This file contains Violin plots for mitochondrial gene transcripts (%mtDNA), cardiac marker (Tnnt2), and pace-maker marker (Hcn4) for identified cell clusters in iSABS and sinoatrial node region (results obtained from a data reanalysis of Goodyer et al.).
This file contains several Scatter plots illustrating the correlation of %mtDNA and (a) Tnnt2 (b) Hcn4 (c) total number of gene transcripts per cell In Tnnt2 positive cells and (d) total number of gene transcripts per cell In Hcn4 positive cells.
This file contains a UMAP plot generated for the Goodyer dataset illustrating the various cell populations and their proportions as well as the original t-SNE plot of the respective data published by Goodyer et al. in 2019 (doi: 10.1161/CIRCRESAHA.118.314578).
This file contains the dependencies required for running SloppyCell and Tellurium together using Jupyter notebooks. It can be used to create a Docker image by executing the command
docker build user/image:version .
The image used for the project can be pulled from Docker hub by typing
docker pull uurquiza/urquiza2019atelluriumsloppycell:latest
This document outlines next steps in biocuration of COVID-19 Disease Map diagrams.
The document is based on the preprint "COVID-19 Disease Map, a computational knowledge repository of SARS-CoV-2 virus-host interaction mechanisms" (doi:10.1101/2020.10.26.356014).