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BIOMD0000000611 - Nayak2015 - Blood Coagulation Network - Predicting the Effects of Various Therapies on Biomarkers

 

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Reference Publication
Publication ID: 26312163
Nayak S, Lee D, Patel-Hett S, Pittman DD, Martin SW, Heatherington AC, Vicini P, Hua F.
Using a Systems Pharmacology Model of the Blood Coagulation Network to Predict the Effects of Various Therapies on Biomarkers.
CPT Pharmacometrics Syst Pharmacol 2015 Jul; 4(7): 396-405
Pharmacometrics, Global Innovative Pharma Business (GIPB), Pfizer Inc. Cambridge, Massachusetts, USA.  [more]
Model
Original Model: BIOMD0000000611.origin
Submitter: Satyaprakash Nayak
Submission ID: MODEL1511160000
Submission Date: 16 Nov 2015 18:21:48 UTC
Last Modification Date: 13 Jan 2017 16:14:08 UTC
Creation Date: 08 Dec 2015 09:40:35 UTC
Encoders:  Vijayalakshmi Chelliah
   Satyaprakash Nayak
set #1
bqbiol:hasProperty Human Disease Ontology blood coagulation disease
set #2
bqmodel:isDerivedFrom BioModels Database Chatterjee2010_BloodCoagulation
BioModels Database Wajima2009_BloodCoagulation_warfarin_heparin
BioModels Database Wajima2009_BloodCoagulation_aPTTtest
BioModels Database Wajima2009_BloodCoagulation_PTtest
BioModels Database Hockin2002_BloodCoagulation
set #3
bqbiol:isVersionOf Gene Ontology blood coagulation
set #4
bqbiol:hasTaxon Taxonomy Homo sapiens
Notes
Nayak2015 - Blood Coagulation Network - Predicting the Effects of Various Therapies on Biomarkers
Note:
The SBML model is generated from SimBiology. The SimBiology (.sbproj) file is available for download from the curation tab.

This model is described in the article:

Nayak S, Lee D, Patel-Hett S, Pittman DD, Martin SW, Heatherington AC, Vicini P, Hua F.
CPT Pharmacometrics Syst Pharmacol. 2015 Jul;4(7):396-405.

Abstract:

A number of therapeutics have been developed or are under development aiming to modulate the coagulation network to treat various diseases. We used a systems model to better understand the effect of modulating various components on blood coagulation. A computational model of the coagulation network was built to match in-house in vitro thrombin generation and activated Partial Thromboplastin Time (aPTT) data with various concentrations of recombinant factor VIIa (FVIIa) or factor Xa added to normal human plasma or factor VIII-deficient plasma. Sensitivity analysis applied to the model revealed that lag time, peak thrombin concentration, area under the curve (AUC) of the thrombin generation profile, and aPTT show different sensitivity to changes in coagulation factors' concentrations and type of plasma used (normal or factor VIII-deficient). We also used the model to explore how variability in concentrations of the proteins in coagulation network can impact the response to FVIIa treatment.

This model is hosted on BioModels Database and identified by: MODEL1511160000.

