GSE142512
Description
This dataset contains processed DNA methylation resources derived from GEO Series GSE142512 through a Bioconductor ExperimentHub package named GSE142512.
The resources are stored as RangedSummarizedExperiment objects. The GPL13534/450K resource contains 485,512 CpG loci across 184 samples from 84 subjects. The GPL21145/EPIC resource contains 865,859 CpG loci across 211 samples from 90 subjects. Each object includes beta values, M values, copy number estimates, genomic ranges, sample-level phenotype metadata, and provenance metadata.
The source study is Johnson et al., "Longitudinal DNA methylation differences precede type 1 diabetes", Scientific Reports, 2020, DOI: 10.1038/s41598-020-60758-0. The original public data are available from GEO accession GSE142512.
Files
README_GSE142512.txt
Additional details
Additional titles
- Alternative title (English)
- GSE142512 DNA methylation resources for Bioconductor ExperimentHub. Files are RangedSummarizedExperiment objects for GPL13534/450K and GPL21145/EPIC arrays, containing beta, M, and CN assays with sample metadata and hg19 genomic ranges.
Software
- Repository URL
- https://github.com/paulYRP/GSE142512
- Programming language
- R
- Development Status
- Active
References
- Johnson, R. K., Vanderlinden, L. A., Dong, F., Carry, P. M., Seifert, J., Waugh, K., Shorrosh, H., Fingerlin, T., Frohnert, B. I., Yang, I. V., Kechris, K., Rewers, M., & Norris, J. M. (2020). Longitudinal DNA methylation differences precede type 1 diabetes. Scientific reports, 10(1), 3721. https://doi.org/10.1038/s41598-020-60758-0