Variability in reported midpoints of (in)activation for cardiac INa

This repository contains the data and code accompanying the paper

Variability in reported midpoints of (in)activation of cardiac INa. Michael Clerx, Paul G. A. Volders, Gary R. Mirams. 2025

The data is all derived from an sqlite database (see base/midpoints.sqlite) that was created in 2016 and updated in 2024/2025 for the study

Predicting changes to INa from missense mutations in human SCN5A. Michael Clerx, Jordi Heijman, Pieter Collins, Paul G.A. Volders. Scientific Reports. https://doi.org/10.1038/s41598-018-30577-5 and https://github.com/MichaelClerx/mutations-scn5a

Requirements

The database can be opened with any SQLite compatible software. The included scripts require Python 3.6 or newer, with the libraries listed in requirements.txt.

Figures

• Figure 2 is generated by f2-all.py
• Figure 3 is generated by f3-correlation.py
• Figure 4 is generated by f4-subgroups.py
• Figure 5 is generated by f5-experimental.py
• Supplemental Figure 1 is generated by s1-regression.py

Tables

• Supplementary table 1 is generated by t1-multi-exp.py
• Supplementary table 2 is generated by t2-cell-counts.py
• Supplementary table 3 is generated by t3-all-midpoints.py

Numbers

Numbers that appear in the text can be obtained using the scripts listed below.

• d0-90th-percentile.py
  • Calculates and outputs the 5th-95th percentile range of a normal distribution.
• d1-counts.py
  • Number of studies surveyed.
  • Number of reports (1 or more per publication) of mean Va and/or Vi.
  • Number of reports of mean Va AND Vi.
  • Total cell counts
• d2-sigmas.py
  • Min, max, median of standard deviation in mean Va in Vi.
• d3-means.py
  • Min, max, median, and range of mean Va and Vi.
• d4-within-study.py
  • Range of between-experiment variability in two studies with more than 1 experiment.
• d5-temperatures
  • Minimum and maximum temperatures.
• d8-ljp
  • Number of studies with LJP correction
• f3-correlation.py
  • Best fit slope and offset.
  • Pearson correlation coefficient.
  • Fixed-slope fit offset