Isotype Switching Model

This repository contains the data and codes used in the B cell isotype switching paper.

• Python v3.10.2
• Run pip install -r requirements.txt to install the libraries necessary for the analysis. 'requirements.txt' file is located in "code" folder
• All figures are pre-generated in respective output folders e.g. FigX where X is the figure number. By default, the plots are saved in "out" folder and replace any existing files.

List of plots that correspond to the figure numbers in the paper

• Figure 4: Analysis of differential AID and GLT expression patterning during cell division facilitates a mathematical model that accurately predicts switching frequency.
• Repeat of Figure 4 analysis (not shown in the paper)
• Supplementary Figure 4: Molecular beacons targeting the Iy1 germline transcript.
• Figure 5: Isotype selection is independent of clonal lineage and conflicting CSR fate decisions are resolved by intracellular competition between GLTs.
• Supplementary Figure 5: RSS analysis of the model $\epsilon_1$ parameter.
• Supplementary Figure 7: Pre-division predictions of IgG1 and IgG2b switching under varied stimulation conditions using a mathematical model of competitive germline transcription.