];  
 
 R_2 [x_52] → [x_4] + [x_51];  
 
 R_3 [x_52] → ;  
 
 R_4 [x_23] + [x_4] → [x_51];  
 
 R_5 [x_51] → [x_23] + [x_4];  
 
 R_6 [x_51] → ;  
 
 R_7 [x_41] + [x_49] → [x_50];  
 
 R_8 [x_50] → [x_41] + [x_49];  
 
 R_9 [x_50] → ;  
 
 R_10 [x_22] + [x_41] → [x_49];  
 
 R_11 [x_49] → [x_22] + [x_41];  
 
 R_12 [x_49] → ;  
 
 R_13 [x_41] + [x_47] → [x_48];  
 
 R_14 [x_48] → [x_41] + [x_47];  
 
 R_15 [x_17] + 1000.0 × [x_45] → [x_18] + 1000.0 × [x_47];  
 
 R_16 [x_20] → [x_18] + 1000.0 × [x_47];  
 
 R_17 [x_18] + 1000.0 × [x_47] → [x_20];  
 
 R_18 0.5 × [x_18] + 500.0 × [x_47] + [x_48] → 0.5 × [x_19] + [x_48];  
 
 R_19 [x_42] + [x_45] → [x_46];  
 
 R_20 [x_46] → [x_42] + [x_45];  
 
 R_21 [x_16] + 1000.0 × [x_43] + [x_44] → [x_17] + [x_44] + 1000.0 × [x_45];  
 
 R_22 [x_42] + [x_43] → [x_44];  
 
 R_23 [x_44] → [x_42] + [x_43];  
 
 R_24  → [x_16] + 1000.0 × [x_43];  
 
 R_25 2.0 × [x_19] → [x_16] + 1000.0 × [x_43];  
 
 R_26 [x_16] + 1000.0 × [x_43] + [x_44] → [x_44];  
 
 R_27 [x_41] → [x_42];  
 
 R_28 [x_42] → [x_41];  
 
 R_29 [x_4] → [x_41];  
 
 R_30 [x_30] → [x_41];  
 
 R_31 [x_41] → [x_30];  
 
 R_32  → [x_40];  
 
 R_33 [x_40] → ;  
 
 R_34 [x_38] + [x_4] + [x_5] → [x_38] + [x_39] + [x_4] + [x_5];  
 
 R_35 [x_2] + [x_8] → [x_2] + [x_39] + [x_8];  
 
 R_36 [x_39] → ;  
 
 R_37  → [x_38];  
 
 R_38 [x_1] → [x_1] + [x_38];  
 
 R_39 [x_2] → [x_2] + [x_38];  
 
 R_40 [x_38] → ;  
 
 R_41  → [x_37];  
 
 R_42 [x_37] → ;  
 
 R_43 [x_10] → [x_10] + [x_36];  
 
 R_44 [x_36] → ;  
 
 R_45 [x_2] + [x_35] + [x_39] → [x_2] + 2.0 × [x_35] + [x_39];  
 
 R_46 [x_8] → [x_35] + [x_8];  
 
 R_47 [x_9] → [x_35] + [x_9];  
 
 R_48 [x_7] → [x_35] + [x_7];  
 
 R_49 [x_3] → [x_3] + [x_35];  
 
 R_50 [x_35] → ;  
 
 R_51  → [x_34];  
 
 R_52 [x_34] → ;  
 
 R_53 [x_7] → [x_33] + [x_7];  
 
 R_54 [x_9] → [x_33] + [x_9];  
 
 R_55 [x_33] → ;  
 
 R_56  → [x_32];  
 
 R_57 [x_32] → ;  
 
 R_58  → [x_31];  
 
 R_59 [x_31] → ;  
 
 R_60 [x_29] → [x_30];  
 
 R_61 [x_2] + [x_29] → [x_2] + [x_30];  
 
 R_62 [x_27] + [x_29] → [x_27] + [x_30];  
 
 R_63 [x_30] → ;  
 
 R_64  → [x_29];  
 
 R_65 [x_1] → [x_28];  
 
 R_66 [x_28] → ;  
 
 R_67 [x_26] + [x_29] → [x_27] + [x_29];  
 
 R_68 [x_27] + [x_29] + [x_8] → 2.0 × [x_27] + [x_29] + [x_8];  
 
 R_69 [x_27] → ;  
 
 R_70 [x_2] + [x_25] → [x_2] + [x_26];  
 
