CiiM | Influenza project, seroprotection-based classfication

Description

This repository for analysing the serological and multi-omics data from iMED and ZirFLu (influenza-vaccinated cohorts) in R. The multi-omics data includes plasma metabolomic, plasma proteomics, bulk transcriptomics, and single-cell transcriptomics data derived from donors' blood samples.s

Instructions

• The data folder stores information and reference files
• The processedData folder stores intermediate data files which are byproducts of the data analysis and are used to produce plots.
• The scripts is the R and shell script to run the data analysis. The filenames of the script files contain sequence numbers that determine their executive order.
• The output folder store the outcome of the data analysis, including:
  • Plots for main and supplement figures generated by runing code from scripts folder.
  • The qtl folder store the outcome of the QTL analysiss
  • The pathwayAnalsysis_allSigMebos folder store the outcome of pathway analysis from the Metabo Analyst website (metaboanalyst.ca)
• The temp folder stores data, code, outcome at the development phase, which is a preliminary stage before the final analysis.
• The sendOut folder contains data, code, outcome that were generated for other colleagues' srequests.

Related publication

TBC. Publication DOI: To be added.
Link to our GitHub group repository: CiiM-Bioinformatics-group/InfluenzaVaccine_protection/

Contact:

LinkedIn: nhannguyen | ORCID: 0000-0001-8720-1195