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: 26312163 Submission Date: 16 Nov 2015 18:21:48 UTC Last Modification Date: 13 Jan 2017 16:14:08 UTC Creation Date: 08 Dec 2015 09:40:35 UTC
Mathematical expressions
Reactions
R1 R2 R3 R4
R5 R6 R6b R7
R8 R8b R9 R10
R11 R12 R12b R13
R14 R15 R16 R17
R18 R18b R19 R20
R21 R22 R23 R24
R25 R26 R27 R28
R31 R31b R32 R32b
R37 R39 R39b R41
R45 R45b R46 R46b
R49 R49b R50 R51
R052 R301 R053 R055
R054 R056 R057 R058
R059 R060 R47 R47b
mw2b7d93e1_fc1b_4fa0_a03b_4d2b2259d14f N1    
Rules
Assignment Rule (variable: IIa_12mIIa)      
Physical entities
Compartments Species
blood TF TF_VII VII
TF_VIIa VIIa Xa
IIa TF_VIIa_X X
TF_VIIa_Xa IX TF_VIIa_IX
IXa II VIII
VIIIa IXa_VIIIa IXa_VIIIa_X
VIIIa1_L VIIIa2 V
Va Xa_Va Xa_Va_II
mIIa TFPI Xa_TFPI
TF_VIIa_Xa_TFPI ATIII Xa_ATIII
mIIa_ATIII IXa_ATIII IIa_ATIII
TF_VIIa_ATIII CA XII
XIIa PK XIIa_PK
K XII_K XIIa_ATIII
XI XIa XIIa_XI
XIa_ATIII XIa_IX IXa_X
VIIa_X IIa_12mIIa Tmod
IIa_Tmod PC IIa_Tmod_PC
APC Fg F
APC_Va APC_VIIIa Va_deg
VIIIa_deg APC_IXa_VIIIa APC_IXa_VIIIa_X
Xa_VIII F12 F12_deg
Global parameters
k1 k2 k3 k4
k5 k6 k7 k8
k9 k10 k11 k12
k13 k14 k15 k16
k17 k18 k19 k20
k21 k22 k23 k24
k25 k25_1 k26 k29
k30 k31 k32 k33
k34 k35 k36 k37
k38 k39 k40 k41
k42 k43 k44 k45
k46 k47 k48 k49
k50 k54 k55 k56
k57 k58 k59 k60
k61 k62 k63 k67
k68 k70 k71 k72
k73 k74 k75 k76
k77 k78 k79 k80
k81 k82 k83 k84
k85 ATIII_ss Dilution Fg_ss
II_ss IX_ss PC_ss PK_ss
TF_ss TFPI_ss Tmod_ss V_ss
VII_ss VIIa_ss VIII_ss X_ss
Xa_ss XI_ss XII_ss k86
k28 k66 k69 k27
k51 k52 k53 k64
k65 n1    
Reactions (62)
 
 R1 [TF] + [VII] ↔ [TF_VII];   {TF} , {VII} , {TF_VII} , {TF} , {VII} , {TF_VII}
 
 R2 [TF] + [VIIa] ↔ [TF_VIIa];   {TF} , {VIIa} , {TF_VIIa} , {TF} , {VIIa} , {TF_VIIa}
 
 R3 [TF_VIIa] + [VII] → [TF_VIIa] + [VIIa];   {TF_VIIa} , {VII} , {TF_VIIa} , {VII}
 
 R4 [Xa] + [VII] → [Xa] + [VIIa];   {Xa} , {VII} , {Xa} , {VII}
 
 R5 [IIa] + [VII] → [IIa] + [VIIa];   {IIa} , {VII} , {IIa} , {VII}
 
 R6 [TF_VIIa] + [X] ↔ [TF_VIIa_X];   {TF_VIIa} , {X} , {TF_VIIa_X} , {TF_VIIa} , {X} , {TF_VIIa_X}
 
 R6b [TF_VIIa_X] → [TF_VIIa_Xa];   {TF_VIIa_X} , {TF_VIIa_X}
 
 R7 [TF_VIIa] + [Xa] ↔ [TF_VIIa_Xa];   {TF_VIIa} , {Xa} , {TF_VIIa_Xa} , {TF_VIIa} , {Xa} , {TF_VIIa_Xa}
 
 R8 [TF_VIIa] + [IX] ↔ [TF_VIIa_IX];   {TF_VIIa} , {IX} , {TF_VIIa_IX} , {TF_VIIa} , {IX} , {TF_VIIa_IX}
 
 R8b [TF_VIIa_IX] → [TF_VIIa] + [IXa];   {TF_VIIa_IX} , {TF_VIIa_IX}
 
 R9 [Xa] + [II] → [Xa] + [IIa] + [F12];   {Xa} , {II} , {Xa} , {II}
 
 R10 [IIa] + [VIII] → [IIa] + [VIIIa];   {IIa} , {VIII} , {IIa} , {VIII}
 
 R11 [IXa] + [VIIIa] ↔ [IXa_VIIIa];   {IXa} , {VIIIa} , {IXa_VIIIa} , {IXa} , {VIIIa} , {IXa_VIIIa}
 