 R_71 [x_26] → ;  
 
 R_72 [x_24] → [x_25];  
 
 R_73 [x_25] → ;  
 
 R_74 [x_11] → [x_24];  
 
 R_75 [x_10] + [x_11] → [x_10] + [x_24];  
 
 R_76 [x_22] → [x_23];  
 
 R_77 [x_23] → [x_22];  
 
 R_78 [x_18] → [x_18] + 1000000.0 × [x_22];  
 
 R_79 [x_20] → [x_20] + 1000000.0 × [x_22];  
 
 R_80 [x_21] → [x_21] + 1000000.0 × [x_22];  
 
 R_81 [x_22] → ;  
 
 R_82 0.5 × [x_20] + [x_47] + [x_48] → 0.5 × [x_21] + [x_47] + [x_48];  
 
 R_83 [x_21] → ;  
 
 R_84 [x_20] + [x_47] + [x_48] → 2.0 × [x_20] + [x_47] + [x_48];  
 
 R_85 [x_20] → ;  
 
 R_86 [x_14] → [x_15];  
 
 R_87 [x_15] → ;  
 
 R_88 [x_9] → [x_14];  
 
 R_89 [x_12] → [x_13];  
 
 R_90 [x_13] + [x_2] → [x_2] + [x_7];  
 
 R_91 [x_13] → ;  
 
 R_92 [x_11] → [x_12];  
 
 R_93 [x_10] + [x_11] → [x_10] + [x_12];  
 
 R_94 [x_12] → 2.0 × [x_12];  
 
 R_95  → [x_11];  
 
 R_96 [x_10] → [x_10] + [x_11];  
 
 R_97 [x_11] → ;  
 
 R_98 [x_4] + [x_6] → [x_10] + [x_4];  
 
 R_99 [x_29] + [x_6] → [x_10] + [x_29] + [x_6];  
 
 R_100 [x_10] → ;  
 
 R_101 [x_33] + [x_39] + [x_7] → [x_33] + [x_39] + [x_9];  
 
 R_102 [x_9] → ;  
 
 R_103 [x_33] + [x_35] + [x_36] + [x_38] + [x_7] → [x_33] + [x_35] + [x_36] + [x_38] + [x_8];  
 
 R_104 [x_1] + [x_30] + [x_7] → [x_1] + [x_30] + [x_8];  
 
 R_105 [x_2] + [x_30] + [x_7] → [x_2] + [x_30] + [x_7] + [x_8];  
 
 R_106 [x_29] + [x_8] → [x_29] + 2.0 × [x_8];  
 
 R_107 [x_8] → ;  
 
 R_108 [x_2] + [x_7] → [x_2] + 2.0 × [x_7];  
 
 R_109 [x_7] → ;  
 
 R_110 [x_2] + [x_30] + [x_7] → [x_2] + [x_30];  
 
 R_111  → [x_6];  
 
 R_112 [x_4] → [x_4] + [x_6];  
 
 R_113 [x_29] → [x_29] + [x_6];  
 
 R_114 [x_6] → ;  
 
 R_115 [x_29] + [x_6] → [x_29];  
 
 R_116 [x_1] + [x_3] + [x_4] → [x_1] + [x_3] + [x_4] + [x_5];  
 
 R_117 [x_3] + [x_5] → [x_3] + 2.0 × [x_5];  
 
 R_118 [x_3] + [x_5] → [x_3];  
 
 R_119 [x_3] + [x_5] + [x_8] → [x_3] + [x_8];  
 
 R_120 [x_4] → 2.0 × [x_4];  
 
 R_121 [x_3] + [x_5] → [x_3] + [x_4] + [x_5];  
 
 R_122 [x_3] + [x_5] + [x_8] → [x_3] + [x_4] + [x_5] + [x_8];  
 
 R_123 [x_2] + [x_4] → [x_2];  
 
 R_124 [x_1] + [x_4] → [x_1];  
 
 R_125 [x_4] + [x_6] → [x_6];  
 
 R_126 [x_1] + 25.0 × [x_4] → [x_3];  
 
 R_127 [x_3] → ;  
 
 R_128 [x_3] + [x_5] → [x_5];  
 
 R_129 [x_3] + [x_8] → [x_8];  
 
 R_130 [x_1] + [x_33] + [x_39] + [x_4] + [x_5] → [x_1] + [x_2] + [x_33] + [x_39] + [x_4] + [x_5];  
 
