How single mutations affect viral escape from broad and narrow antibodies to H1 influenza hemagglutinin

Overview

This repository contains the analysis code, data, and paper for this study. The final published manuscript is at Nature Communications, 9:1386 (2018).

The study and paper are by Mike Doud, Juhye Lee, and Jesse Bloom in Bloom lab.

Briefly, the study maps how all mutations an H1 hemagglutinin (from A/WSN/1933 strain) affect neutralization by a variety of narrow (strain-specific) and broadly neutralizing antibodies.

Organization

This repository is organized into a series of subdirectories as follows:

• ./analysis_code/ contains a Jupyter notebook that performs all of the analyses of the deep sequencing data for the mutational antigenic profiling.

• ./paper/ contains the paper.

• ./neutralization_assays/ contains experimental data from neutralization assays and its analysis.

• ./lab_notes/ contains lab notes and data from some of the experiments.