 R12 [IXa_VIIIa] + [X] ↔ [IXa_VIIIa_X];   {IXa_VIIIa} , {X} , {IXa_VIIIa_X} , {IXa_VIIIa} , {X} , {IXa_VIIIa_X}
 
 R12b [IXa_VIIIa_X] → [IXa_VIIIa] + [Xa];   {IXa_VIIIa_X} , {IXa_VIIIa_X}
 
 R13 [VIIIa] ↔ [VIIIa1_L] + [VIIIa2];   {VIIIa} , {VIIIa1_L} , {VIIIa2} , {VIIIa} , {VIIIa1_L} , {VIIIa2}
 
 R14 [IXa_VIIIa_X] → [VIIIa1_L] + [VIIIa2] + [X] + [IXa];   {IXa_VIIIa_X} , {IXa_VIIIa_X}
 
 R15 [IXa_VIIIa] → [VIIIa1_L] + [VIIIa2] + [IXa];   {IXa_VIIIa} , {IXa_VIIIa}
 
 R16 [IIa] + [V] → [IIa] + [Va];   {IIa} , {V} , {IIa} , {V}
 
 R17 [Xa] + [Va] ↔ [Xa_Va];   {Xa} , {Va} , {Xa_Va} , {Xa} , {Va} , {Xa_Va}
 
 R18 [Xa_Va] + [II] ↔ [Xa_Va_II];   {Xa_Va} , {II} , {Xa_Va_II} , {Xa_Va} , {II} , {Xa_Va_II}
 
 R18b [Xa_Va_II] → [Xa_Va] + [mIIa] + [F12];   {Xa_Va_II} , {Xa_Va_II}
 
 R19 [mIIa] + [Xa_Va] → [IIa] + [Xa_Va];   {mIIa} , {Xa_Va} , {mIIa} , {Xa_Va}
 
 R20 [Xa] + [TFPI] ↔ [Xa_TFPI];   {Xa} , {TFPI} , {Xa_TFPI} , {Xa} , {TFPI} , {Xa_TFPI}
 
 R21 [TF_VIIa_Xa] + [TFPI] ↔ [TF_VIIa_Xa_TFPI];   {TF_VIIa_Xa} , {TFPI} , {TF_VIIa_Xa_TFPI} , {TF_VIIa_Xa} , {TFPI} , {TF_VIIa_Xa_TFPI}
 
