Xiaowen Feng

The paper develops a framework to adapt epigenetic clocks to HTS-based cfDNA data, improving age prediction and clinical relevance through technical noise mitigation and transfer learning.

This study improves metagenome-assembled genomes from human gut microbiota using long-read sequencing and novel assembly methods, yielding more high-quality MAGs and uncovering uncultured diversity.

ntsm detects sample swaps in heterogeneous sequencing data without alignment, using k-mer variants and coverage information to improve QC efficiency.

The paper evaluates error correction in HiFi sequencing using hifieval, finding issues in homopolymer and repetitive regions across CHM13 and HG002 datasets.

The paper introduces Minigraph-Cactus, a pangenome pipeline that constructs pangenome graphs directly from whole-genome alignments, demonstrating improved performance in mapping and variant calling across human and Drosophila data.

The paper presents a draft human pangenome reference that improves variant discovery and structural variant detection compared to existing references.

The paper shows recombination between heterologous human acrocentric chromosomes using pangenome data, revealing pseudo-homologous regions linked to Robertsonian translocations.

The paper identifies more processed pseudogenes in humans and three great apes using long-read assemblies, showing higher discovery rates than previous short-read methods.