Modular microenvironment components reproduce vascular dynamics de novo in a multi-scale agent-based model: ESTIMATED HEMODYNAMICS

Published: 15-07-2021| Version 2 | DOI: 10.17632/pgzc9f6kn6.2
Contributor:
Jessica Yu

Description

Data and results for `ESTIMATED HEMODYNAMICS` simulations. Simulations of cancerous cells in colony and tissue contexts with estimated hemodynamics varying different hemodynamic factors (concentration gradient, local consumption, and upstream flow) with weights from 0 to 20 in increments of 1. Each condition is run for 15 days (21600 ticks) with 10 replicates (random seeds 0 - 9). Cancerous cells (max_height x 1.5, meta_pref x 1.5, migra_threshold x 0.5) are introduced to the center of the environment after a 1 day delay. Snapshots are taken every 0.5 days (720 ticks). The data folder contains .tar.xz compressed replicate sets. The results folder contains .pkl files of data parsed into arrays. Simulations are labeled as: [context]_[factor]_[weight] - [context] - C = colony context, cancerous cells only - CH = tissue context, cancerous cells and healthy cells - [factor] - weight_gradient = concentration gradient factor - weight_local = local consumption factor - weight_flow = upstream flow factor - [weight] - ### = factor weight (###/10)

Files

Steps to reproduce

Simulations generated using ARCADE v2.3 (available at https://github.com/bagherilab/ARCADE) using the following setup files: - ESTIMATED_HEMODYNAMICS_C.xml - ESTIMATED_HEMODYNAMICS_CH.xml All setup files are available at https://github.com/bagherilab/arcade_vascular_dynamics.