 R22 [TF_VIIa] + [Xa_TFPI] → [TF_VIIa_Xa_TFPI];   {TF_VIIa} , {Xa_TFPI} , {TF_VIIa} , {Xa_TFPI}
 
 R23 [Xa] + [ATIII] → [Xa_ATIII];   {Xa} , {ATIII} , {Xa} , {ATIII}
 
 R24 [mIIa] + [ATIII] → [mIIa_ATIII];   {mIIa} , {ATIII} , {mIIa} , {ATIII}
 
 R25 [IXa] + [ATIII] → [IXa_ATIII];   {IXa} , {ATIII} , {IXa} , {ATIII}
 
 R26 [IIa] + [ATIII] → [IIa_ATIII];   {IIa} , {ATIII} , {IIa} , {ATIII}
 
 R27 [TF_VIIa] + [ATIII] → [TF_VIIa_ATIII];   {TF_VIIa} , {ATIII} , {TF_VIIa} , {ATIII}
 
 R28 [CA] + [XII] → [CA] + [XIIa];   {CA} , {XII} , {CA} , {XII}
 
 R31 [XIIa] + [PK] ↔ [XIIa_PK];   {XIIa} , {PK} , {XIIa_PK} , {XIIa} , {PK} , {XIIa_PK}
 
 R31b [XIIa_PK] → [XIIa] + [K];   {XIIa_PK} , {XIIa_PK}
 
 R32 [XII] + [K] ↔ [XII_K];   {XII} , {K} , {XII_K} , {XII} , {K} , {XII_K}
 
 R32b [XII_K] → [XIIa] + [K];   {XII_K} , {XII_K}
 
 R37 [XIIa] + [ATIII] → [XIIa_ATIII];   {XIIa} , {ATIII} , {XIIa} , {ATIII}
 
 R39 [XIIa] + [XI] ↔ [XIIa_XI];   {XIIa} , {XI} , {XIIa_XI} , {XIIa} , {XI} , {XIIa_XI}
 
 R39b [XIIa_XI] → [XIIa] + [XIa];   {XIIa_XI} , {XIIa_XI}
 
 R41 [XIa] + [ATIII] → [XIa_ATIII];   {XIa} , {ATIII} , {XIa} , {ATIII}
 
 R45 [XIa] + [IX] ↔ [XIa_IX];   {XIa} , {IX} , {XIa_IX} , {XIa} , {IX} , {XIa_IX}
 
 R45b [XIa_IX] → [XIa] + [IXa];   {XIa_IX} , {XIa_IX}
 
 R46 [IXa] + [X] ↔ [IXa_X];   {IXa} , {X} , {IXa_X} , {IXa} , {X} , {IXa_X}
 
 R46b [IXa_X] → [IXa] + [Xa];   {IXa_X} , {IXa_X}
 
 R49 [VIIa] + [X] ↔ [VIIa_X];   {VIIa} , {X} , {VIIa_X} , {VIIa} , {X} , {VIIa_X}
 
 R49b [VIIa_X] → [VIIa] + [Xa];   {VIIa_X} , {VIIa_X}
 
 R50 [IIa] + [Tmod] ↔ [IIa_Tmod];   {IIa} , {Tmod} , {IIa_Tmod} , {IIa} , {Tmod} , {IIa_Tmod}
 
 R51 [IIa_Tmod] + [PC] ↔ [IIa_Tmod_PC];   {IIa_Tmod} , {PC} , {IIa_Tmod_PC} , {IIa_Tmod} , {PC} , {IIa_Tmod_PC}
 
 R052 [IIa_Tmod_PC] → [IIa_Tmod] + [APC];   {IIa_Tmod_PC} , {IIa_Tmod_PC}
 
 R301 [IIa] + [Fg] → [IIa] + [F];   {IIa} , {Fg} , {IIa} , {Fg}
 
 R053 [APC] + [Va] ↔ [APC_Va];   {APC} , {Va} , {APC_Va} , {APC} , {Va} , {APC_Va}
 
 R055 [APC] + [VIIIa] ↔ [APC_VIIIa];   {APC} , {VIIIa} , {APC_VIIIa} , {APC} , {VIIIa} , {APC_VIIIa}
 
 R054 [APC_Va] → [APC] + [Va_deg];   {APC_Va} , {APC_Va}
 
 R056 [APC_VIIIa] → [APC] + [VIIIa_deg];   {APC_VIIIa} , {APC_VIIIa}
 
 R057 [APC] + [IXa_VIIIa] ↔ [APC_IXa_VIIIa];   {APC} , {IXa_VIIIa} , {APC_IXa_VIIIa} , {APC} , {IXa_VIIIa} , {APC_IXa_VIIIa}
 
 R058 [APC_IXa_VIIIa] → [APC] + [IXa] + [VIIIa_deg];   {APC_IXa_VIIIa} , {APC_IXa_VIIIa}
 
 R059 [APC] + [IXa_VIIIa_X] ↔ [APC_IXa_VIIIa_X];   {APC} , {IXa_VIIIa_X} , {APC_IXa_VIIIa_X} , {APC} , {IXa_VIIIa_X} , {APC_IXa_VIIIa_X}
 
 R060 [APC_IXa_VIIIa_X] → [APC] + [IXa] + [X] + [VIIIa_deg];   {APC_IXa_VIIIa_X} , {APC_IXa_VIIIa_X}
 