 R_131 [x_1] + [x_33] + [x_39] + [x_4] + [x_5] → [x_2] + [x_33] + [x_39] + [x_4] + [x_5];  
 
 R_132 [x_1] + [x_29] → [x_2] + [x_29];  
 
 R_133 [x_2] → ;  
 
 R_134 [x_2] + [x_35] → [x_1] + [x_35];  
 
 R_135  → [x_1];  
 
 R_136 [x_2] → [x_1] + [x_2];  
 
 R_137 [x_3] → [x_1] + [x_3];  
 
 R_138 [x_29] → [x_1] + [x_29];  
 
 R_139 [x_1] → ;  
 
 R_140 [x_1] + [x_33] + [x_39] + [x_4] + [x_5] → [x_33] + [x_39] + [x_4] + [x_5];  
 
Rules (111)
 
 Assignment Rule (name: APC) APC = (x_1+x_2)*x_30/(cAPC+x_30)
 
 Assignment Rule (name: Beta91) Beta91 = Beta90
 
 Assignment Rule (name: Beta92) Beta92 = Beta90
 
 Assignment Rule (name: Beta93) Beta93 = Beta90
 
 Assignment Rule (name: Beta94) Beta94 = Beta90
 
 Assignment Rule (name: Beta97) Beta97 = Beta93
 
 Assignment Rule (name: Beta98) Beta98 = Beta93
 
 Assignment Rule (name: FACTOR) FACTOR = x_8*x_29/(cF+x_29)
 
 Assignment Rule (name: INFLAM) INFLAM = MuI*x_29/(cF+x_29)/(cI+x_29/(cF+x_29))
 
 Assignment Rule (name: K91) K91 = K90
 
 Assignment Rule (name: K92) K92 = K90
 
 Assignment Rule (name: K94) K94 = K93
 
 Assignment Rule (name: K97) K97 = K93
 
 Assignment Rule (name: K98) K98 = K93
 
 Assignment Rule (name: MA) MA = x_5/x_3
 
 Assignment Rule (name: MB) MB = x_5/x_3*MC
 
 Assignment Rule (name: MC) MC = volLung/vMI
 
 Assignment Rule (name: MD) MD = volLung/volLymphT
 
 Assignment Rule (name: ME) ME = volLymphT/volBlood
 
 Assignment Rule (name: MF) MF = volBlood/volLung
 
 Assignment Rule (name: MG) MG = volLung/volBlood
 
 Assignment Rule (name: MH) MH = volBlood/volLymphB
 
 Assignment Rule (name: MI) MI = volSite/volBlood
 
 Assignment Rule (name: MJ) MJ = volLymphB/volBlood
 
 Assignment Rule (name: MK) MK = volBlood/volSite
 
 Assignment Rule (name: q45c) q45c = q45b
 
 Assignment Rule (name: v1) v1 = Mu1*x_4/volLung
 
 Assignment Rule (name: v10) v10 = Eta10*x_1/volLung
 
 Assignment Rule (name: v100) v100 = Eta100*x_52/volLung
 
 Assignment Rule (name: v11) v11 = Delta11*x_2/volLung*x_35/(x_35+cf11*volLung)
 
 Assignment Rule (name: v12) v12 = Delta12*x_1/volLung*(x_4+x_5)/(c12*volLung+x_4+x_5)*x_39/(x_39+fi12*x_33+cf12*volLung)+Deltai12*x_1/volLung*x_29/(ci12+x_29)
 
 Assignment Rule (name: v13) v13 = Eta13*x_2/volLung
 
 Assignment Rule (name: v15) v15 = Rho15+Mu15*x_4/(c15*volLung+x_4)+(Rho21+Rho50)*INFLAM
 
 Assignment Rule (name: v16) v16 = Eta16*x_6/volLung
 
 Assignment Rule (name: v17) v17 = Gamma17*x_6/volLung*x_4/(c17*volLung+x_4)+Gamma17*x_6/volLung*1*INFLAM
 
 Assignment Rule (name: v18) v18 = Eta18*x_10/volLymphT
 
 Assignment Rule (name: v19) v19 = Rho19+Mu19*x_10/volLymphT
 
 Assignment Rule (name: v2) v2 = k2*x_1/volLung*x_4/(x_4+c2*volLung)
 
 Assignment Rule (name: v20) v20 = Eta20*x_11/volLymphT
 
 Assignment Rule (name: v21) v21 = Rho21+Delta21*x_11/volLymphT*x_10/volLymphT
 
 Assignment Rule (name: v22) v22 = Mu22*x_12/volLymphT/(c22+(x_12/volLymphT)^2)
 
