Yassen Assenov

The paper benchmarks DNA methylation sequencing workflows against an experimental gold-standard, identifying superior workflows and developing a sustainable benchmarking platform.

AmpliconDesign provides a web server for designing high-throughput targeted DNA methylation assays, improving primer design and analysis workflows for epigenetic studies.

This study identifies germline genetic variants influencing somatic mutation patterns in 2,642 cancer genomes across 39 cancer types.

This study characterizes mitochondrial genomes in 2,700 cancer patients across 37 types using whole-genome sequencing and RNA-seq, revealing mutational patterns, truncating mutations, and nuclear transfer of mitochondrial DNA.

This paper reviews techniques and software for analyzing bisulfite sequencing data, focusing on quality checks, differential methylation, segmentation, and annotation methods.