 R47 [Xa] + [VIII] ↔ [Xa_VIII];   {Xa} , {VIII} , {Xa_VIII} , {Xa} , {VIII} , {Xa_VIII}
 
 R47b [Xa_VIII] → [Xa] + [VIIIa];   {Xa_VIII} , {Xa_VIII}
 
 mw2b7d93e1_fc1b_4fa0_a03b_4d2b2259d14f [F12] → [F12_deg];   {F12} , {F12}
 
 N1 [VIIa_X] + [XIa] → [VIIa] + [Xa] + [XIa];   {VIIa_X} , {XIa} , {VIIa_X} , {XIa}
 
Rules (1)
 
 Assignment Rule (name: mw85e2714d_e6e5_47d5_9ffc_d90573faebe1) IIa_12mIIa = IIa+1.2*mIIa
 
   blood Spatial dimensions: 3.0  Compartment size: 1.0
 
 TF
Compartment: blood
Initial amount: 0.005
 
 TF_VII
Compartment: blood
Initial amount: 0.0
 
 VII
Compartment: blood
Initial amount: 10.0
 
 TF_VIIa
Compartment: blood
Initial amount: 0.0
 
 VIIa
Compartment: blood
Initial amount: 0.0
 
 Xa
Compartment: blood
Initial amount: 0.0
 
 IIa
Compartment: blood
Initial amount: 0.0
 
 TF_VIIa_X
Compartment: blood
Initial amount: 0.0
 
 X
Compartment: blood
Initial amount: 160.0
 
 TF_VIIa_Xa
Compartment: blood
Initial amount: 0.0
 
 IX
Compartment: blood
Initial amount: 90.0
 
 TF_VIIa_IX
Compartment: blood
Initial amount: 0.0
 
 IXa
Compartment: blood
Initial amount: 0.0
 
 II
Compartment: blood
Initial amount: 1400.0
 
 VIII
Compartment: blood
Initial amount: 0.7
 
 VIIIa
Compartment: blood
Initial amount: 0.0
 
 IXa_VIIIa
Compartment: blood
Initial amount: 0.0
 
 IXa_VIIIa_X
Compartment: blood
Initial amount: 0.0
 
 VIIIa1_L
Compartment: blood
Initial amount: 0.0
 
 VIIIa2
Compartment: blood
Initial amount: 0.0
 
 V
Compartment: blood
Initial amount: 20.0
 
 Va
Compartment: blood
Initial amount: 0.0
 
 Xa_Va
Compartment: blood
Initial amount: 0.0
 
 Xa_Va_II
Compartment: blood
Initial amount: 0.0
 
 mIIa
Compartment: blood
Initial amount: 0.0
 
 TFPI
Compartment: blood
Initial amount: 2.5
 
 Xa_TFPI
Compartment: blood
Initial amount: 0.0
 
 TF_VIIa_Xa_TFPI
Compartment: blood
Initial amount: 0.0
 
 ATIII
Compartment: blood
Initial amount: 3400.0
 
 Xa_ATIII
Compartment: blood
Initial amount: 0.0
 
 mIIa_ATIII
Compartment: blood
Initial amount: 0.0
 
 IXa_ATIII
Compartment: blood
Initial amount: 0.0
 
 IIa_ATIII
Compartment: blood
Initial amount: 0.0
 
 TF_VIIa_ATIII
Compartment: blood
Initial amount: 0.0
 
   CA
Compartment: blood
Initial amount: 0.0
 
   XII
Compartment: blood
Initial amount: 340.0
 
   XIIa
Compartment: blood
Initial amount: 0.0
 
   PK
Compartment: blood
Initial amount: 450.0
 
   XIIa_PK
Compartment: blood
Initial amount: 0.0
 
   K
Compartment: blood
Initial amount: 0.0
 
   XII_K
Compartment: blood
Initial amount: 0.0
 
   XIIa_ATIII
Compartment: blood
Initial amount: 0.0
 
   XI
Compartment: blood
Initial amount: 31.0
 
   XIa
Compartment: blood
Initial amount: 0.0
 
   XIIa_XI
Compartment: blood
Initial amount: 0.0
 
   XIa_ATIII
Compartment: blood
Initial amount: 0.0
 
   XIa_IX
Compartment: blood
Initial amount: 0.0
 
   IXa_X
Compartment: blood
Initial amount: 0.0
 
   VIIa_X
Compartment: blood
Initial amount: 0.0
 
   IIa_12mIIa
Compartment: blood
Initial amount: 0.0
 
   Tmod
Compartment: blood
Initial amount: 50.0
 
   IIa_Tmod
Compartment: blood
Initial amount: 0.0
 
   PC
Compartment: blood
Initial amount: 60.0
 
   IIa_Tmod_PC
Compartment: blood
Initial amount: 0.0
 
   APC
Compartment: blood
Initial amount: 0.0
 
   Fg
Compartment: blood
Initial amount: 9000.0
 
   F
Compartment: blood
Initial amount: 0.0
 
   APC_Va
Compartment: blood
Initial amount: 0.0
 
   APC_VIIIa
Compartment: blood
Initial amount: 0.0
 
   Va_deg
Compartment: blood
Initial amount: 0.0
 
   VIIIa_deg
Compartment: blood
Initial amount: 0.0
 
   APC_IXa_VIIIa
Compartment: blood
Initial amount: 0.0
 
   APC_IXa_VIIIa_X
Compartment: blood
Initial amount: 0.0
 
   Xa_VIII
Compartment: blood
Initial amount: 0.0
 
   F12
Compartment: blood
Initial amount: 0.0
 
   F12_deg
Compartment: blood
Initial amount: 0.0
 
Global Parameters (106)
 