 Assignment Rule (name: v23) v23 = Gamma23*x_12/volLymphT
 
 Assignment Rule (name: v24) v24 = Gamma24*x_13/volBlood*x_2/(c24*volLung+x_2)
 
 Assignment Rule (name: v25) v25 = Mu25*x_7/volLung*x_2/(c25*volLung+x_2)
 
 Assignment Rule (name: v26) v26 = Eta26*x_7/volLung
 
 Assignment Rule (name: v27) v27 = Delta27*x_7/volLung*x_38/volLung*x_36/(x_36+fi27*x_33+fii27*x_35+cf27*volLung)+Deltai27*x_7/volLung*APC
 
 Assignment Rule (name: v28) v28 = Eta28*x_8/volLung
 
 Assignment Rule (name: v29) v29 = Delta29*x_7/volLung*x_33/(x_33+fi29*x_39+cf29*volLung)
 
 Assignment Rule (name: v3) v3 = k3*x_3/volLung*(x_5/x_3)^2/((x_5/x_3)^2+K3s^2)
 
 Assignment Rule (name: v31) v31 = Gamma31*x_9/volLung
 
 Assignment Rule (name: v32) v32 = Gamma32*x_14/volBlood
 
 Assignment Rule (name: v33) v33 = Eta33*x_15/volLymphB
 
 Assignment Rule (name: v34) v34 = Rho34
 
 Assignment Rule (name: v35) v35 = Eta35*x_16/volSite*x_43/(x_43+x_44+1E-5)
 
 Assignment Rule (name: v36) v36 = Delta36*x_16/volSite*x_44/(x_43+x_44+1E-5)
 
 Assignment Rule (name: v37) v37 = Gamma37*x_17/volSite
 
 Assignment Rule (name: v38) v38 = Delta38*x_18/volBlood/2*x_47/(x_47+x_48+1E-5)
 
 Assignment Rule (name: v39) v39 = Eta47*x_19/volBlood
 
 Assignment Rule (name: v4) v4 = Alpha4*x_3/volLung*x_8/x_3/(x_8/x_3+c4*volLung)
 
 Assignment Rule (name: v40) v40 = Gamma40*x_18/volBlood
 
 Assignment Rule (name: v42) v42 = Mu42*x_20/volLymphB*x_48/(x_47+x_48+1E-5)
 
 Assignment Rule (name: v43) v43 = Delta43*x_20/volLymphB/2*x_47/(x_47+x_48+1E-5)
 
 Assignment Rule (name: v44) v44 = Eta44*x_21/volLymphB
 
 Assignment Rule (name: v45) v45 = q45a*x_18/volBlood+q45b*x_20/volBlood+q45c*x_21/volBlood
 
 Assignment Rule (name: v46) v46 = P46*(x_22/volBlood-x_23/volLung)
 
 Assignment Rule (name: v47) v47 = Eta47*x_19/volBlood
 
 Assignment Rule (name: v48) v48 = Eta48*x_20/volLymphB
 
 Assignment Rule (name: v49) v49 = Eta49*x_22/volBlood
 
 Assignment Rule (name: v5) v5 = Alpha5*x_2/volLung*x_4/volLung
 
 Assignment Rule (name: v50) v50 = Rho50+Delta50*x_11/volLymphT*x_10/volLymphT
 
 Assignment Rule (name: v51) v51 = Gamma51*x_24/volLymphT
 
 Assignment Rule (name: v52) v52 = Gamma52*x_25/volBlood*x_2/(c52*volLung+x_2)
 
 Assignment Rule (name: v53) v53 = Eta53*x_26/volLung
 
 Assignment Rule (name: v54) v54 = Delta54*x_26/volLung*x_29/volLung
 
 Assignment Rule (name: v55) v55 = Mu55*x_27/volLung*FACTOR/(cF+FACTOR)
 
 Assignment Rule (name: v56) v56 = Eta56*x_27/volLung
 
 Assignment Rule (name: v6) v6 = Alpha6*x_1/volLung*x_4/volLung
 
 Assignment Rule (name: v60) v60 = Eta60*x_29/volLung
 
 Assignment Rule (name: v61) v61 = Alpha61*x_2/volLung*x_29/(c61+x_29)
 
