BDL analysis
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README.md

BDL - Regression Analysis

This repository contains all data, information and the complete statistical analysis for the publication and can be cited via (doi:10.5281/zenodo.32577).

Pathobiochemical signatures of cholestatic liver disease in bile duct ligated mice
Kerstin Abshagen¶, Matthias König¶, Andreas Hoppe, Isabell Müller, Matthias Ebert, Honglei Weng, Herrmann-Georg Holzhütter, Ulrich M. Zanger, Johannes Bode, Brigitte Vollmar, Maria Thomas, Steven Dooley
(¶ These authors contributed equally to this work)

The results of the analysis are available from http://matthiaskoenig.github.io/bdl-analysis.

Pathobiochemical signatures of cholestatic liver disease in bile duct ligated (BDL) mice were analysed in a comprehensive data set of serum markers, (immuno-)histological parameters and transcript profiles at 8 time points after BDL in mice, comprising different stages of the disease (> 6000 data points).

The main steps of the analysis comprise

  • Explorative data anaysis
  • Dimension reduction via ANOVA
  • Correlation analysis
  • Hierarchical clustering
  • Decision trees

author: Matthias Koenig
version: 0.3.1

Run analysis

The analysis was performed in R and is available via the package BDLanalysis and the package vignette Koenig_BDL_analysis.Rmd. For running the analysis checkout the git repository and open the BDLanalysis.Rproj with RStudio. You can than build the BDLanalysis package and recreate the package vignette Koenig_BDL_analysis.Rmd with knitr.