   k1
Value: 0.0043339901
Constant
 
   k2
Value: 0.0041242451
Constant
 
   k3
Value: 0.0019496187
Constant
 
   k4
Value: 0.075680013
Constant
 
   k5
Value: 3.3894832E-4
Constant
 
   k6
Value: 0.009975373
Constant
 
   k7
Value: 1.1527134E-5
Constant
 
   k8
Value: 1.3800407
Constant
 
   k9
Value: 0.036245656
Constant
 
   k10
Value: 8.9987819
Constant
 
   k11
Value: 9.5
Constant
 
   k12
Value: 0.032999929
Constant
 
   k13
Value: 20.6708
Constant
 
   k14
Value: 0.010569458
Constant
 
   k15
Value: 2.3887492
Constant
 
   k16
Value: 3.764127E-5
Constant
 
   k17
Value: 1.44895
Constant
 
   k18
Value: 0.0050724996
Constant
 
 k19
Value: 0.11749508
Constant
 
   k20
Value: 0.0013766033
Constant
 
 k21
Value: 0.048795021
Constant
 
   k22
Value: 42.71401
Constant
 
   k23
Value: 3.3E-5
Constant
 
   k24
Value: 0.009
Constant
 
   k25
Value: 0.0013357963
Constant
 
   k25_1
Value: 0.0013946425
Constant
 
   k26
Value: 4.0233556E-4
Constant
 
   k29
Value: 149.91541
Constant
 
   k30
Value: 0.10001522
Constant
 
   k31
Value: 29.479266
Constant
 
   k32
Value: 0.21872155
Constant
 
   k33
Value: 1.801577E-4
Constant
 
   k34
Value: 4.5E-4
Constant
 
   k35
Value: 1.0062408E-4
Constant
 
   k36
Value: 0.25638864
Constant
 
   k37
Value: 0.025386917
Constant
 
   k38
Value: 1.0556718E-6
Constant
 
   k39
Value: 3.55E-6
Constant
 
   k40
Value: 2.8169728E-7
Constant
 
   k41
Value: 3.917682E-6
Constant
 
   k42
Value: 3.2905257E-7
Constant
 
   k43
Value: 8.5153312E-6
Constant
 
   k44
Value: 0.091852853
Constant
 
   k45
Value: 1800.0
Constant
 
   k46
Value: 47.928292
Constant
 
   k47
Value: 0.15
Constant
 
   k48
Value: 57.613526
Constant
 
   k49
Value: 4.1832115
Constant
 
   k50
Value: 1.08E-8
Constant
 
   k54
Value: 4.8E-7
Constant
 
   k55
Value: 0.13081564
 
   k56
Value: 30.668349
Constant
 
   k57
Value: 10.565569
Constant
 
   k58
Value: 0.13304333
Constant
 
   k59
Value: 83.206626
Constant
 
   k60
Value: 0.0011427258
Constant
 
   k61
Value: 0.059664002
Constant
 
   k62
Value: 84.659935
Constant
 
   k63
Value: 1.2943783E-5
Constant
 
   k67
Value: 19.338228
Constant
 
 k68
Value: 0.1857857
Constant
 
   k70
Value: 10740.276
Constant
 
 k71
Value: 0.1043597
Constant
 
   k72
Value: 2.0649128
Constant
 
   k73
Value: 0.07934338
Constant
 
   k74
Value: 1.9895374
Constant
 
   k75
