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cody2 authored May 15, 2023
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Expand Up @@ -3,7 +3,7 @@ Jonathan W. Cody

This repository contains all the code needed to replicate the following article. MATLAB R2018b or later is required.

Cody JW, Ellis-Connell AL, O’Connor SL, Pienaar E. "Mathematical modeling indicates that regulatory inhibition of CD8+ T cell cytotoxicity can limit efficacy of IL-15 immunotherapy in cases of high pre-treatment SIV viral load."
*Cody JW, Ellis-Connell AL, O’Connor SL, Pienaar E. "Mathematical modeling indicates that regulatory inhibition of CD8+ T cell cytotoxicity can limit efficacy of IL-15 immunotherapy in cases of high pre-treatment SIV viral load."*

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The repository containts the following data (MATLAB .mat files):
**The repository containts the following data (MATLAB .mat files):**

'N803_DataSet_1.mat' (Cohort 1 calibration data)
Source: Ellis-Connell AL, Balgeman AJ, Zarbock KR, Barry G, Weiler A, Egan JO, et al. "ALT-803 Transiently Reduces Simian Immunodeficiency Virus Replication in the Absence of Antiretroviral Treatment." Journal of virology. 2018;92(3).
Expand All @@ -39,7 +39,7 @@ Source: Webb GM, Li S, Mwakalundwa G, Folkvord JM, Greene JM, Reed JS, et al. "T

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In addition to the MATLAB scripts referenced above, this repository contains the following functions:
**In addition to the MATLAB scripts referenced above, this repository contains the following functions:**

'N803_model_2.m' (solves ODE model for N-803 treatment of SIV)

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'N803_single_2.m' (calls 'N803_model_2.m', but first solves for ICs and parameters to start from one fixed point)

In 'Analyzer' folder:
**In 'Analyzer' folder:**

'calibrator.m' (called by 'main.m' scripts; calibrates model parameters via multi-start local-search)

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