SARS-CoV-2 neutralizing antibody specificities differ dramatically between recently infected infants and immune-imprinted individuals
Analysis by Dadonaite et al (2025)
See https://github.com/dms-vep/SARS-CoV-2_XBB.1.5_spike_DMS_infant_sera for full code.
Barcode to codon-variant lookup table
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)
Antibody/serum escape
Final summary plots
antibody escape mutation effect plots (click triangle to expand/collapse)
antibody escape mutation ICXX plots (click triangle to expand/collapse)
Analysis notebooks
Fits of polyclonal models to individual antibody escape selections (click triangle to expand/collapse)
Average selections for antibody escape (click triangle to expand/collapse)
Data files
Probability (fraction) escape for each variant in each antibody escape selection (CSVs) (click triangle to expand/collapse)
antibody escape CSVs (click triangle to expand/collapse)
antibody escape ICXX CSVs (click triangle to expand/collapse)
ACE2 binding
Final summary plots
ACE2 binding mutation effect plots (click triangle to expand/collapse)
ACE2 binding mutation ICXX 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)
ACE2 binding ICXX CSVs (click triangle to expand/collapse)
Integrated summary plots
summary default
WuhanHu1 imprinted and XBB infected adult sera
WuhanHu1 imprinted and XBB infected children sera
primary XBB infection infant sera
XBB infected and vaccinated infant sera
sera group avgs