 Assignment Rule (name: v62) v62 = Alpha61*x_27/volLung*x_29/(c61+x_29)
 
 Assignment Rule (name: v63) v63 = k63*x_30/volLung
 
 Assignment Rule (name: v68) v68 = q68a*x_7/volLung+q68b*x_9/volLung
 
 Assignment Rule (name: v69) v69 = Eta69*x_33/volLung
 
 Assignment Rule (name: v7) v7 = k7*x_6/volLung*x_4/volLung
 
 Assignment Rule (name: v72) v72 = q72a*x_2/volLung*c72*volLung/(x_35+ci72*x_39+c72*volLung)+q72b*x_8/volLung+q72c*x_9/volLung+q72d*x_7/volLung+q72e*x_3/volLung
 
 Assignment Rule (name: v73) v73 = Eta73*x_35/volLung
 
 Assignment Rule (name: v74) v74 = q74*x_10/volLymphT
 
 Assignment Rule (name: v75) v75 = Eta75*x_36/volLymphT
 
 Assignment Rule (name: v78) v78 = q78a*x_1/volLung+q78b*x_2/volLung
 
 Assignment Rule (name: v79) v79 = Eta79*x_38/volLung
 
 Assignment Rule (name: v8) v8 = Mu8*x_5/vMI*(1-(x_5/x_3)^2/((x_5/x_3)^2+K3s^2))
 
 Assignment Rule (name: v80) v80 = Rho80*(x_4+x_5)/(c80*volLung+x_4+x_5)*x_38/(ci80*volLung+x_38)+q80*x_8*x_2/(cii80*volLung+x_2)
 
 Assignment Rule (name: v81) v81 = Eta81*x_39/volLung
 
 Assignment Rule (name: v84) v84 = Eta84*x_13/volBlood
 
 Assignment Rule (name: v85) v85 = Eta85*x_25/volBlood
 
 Assignment Rule (name: v86) v86 = Mu86*x_8/volLung*FACTOR/(cf86+FACTOR)
 
 Assignment Rule (name: v88) v88 = P88*(x_30/volLung-x_41/volBlood)
 
 Assignment Rule (name: v89) v89 = P89*(x_41/volBlood-x_42/volSite)
 
 Assignment Rule (name: v9) v9 = Rho9+Mu9*(x_2/volLung+w9*x_3/volLung)+Mui9*INFLAM
 
 Assignment Rule (name: v90) v90 = Beta90*(x_42/volSite*x_43/volSite-x_44/volSite/K90)
 
 Assignment Rule (name: v91) v91 = Beta91*(x_42/volSite*x_45/volSite-x_46/volSite/K91)
 
 Assignment Rule (name: v92) v92 = Beta92*(x_41/volSite*x_47/volSite-x_48/volSite/K92)
 
 Assignment Rule (name: v93) v93 = Beta93*(x_41/volBlood*x_22/volBlood-x_49/volBlood/K93)
 
 Assignment Rule (name: v94) v94 = Beta94*(x_41/volBlood*x_49/volBlood-x_50/volBlood/K94)
 
 Assignment Rule (name: v95) v95 = Eta95*x_49/volBlood
 
 Assignment Rule (name: v96) v96 = Eta96*x_50/volBlood
 
 Assignment Rule (name: v97) v97 = Beta97*(x_4/volLung*x_23/volLung-x_51/volLung/K97)
 
 Assignment Rule (name: v98) v98 = Beta98*(x_4/volLung*x_51/volLung-x_52/volLung/K98)
 
 Assignment Rule (name: v99) v99 = Eta99*x_51/volLung
 
 Assignment Rule (name: vMI) vMI = volMI*x_3
 
 Assignment Rule (name: volSite) volSite = volBlood
 
   Spatial dimensions: 3.0  Compartment size: 1.0
 
   x_1
Compartment: compartmentOne
Initial concentration: 1.0E8
 
   x_2
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_3
Compartment: compartmentOne
Initial concentration: 1.0E-7
 
   x_4
Compartment: compartmentOne
Initial concentration: 100000.0
 
   x_5
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_6
Compartment: compartmentOne
Initial concentration: 5.0E7
 
   x_7
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_8
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_9
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_10
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_11
Compartment: compartmentOne
Initial concentration: 78431.3726
 
   x_12
Compartment: compartmentOne
Initial concentration: 1111.18351
 
   x_13
Compartment: compartmentOne
Initial concentration: 3000.49554
 
   x_14
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_15
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_16
Compartment: compartmentOne
Initial concentration: 18750.0
 
