Data files and R code for
Cytotoxic CD4+ T cells are markers of progression to type 1 diabetes
Authors: Naiara G. Bediaga, Alexandra L. Garnham, Gaetano Naselli1, Esther Bandala-Sanchez, Natalie L. Stone, Joanna Cobb, Jessica E. Harbison, John M. Wentworth, Annette G. Ziegler, Jennifer J Couper, Gordon K. Smyth, Leonard C. Harrison
Data filesThe following data files are needed for the differential expression analysis: The read counts are available from GEO accession GSE185191. The gene annotation is available from Genecode.
- T1D_RNAseq_SampleInfo.csv.gz (comma-separated file of sample information)
- GSE185190_T1D_RNAseq_counts.txt.gz (genewise read counts, available from GEO)
- gencode.v35.primary_assembly.annotation.gtf.gz (gene annotation, available from Gencode)
R codeThe following file contains the R commands for the CD4+ T cell differential expression analysis reported in the manuscript:
- T1D_RNAseq_Rcode.R (2 October 2021)
Comments/Questions? Contact Gordon Smyth.
Last modified: 2 October 2021