JWS Online

bungay2

bungay2

 Detail
 Download

Reactions

LB1

Factor II lipid binding

II_f + {100.0}LIPID > II_l

LB11

Factor X lipid binding

X_f + {100.0}LIPID > X_l

LB12

Factor Xa lipid binding

Xa_f + {100.0}LIPID > Xa_l

LB13

APC lipid binding

APC_f + {100.0}LIPID > APC_l

LB14

PS lipid binding

PS_f + {100.0}LIPID > PS_l

LB16

Factor Vai lipid binding

Vai_f + {100.0}LIPID > Vai_l

LB17

PC lipid binding

PC_f + {100.0}LIPID > PC_l

LB2

Factor mIIa lipid binding

mIIa_f + {100.0}LIPID > mIIa_l

LB3

Factor V lipid binding

V_f + {100.0}LIPID > V_l

LB4

Factor Va lipid binding

Va_f + {100.0}LIPID > Va_l

LB5

Factor VII lipid binding

VII_f + {100.0}LIPID > VII_l

LB6

Factor VIIa lipid binding

VIIa_f + {100.0}LIPID > VIIa_l

R1

TF_VIIa binding

VIIa_l + TF_l > TF_VIIa_l

R11

IIa_f + V_l > V_IIa_l

R11b

V_IIa_l > IIa_f + Va_l

R13

II_l + Xa_Va_l > Xa_Va_II_l

R14

mIIa_l + Xa_Va_l > Xa_Va_mIIa_l

R15

Xa_Va_II_l > Xa_Va_mIIa_l

R15b

Xa_Va_mIIa_l > IIa_f + Xa_Va_l + {100.0}LIPID

R16

Xa_l + VII_l > VII_Xa_l

R16b

VII_Xa_l > Xa_l + VIIa_l

R19

Va_l + APC_PS_l > APC_PS_Va_l

R19b

APC_PS_Va_l > Vai_l + APC_PS_l

R2

TF_VII binding

VII_l + TF_l > TF_VII_l

R20

Xa_f + TFPI_f > TFPI_Xa_l

R21

TF_VIIa_l + TFPI_Xa_l > TFPI_Xa_TF_VIIa_l

R23

AT_f + Xa_f > Xa_AT_f

R24

AT_f + IIa_f > IIa_AT_f

R25

mIIa_l + V_l > V_mIIa_l

R25b

V_mIIa_l > mIIa_l + Va_l

R27

TM_l + IIa_f > IIa_TM_l

R28

PC_l + IIa_TM_l > IIa_TM_PC_l

R28b

IIa_TM_PC_l > APC_l + IIa_TM_l

R29

AT_f + mIIa_f > mIIa_AT_l

R30

PS_l + APC_l > APC_PS_l

R33

R33

alpha2M_l + IIa_f > alpha2M_IIa_l

R34

R34

alpha2M_l + Xa_f > alpha2M_Xa_l

R4

X_TF_VIIa complex formation

X_l + TF_VIIa_l > TF_VIIa_X_l

R4b

Factor X activation

TF_VIIa_X_l > TF_VIIa_Xa_l

R4c

Factor Xa release

TF_VIIa_Xa_l > Xa_l + TF_VIIa_l

R5

Xa_TF_VII binding

Xa_l + TF_VII_l > TF_VII_Xa_l

R5b

TF_VII activation

TF_VII_Xa_l > Xa_l + TF_VIIa_l

R7

Va_Xa binding

Va_l + Xa_l > Xa_Va_l

R9

V_Xa binding

Xa_l + V_l > V_Xa_l

R9b

Factor V activation

V_Xa_l > Xa_l + Va_l

Parameters

Global parameters

Fixed species

Initial values

Functions and Rules

Events

Constraints

Note that constraints are not enforced in simulations. It remains the responsibility of the user to verify that simulation results satisfy these constraints.


Species:

Reactions:

Middle-click: pin/unpin nodes
Shift-click: pool/unpool species
Right-click: context menu
Apply alternate model layout to overlapping elements in current model:

log scales

y-axis min/max

x-axis min/max

Modelling thrombin generation in human ovarian follicular fluid.

  • Sharene D Bungay
  • Patricia A Gentry
  • Rodney D Gentry
Bull. Math. Biol. 2006; 68 (8): 2283-2302
Abstract
A mathematical model is constructed to study thrombin production in human ovarian follicular fluid. The model results show that the amount of thrombin that can be produced in ovarian follicular fluid is much lower than that in blood plasma, failing to reach the level required for fibrin formation, and thereby supporting the hypothesis that in follicular fluid thrombin functions to initiate cellular activities via intracellular signalling receptors. It is also concluded that the absence of the amplification pathway to thrombin production in follicular fluid is a major factor in restricting the amount of thrombin that can be produced. Titration of the initial concentrations of the various reactants in the model lead to predictions for the amount of tissue factor and phospholipid that is required to maintain thrombin production in the follicle, as well as to the conclusion that tissue factor pathway inhibitor has little effect on the time that thrombin generation is sustained. Numerical experiments to determine the effect of factor V, which is at a much reduced level in follicular fluid compared to plasma, and thrombomodulin, illustrate the importance for further experimental work to determine values for several parameters that have yet to be reported in the literature.
The SBML for this model was obtained from the BioModels database (BioModels ID: BIOMD0000000333) Biomodels notes: Follicular fluid model of the Article Bungay2006 (blood plasma model also available in MODEL1105090001). It is a modification of Bungay2003 (MODEL9852292468). Factors are denoted by their numbers, with _l and _f suffixes depending on whether they are lipid-bound or fluid phase. Thrombin generation curve in follicular fluid as depicted by figure 3a of the article. Model integrated and simulated in Copasi 4.6.32, plotted with Matplotlib. JWS Online curation: This model was curated by reproducing the figures as described in the BioModels Notes. No additional changes were made.