   x_17
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_18
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_19
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_20
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_21
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_22
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_23
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_24
Compartment: compartmentOne
Initial concentration: 1111.11111
 
   x_25
Compartment: compartmentOne
Initial concentration: 50000.0
 
   x_26
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_27
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_28
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_29
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_30
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_31
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_32
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_33
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_34
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_35
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_36
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_37
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_38
Compartment: compartmentOne
Initial concentration: 275.0
 
   x_39
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_40
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_41
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_42
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_43
Compartment: compartmentOne
Initial concentration: 1.875E7
 
   x_44
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_45
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_46
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_47
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_48
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_49
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_50
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_51
Compartment: compartmentOne
Initial concentration: 0.0
 
   x_52
Compartment: compartmentOne
Initial concentration: 0.0
 
Global Parameters (278)
 
   Alpha4
Value: 0.5
Constant
 
   Alpha5
Value: 1.25E-7
Constant
 
   Alpha6
Value: 1.25E-8
Constant
 
   Alpha61
Value: 10.0
Constant
 
   Alpha62
Value: 10.0
Constant
 
   Beta90
Value: 1000.0
Constant
 
   c2
Value: 1000000.0
Constant
 
   c4
Value: 0.15
Constant
 
   c12
Value: 500000.0
Constant
 
   c15
Value: 150000.0
Constant
 
   c17
Value: 10000.0
Constant
 
   c22
Value: 3000.0
Constant
 
   c24
Value: 15000.0
Constant
 
   c25
Value: 100000.0
Constant
 
   c52
Value: 15000.0
Constant
 
   c55
Value: 50.0
Constant
 
   c72
Value: 51.0
Constant
 
   c80
Value: 5000.0
Constant
 
   cF
Value: 1000.0
Constant
 
   cf11
Value: 100.0
Constant
 
   cf12
Value: 150.0
Constant
 
   cf27
Value: 30.0
Constant
 
   cf28
Value: 50.0
Constant
 
   cf29
Value: 2.0
Constant
 
   cf86
Value: 50.0
Constant
 
   cI
Value: 50.0
Constant
 
   ci12
Value: 1000.0
Constant
 
   ci72
Value: 0.05
Constant
 
   ci80
Value: 50.0
Constant
 
   cii80
Value: 100000.0
Constant
 
   Delta11
Value: 0.36
Constant
 
   Delta12
Value: 0.4
Constant
 
   Delta21
Value: 1.0E-4
Constant
 
   Delta27
Value: 0.1
Constant
 
   Delta29
Value: 0.05
Constant
 
   Delta36
Value: 2.4
Constant
 
   Delta38
Value: 2.4
Constant
 
   Delta39
Constant
 
   Delta43
Value: 2.4
Constant
 
   Delta50
Value: 1.0E-4
Constant
 
   Delta54
Value: 0.001
Constant
 
   Delta57
Constant
 
   Deltai12
