Analysis by Dadonaite et al, bioRxiv, DOI 10.1101/2023.11.13.566961 (2023)
See https://github.com/dms-vep/SARS-CoV-2_Omicron_BA.2_spike_ACE2_affinity for full code.
Barcode to codon-variant lookup table
Analysis notebooks
Data files
Count barcodes for variants
Analysis notebooks
Data files
Barcode count CSVs (click triangle to expand/collapse)
Functional effects of mutations
Final summary plots
Interactive plots of average mutation functional effects (click triangle to expand/collapse)
Interactive plots of average mutation latent-phenotype effects (click triangle to expand/collapse)
Analysis notebooks
- Analysis of functional scores
Notebooks with per-selection global epistasis fitting (click triangle to expand/collapse)
Notebooks averaging mutation functional effects (click triangle to expand/collapse)
Data files
Per-variant functional score CSVs (click triangle to expand/collapse)
Per-selection mutation functional effect CSVs (click triangle to expand/collapse)
Average mutation functional effects (CSV files) (click triangle to expand/collapse)
Average mutation latent-phenotype effects (CSV files) (click triangle to expand/collapse)
ACE2 binding
Final summary plots
ACE2 binding mutation effect plots (click triangle to expand/collapse)
Analysis notebooks
Fits of polyclonal models to individual ACE2 binding selections (click triangle to expand/collapse)
Average selections for ACE2 binding (click triangle to expand/collapse)
Data files
Probability (fraction) escape for each variant in each ACE2 binding selection (CSVs) (click triangle to expand/collapse)
ACE2 binding CSVs (click triangle to expand/collapse)
Summary of results across assays
Final summary plots
Data files
Additional data files
Spike site numbering