Cancer/Ebola/Influenza Research Simulation Programs

Research Group - Dr. Qing Wang (Mathematics, PI), Dr. Robert Warburton (Chemistry), and Dr. Zhijun Wang (Computer Science), Shepherd University.

Project Mentor - Dr. David Klinke, Department of Chemical Engineering, Department of Microbiology, Immunology, and Cell Biology, West Virginia University.

Please note: Currently all simulation programs are implemented in C#/ASP.Net and only run with required components installed and impulse/experimental data files in right folders. Please use Internet Explorer/Edge.

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Cancer Model Parameter Optimizers and Equation Set Solvers

Date	Simulator	Solver	C07V8 – Model updated with alpha1 to alpha10. #1 w/o treatment. #2 with treatment. C07V7 - Added textboxes for the last version. 12/22/2018. C07V6 - Added IFN Gamma boundary conditions for days 14, 15, and 18. 12/15/2018. C07V5 - Output bug fix. 7/28/2018. C07V4 - Simulator for updated model in July 2018. 1. Add parameter i7 for IL impulses. Two CMHCIm init values (0.054, 0.18). Two groups of impulse files/experimental data. Normalized error. Three folders of outputs - Variance #1. Variance #2. Variance Both. C08V4 - Solver for updated model in July 2018. C08V3 - Latest model solver from June 2017. See paper. New model - Modeling the effect of combination therapy involving Alpha4-1BB, 4-1BB, and IL-12. Please refer to the draft for the model and equations. Impulse files should be placed in the "Impulses" folder on the desktop. Examples - IL, Alpha4-1BB, CMHCIm.
2021-01-22 (Simulator)	C07V8#1 C07V8#2 C07V8
20180722 (Simulator) 20180716 (Solver)	C07V7 C07V6 C07V5 C07V4	C08V4
20170605 (start)		C08V3 4-1BB & IL-12
20161109		C08 C08V2

Date	Simulator	Solver	New model - see paper draft circulated by emails. Example impulse files - Dox, A. Impulse files should be placed in the "Impulses" folder on the desktop.
20190722	Simulator	D01V3
20171008		D01, D01V2

Date	Simulator	Solver	Changes were made to equations (6) and (10) based on an email communication. Version 2 - Fitness function changed to sum of absolute values of (log10(model prediction)-log10(exp data)). Set log10(exp data) = 0 if exp data = 0. Version 3 - Change #1. IL impulse functions are multiplied by the day-0 impulse, which used to be only 1s. Function f(x)=(a_1*x^2+b_1*x+1)/(a_2*x^2+b_2*x+1) with parameter values a_1=13.6127, a_2=0.313, b_1=0.8606, b_2=-0.6216 are used for IL12 impulses for 10 days. Change #2. When the tumor size (MHCI+ and MHCI-) is less than 1.0e-7, all tumor compartment variables (equations 8-15) become zeros, until MHCI- gets a new impulse (with a new tumor implant). Version 4 - Solved the small value (less than 1e-20) issue in numerical solutions and the volt issue.
20150726	C05	C06
20151015	C05V2
20151119	C05V3 C05V3A Updated 20170629	C06V3 Updated 20170603 C06V3A Updated 20180126
20180206	C05V4	C06V4

Date	Simulator	Solver	5 result files in every partition. Solver not changed.
20150703	C03

Date	Simulator	Solver	Impulse files should be properly named and put in the "Impulses" folder on the desktop. If "TumorExp.txt" is not on the desktop, the built-in one is used.
20150629	C01	C02

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Ebola Model Parameter Optimizers and Equation Set Solvers

Date	Simulator	Simulator	Simulator	Solver	Cumulative version. E ---> Q.
20150703	E03 - Guinea	E03 - Liberia	E03 - Sierra Leone	E04

Date	Simulator	Simulator	Simulator	Solver	Impluse files should be properly named and put in the "Impulses" folder on the desktop. If "Guinea.txt", "Liberia.txt", or "SierraLeone.txt" is not on the desktop, the built-in one is used.
20150626	E01 - Guinea	E01 - Liberia	E01 - Sierra Leone	E02

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Archived Simulators for Cancer/SARS/H1N1 Models.