Value: 0.009
Constant
 
   Deltai27
Value: 0.001
Constant
 
   endpoint
Value: 400.0
Constant
 
   Eta10
Value: 0.05
Constant
 
   Eta13
Value: 1.0
Constant
 
   Eta14
Constant
 
   Eta16
Value: 0.01
Constant
 
   Eta18
Value: 0.02
Constant
 
   Eta20
Value: 0.102
Constant
 
   Eta26
Value: 0.3333
Constant
 
   Eta28
Value: 0.3333
Constant
 
   Eta30
Value: 0.3333
Constant
 
   Eta33
Value: 0.3333
Constant
 
   Eta35
Value: 2.4
Constant
 
   Eta44
Value: 1.2
Constant
 
   Eta47
Value: 0.0024
Constant
 
   Eta48
Value: 0.024
Constant
 
   Eta49
Value: 0.048
Constant
 
   Eta53
Value: 0.02
Constant
 
   Eta56
Value: 0.02
Constant
 
   Eta58
Constant
 
   Eta60
Value: 0.001
Constant
 
   Eta69
Value: 2.77
Constant
 
   Eta73
Value: 3.6968
Constant
 
   Eta75
Value: 1.188
Constant
 
   Eta79
Value: 1.0
Constant
 
   Eta81
Value: 3.0
Constant
 
   Eta83
Constant
 
   Eta84
Value: 0.3333
Constant
 
   Eta85
Value: 0.02
Constant
 
   Eta95
Value: 4.8
Constant
 
   Eta96
Value: 4.8
Constant
 
   Eta99
Value: 4.8
Constant
 
   Eta100
Value: 4.8
Constant
 
   fi12
Value: 2.333
Constant
 
   fi27
Value: 4.1
Constant
 
   fi29
Value: 0.12
Constant
 
   fii27
Value: 4.8
Constant
 
   Gamma17
Value: 0.2
Constant
 
   Gamma23
Value: 0.9
Constant
 
   Gamma24
Value: 0.9
Constant
 
   Gamma31
Value: 0.3333
Constant
 
   Gamma32
Value: 0.9
Constant
 
   Gamma37
Value: 0.9
Constant
 
   Gamma40
Value: 0.9
Constant
 
   Gamma41
Value: 0.9
Constant
 
   Gamma51
Value: 0.9
Constant
 
   Gamma52
Value: 0.9
Constant
 
   k2
Value: 0.4
Constant
 
   k3
Value: 0.11
Constant
 
   K3s
Value: 50.0
Constant
 
   k7
Value: 1.0E-7
Constant
 
   k63
Value: 2.0
Constant
 
   K90
Value: 100.0
Constant
 
   K93
Value: 100.0
Constant
 
   Mu1
Value: 0.005
Constant
 
   Mu8
Value: 0.1
Constant
 
   Mu9
Value: 0.04
Constant
 
   Mu15
Value: 0.02
Constant
 
   Mu19
Value: 0.1
Constant
 
   Mu22
Value: 0.9
Constant
 
   Mu25
Value: 0.4
Constant
 
   Mu28
Value: 1.0
Constant
 
   Mu42
Value: 2.4
Constant
 
   Mu55
Value: 1.0
Constant
 
   Mu59
Value: 1.0
Constant
 
   Mu86
Value: 1.0
Constant
 
   MuI
Value: 9.0
Constant
 
   Mui9
Value: 125000.0
Constant
 
   P46
Value: 9.0
Constant
 
   P87
Value: 3.0
Constant
 
   P88
Value: 3.0
Constant
 
   P89
Value: 100000.0
Constant
 
   q68a
Value: 0.0029
Constant
 
   q68b
Value: 0.0218
Constant
 
   q72a
Value: 0.006
Constant
 
   q72b
Value: 5.0E-5
Constant
 
   q72c
Value: 1.0E-4
Constant
 
   q72d
Value: 1.0E-4
Constant
 
   q72e
Value: 1.0E-4
Constant
 
   q74
Value: 0.0035
Constant
 
   q78a
Value: 2.75E-6
Constant
 
   q78b
Value: 8.0E-4
Constant
 
   q80
Value: 0.02
Constant
 
   q82
Constant
 
   Rho9
Value: 5000.0
Constant
 
   Rho15
Value: 500.0
Constant
 
   Rho19
Value: 1000.0
Constant
 
   Rho21
Value: 100.0
Constant
 
   Rho34
Value: 10.0
Constant
 
   Rho50
Value: 100.0
Constant
 
   Rho80
Value: 700.0
Constant
 
   v14
Constant
 
   v30
Constant
 
   v41
Constant
 
   v57
Constant
 
   v58
Constant
 
   v59
Constant
 
   v64
Constant
 
   v65
Constant
 
   v66
Constant
 
   v67
Constant
 
   v70
Constant
 
   v71
Constant
 
   v76
Constant
 
   v77
Constant
 
   v82
Constant
 
   v83
Constant
 
   v87
Constant
 
   volBlood
Value: 4500.0
Constant
 
   volLung
Value: 1000.0
Constant
 
   volLymphB
Value: 150.0
Constant
 
   volLymphT
Value: 10.0
Constant
 
   volMA
Value: 1.6E-8
Constant
 
   volMI
Value: 1.6E-8
Constant
 
   volMR
Value: 8.0E-9
Constant
 
   volT
Value: 2.0E-9
Constant
 
   volTB
Value: 1.0E-12
Constant
 