Value: 0.24027638
Constant
 
   k76
Value: 0.032359973
Constant
 
   k77
Value: 0.077518002
Constant
 
   k78
Value: 2.0869571
Constant
 
   k79
Value: 0.029887563
Constant
 
   k80
Value: 0.1289308
Constant
 
   k81
Value: 1.4001578
Constant
 
   k82
Value: 0.013215482
Constant
 
   k83
Value: 0.15
Constant
 
   k84
Value: 3.15
Constant
 
   k85
Value: 0.0345
Constant
 
   ATIII_ss
Value: 3400.0
Constant
 
   Dilution
Value: 1.7143
 
   Fg_ss
Value: 9000.0
Constant
 
   II_ss
Value: 1400.0
Constant
 
   IX_ss
Value: 90.0
Constant
 
   PC_ss
Value: 60.0
Constant
 
   PK_ss
Value: 450.0
Constant
 
   TF_ss
Value: 0.001743
Constant
 
   TFPI_ss
Value: 2.5
Constant
 
   Tmod_ss
Value: 0.5
Constant
 
   V_ss
Value: 20.0
Constant
 
   VII_ss
Value: 10.0
Constant
 
   VIIa_ss
Value: 0.1
Constant
 
   VIII_ss
Value: 0.7
Constant
 
   X_ss
Value: 160.0
Constant
 
   Xa_ss  
 
   XI_ss
Value: 31.0
Constant
 
   XII_ss
Value: 340.0
Constant
 
   k86
Value: 1.0958881E-4
Constant
 
 k28
Value: 0.12914436
Constant
 
   k66
Value: 0.10523968
Constant
 
   k69
Value: 90.211653
Constant
 
 k27
Value: 0.006
Constant
 
   k51
Value: 0.13632245
Constant
 
   k52
Value: 18.705029
Constant
 
   k53
Value: 3.5000006E-4
Constant
 
   k64
Value: 0.11573051
Constant
 
   k65
Value: 0.050084768
Constant
 
   n1
Value: 0.05
Constant
 
Representative curation result(s)
Representative curation result(s) of BIOMD0000000611

Curator's comment: (updated: 09 May 2016 14:29:50 GMT)

Figures 2B, G, L and Q of the reference publication has been reproduced here. The matlab script that was used to generate the figures was sent by the author Satyaprakash Nayak. The script uses the Simbiology file to generate the figures. The matlab script and the SimBiology (.sbproj) of the model can be downloaded from below link.
Note: The SBML file was also checked for simulation using Copasi v4.15 (Build 95), and it reproduces the results in the paper. The SBML file was generated from SimBiology.

Additional file(s)
  • SimBiology project file and the matlab script to reproduce the figures in the paper:
    The Zip file contains two files.
    1. The Simbiology source file that was used to generate the SBML file.
    2. The matlab script that uses the simbiology file to reproduce the figures in the paper.
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