This repository for analysing lncRNAs from RNA-seq data in R. In this study, we applied ImpulseDE2 for differential expression analysis in longitudinal datasets.
This data analysis workflow is for the pulication: Nguyen, Nhan et al. "Transcriptome analysis of long noncoding RNAs reveals their potential roles in anthracycline-induced cardiotoxicity." Non-coding RNA Research (2022). https://doi.org/10.1016/j.ncrna.2022.01.002
- The data folder stores data information files
- The prepared_samples folder contain bash script to process raw data (.fastq files) before running the analysis code in R
- The R_code_for_ImpulseDE2_run_in_ngs_cal_NN_2020Mar12.txt is the R script to run code for ImpulseDE2 - the older version
- The R_code_for_ImpulseDE2_in_ngs_cal_NN_2020Apr02 is the R script to run code for ImpulseDE2 - the updated version
- The R_code_forAnthracyclines_ImpulseDE2 is the R script to run the data analysis after ImpulseDE2 analysis
- The R_functions_forAnthracyclines_ImpulseDE2 stores all the functions that are used in the R scripts
- The outcome folder stores all the outcome of the data analysis.
LinkedIn: nhannguyen | ORCID: 0000-0001-8720-1195