Growth rates of 2023 H3 influenza viruses versus sequencing-based neutralization assay titers

For the full analysis, see https://github.com/jbloomlab/flu_H3_2023_seqneut_vs_growth

Strain titers versus growth advantage

protset='gisaid-ha1-within1'

mlrfit='2023-mincounts80'

sera='child-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultpostvax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='child-and-adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='all-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers

mlrfit='2023-mincounts80-keepother'

sera='child-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultpostvax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='child-and-adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='all-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers

mlrfit='2023-mincounts30'

sera='child-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultpostvax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='child-and-adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='all-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers

mlrfit='2023-mincounts40'

sera='child-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultpostvax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='child-and-adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='all-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers

mlrfit='2023-mincounts50'

sera='child-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultpostvax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='child-and-adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='all-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers

mlrfit='2023-mincounts60'

sera='child-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultpostvax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='child-and-adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='all-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers

protset='gisaid-ha1-exact'

mlrfit='2023-mincounts80'

sera='child-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultpostvax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='child-and-adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='all-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers

mlrfit='2023-mincounts80-keepother'

sera='child-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultpostvax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='child-and-adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='all-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers

mlrfit='2023-mincounts30'

sera='child-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultpostvax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='child-and-adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='all-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers

mlrfit='2023-mincounts40'

sera='child-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultpostvax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='child-and-adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='all-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers

mlrfit='2023-mincounts50'

sera='child-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultpostvax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='child-and-adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='all-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers

mlrfit='2023-mincounts60'

sera='child-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultpostvax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='child-and-adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='all-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers

protset='gisaid-ectodomain-within1'

mlrfit='2023-mincounts80'

sera='child-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultpostvax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='child-and-adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='all-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers

mlrfit='2023-mincounts80-keepother'

sera='child-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultpostvax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='child-and-adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='all-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers

mlrfit='2023-mincounts30'

sera='child-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultpostvax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='child-and-adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='all-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers

mlrfit='2023-mincounts40'

sera='child-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultpostvax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='child-and-adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='all-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers

mlrfit='2023-mincounts50'

sera='child-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultpostvax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='child-and-adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='all-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers

mlrfit='2023-mincounts60'

sera='child-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='adultpostvax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='child-and-adultprevax-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers
sera='all-sera'
growth vs titers
simplified growth vs titers
simplified titer cutoff
mutations vs titers

MLR fits of growth advantage

protset='gisaid-ha1-within1'

mlrfit='2023-mincounts80'
mlrfit='2023-mincounts80-keepother'
mlrfit='2023-mincounts30'
mlrfit='2023-mincounts40'
mlrfit='2023-mincounts50'
mlrfit='2023-mincounts60'

protset='gisaid-ha1-exact'

mlrfit='2023-mincounts80'
mlrfit='2023-mincounts80-keepother'
mlrfit='2023-mincounts30'
mlrfit='2023-mincounts40'
mlrfit='2023-mincounts50'
mlrfit='2023-mincounts60'

protset='gisaid-ectodomain-within1'

mlrfit='2023-mincounts80'
mlrfit='2023-mincounts80-keepother'
mlrfit='2023-mincounts30'
mlrfit='2023-mincounts40'
mlrfit='2023-mincounts50'
mlrfit='2023-mincounts60'

Comparison of MLR fits

correlation matrix
scatter plot