Replication Data for: "Pharmacogenomics of opioid response in European advanced cancer patients"

This dataset contains the bioinformatic and statistical scripts developed and used to perform the genetic analyses described in my PhD thesis entitled “Pharmacogenomics of opioid response in European advanced cancer patients”, with the aim of ensuring transparency and reproducibility of this analytical workflow.

The scripts were applied to investigate inter-individual genetic variability in European advanced cancer patients to opioid treatment response, both in terms of efficacy, measured as Pain Intensity (PI) and treatment-related side effects, particularly nausea and vomiting, measured through a numerical Nausea-Vomiting Score (NVS).

Particularly, the scripts were used to perform genotype quality control, genome-wide association studies (GWAS), multivariable linear regression models, heritability estimation using LD Score Regression (LDSC), stratified LD Score Regression (sLDSC), colocalization analyses with eQTL data, and bidirectional Mendelian Randomization analyses.

The files provided are organized according to the analytical workflow described in the thesis and they are mainly written in Bash, R and Python language.
The file naming conventions reflect the order of the analysis and the phenotype investigated, to facilitate understanding by other researchers.

In compliance with the General Data Protection Regulation (GDPR), only analysis scripts are provided; no individual-level genetic or phenotypic data are included in this dataset.