pgen.1011957.t002: CpG Mutation Rate Estimates Across Sequence Contexts

Sheel Chandra's dataset quantifies CpG mutation rates and the mutagenic effect of methylation across different sequence contexts. The analysis uses human polymorphism data from the gnomAD dataset to estimate rates for unmethylated and methylated CpGs in unique 4-mer or 6-mer contexts. The dataset was last updated on June 1, 2026.

Use Cases

• Modeling context-dependent mutation rates based on CpG methylation status and flanking sequences.
• Comparing CpG mutability patterns between human, chimpanzee, and rhesus macaque lineages.
• Investigating the influence of upstream adenine on CpG mutation rates as described in the analysis.

Strengths

• Estimates are derived from the large-scale gnomAD human polymorphism dataset.
• Analysis separates mutation rates for unmethylated and methylated CpGs in specific 4-mer and 6-mer contexts.
• Includes cross-species comparison with chimpanzee and rhesus macaque data.

Limitations

• Dataset size is 13.5 KB, indicating a very limited scope of aggregated results.
• Row count and specific column-level documentation are unknown, requiring manual inspection after download.

Provenance

Source

Sheel Chandra via figshare

Collection Method

Regression analysis of human polymorphisms from gnomAD, accounting for recurrent mutations.

Freshness

Last updated 2026-06-01 17:48:06