ArticleGenome biology2020
Cell type-specific genome scans of DNA methylation divergence indicate an important role for transposable elements.
Article in Genome biology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
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Who cites it
6 citing papers in PubMed.
- Article
- Macrophage migration inhibitory factor facilitates astrocytic production of the CCL2 chemokine following spinal cord injury.Neural regeneration research · 2023Article
- Re-analysis of publicly available methylomes using signal detection yields new information.Scientific reports · 2023Article
- Evaluation of various distance computation methods for construction of haplotype-based phylogenies from large MLST datasets.Molecular phylogenetics and evolution · 2022Article
- MC profiling: a novel approach to analyze DNA methylation heterogeneity in genome-wide bisulfite sequencing data.NAR genomics and bioinformatics · 2022Article
- Cell type-specific genome scans of DNA methylation divergence indicate an important role for transposable elements.Genome biology · 2020Article
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In population genomics, genetic diversity measures play an important role in genome scans for divergent sites. In population epigenomics, comparable tools are rare although the epigenome can vary at several levels of organization. We propose a model-free, information-theoretic approach, the Jensen-Shannon divergence (JSD), as a flexible diversity index for epigenomic diversity. Here, we demonstrate how JSD uncovers the relationship between genomic features and cell type-specific methylome diversity in Arabidopsis thaliana. However, JSD is applicable to any epigenetic mark and any collection of individuals, tissues, or cells, for example to assess the heterogeneity in healthy organs and tumors.
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