   w9
Value: 0.14
Constant
 
   APC
Value: NaN
 
   Beta91
Value: NaN
 
   Beta92
Value: NaN
 
   Beta93
Value: NaN
 
   Beta94
Value: NaN
 
   Beta97
Value: NaN
 
   Beta98
Value: NaN
 
   FACTOR
Value: NaN
 
   INFLAM
Value: NaN
 
   K91
Value: NaN
 
   K92
Value: NaN
 
   K94
Value: NaN
 
   K97
Value: NaN
 
   K98
Value: NaN
 
   MA
Value: NaN
 
   MB
Value: NaN
 
   MC
Value: NaN
 
   MD
Value: NaN
 
   ME
Value: NaN
 
   MF
Value: NaN
 
   MG
Value: NaN
 
   MH
Value: NaN
 
   MI
Value: NaN
 
   MJ
Value: NaN
 
   MK
Value: NaN
 
   q45c
Value: NaN
 
   v1
Value: NaN
 
   v10
Value: NaN
 
   v100
Value: NaN
 
   v11
Value: NaN
 
   v12
Value: NaN
 
   v13
Value: NaN
 
   v15
Value: NaN
 
   v16
Value: NaN
 
   v17
Value: NaN
 
   v18
Value: NaN
 
   v19
Value: NaN
 
   v2
Value: NaN
 
   v20
Value: NaN
 
   v21
Value: NaN
 
   v22
Value: NaN
 
   v23
Value: NaN
 
   v24
Value: NaN
 
   v25
Value: NaN
 
   v26
Value: NaN
 
   v27
Value: NaN
 
   v28
Value: NaN
 
   v29
Value: NaN
 
   v3
Value: NaN
 
   v31
Value: NaN
 
   v32
Value: NaN
 
   v33
Value: NaN
 
   v34
Value: NaN
 
   v35
Value: NaN
 
   v36
Value: NaN
 
   v37
Value: NaN
 
   v38
Value: NaN
 
   v39
Value: NaN
 
   v4
Value: NaN
 
   v40
Value: NaN
 
   v42
Value: NaN
 
   v43
Value: NaN
 
   v44
Value: NaN
 
   v45
Value: NaN
 
   v46
Value: NaN
 
   v47
Value: NaN
 
   v48
Value: NaN
 
   v49
Value: NaN
 
   v5
Value: NaN
 
   v50
Value: NaN
 
   v51
Value: NaN
 
   v52
Value: NaN
 
   v53
Value: NaN
 
   v54
Value: NaN
 
   v55
Value: NaN
 
   v56
Value: NaN
 
   v6
Value: NaN
 
   v60
Value: NaN
 
   v61
Value: NaN
 
   v62
Value: NaN
 
   v63
Value: NaN
 
   v68
Value: NaN
 
   v69
Value: NaN
 
   v7
Value: NaN
 
   v72
Value: NaN
 
   v73
Value: NaN
 
   v74
Value: NaN
 
   v75
Value: NaN
 
   v78
Value: NaN
 
   v79
Value: NaN
 
   v8
Value: NaN
 
   v80
Value: NaN
 
   v81
Value: NaN
 
   v84
Value: NaN
 
   v85
Value: NaN
 
   v86
Value: NaN
 
   v88
Value: NaN
 
   v89
Value: NaN
 
   v9
Value: NaN
 
   v90
Value: NaN
 
   v91
Value: NaN
 
   v92
Value: NaN
 
   v93
Value: NaN
 
   v94
Value: NaN
 
   v95
Value: NaN
 
   v96
Value: NaN
 
   v97
Value: NaN
 
   v98
Value: NaN
 
   v99
Value: NaN
 
   vMI
Value: NaN
 
   volSite
Value: NaN
 
   c59
Constant
 
   c61
Constant
 
   c62
Constant
 
   cAPC
Constant
 
   q45a
Constant
 
   q45b
Constant
 
Representative curation result(s)
Representative curation result(s) of BIOMD0000000608

Curator's comment: (updated: 19 Apr 2016 17:45:10 GMT)

The model reproduces Figure 7 (Immune response to Tuberculosis (TB) infection) of the reference publication. The y-axis measure are Cells or pg (for Cytokines) and not Cell/mL or pg/mL (for Cytokines).

The model was simulated using SimBiology v5.1 (Matlab R2014b). The Simbiology file (with the above simulation settings) and the original matlab implementation of the model (provided by the author) can be obtained from the below link.

Additional file(s)
  • Zip file that includes the original matlab code and SimBiology file (with simulation settings):
    Original Matlab code provided by the author: firm_ode.m
    A minor change has been made to this file, K3 is changed to K3s to avoid case-insensitive issues during conversion to SBML using MOCCASIN.

    SimBiology project file: firm_ode.sbproj
    The simulation was performed by loading the SBML model in SimBiology. The SimBiology file with simulation setting can be obtained here.
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