Survival analysis of DNA mutation motifs with penalized proportional hazards.

ABSTRACT: Antibodies, an essential part of our immune system, develop through an intricate process to bind a wide array of pathogens. This process involves randomly mutating DNA sequences encoding these antibodies to find variants with improved binding, though mutations are not distributed uniformly across sequence sites. Immunologists observe this nonuniformity to be consistent with "mutation motifs", which are short DNA subsequences that affect how likely a given site is to experience a mutation. Quantifying the effect of motifs on mutation rates is challenging: a large number of possible motifs makes this statistical problem high dimensional, while the unobserved history of the mutation process leads to a nontrivial missing data problem. We introduce an ℓ ₁-penalized proportiona

SUBMITTER: Feng J 

PROVIDER: S-EPMC7673484 | biostudies-literature | 2019 Jun

REPOSITORIES: biostudies-literature