Low-cost whole-genome assembly has enabled the collection of haplotype-resolved
pangenomes for numerous organisms. In turn, this technological change is encouraging the …

Many disciplines, from human genetics and oncology to plant breeding, microbiology and
virology, commonly face the challenge of analyzing rapidly increasing numbers of genomes …

The human reference genome represents only a small number of individuals, which limits its
usefulness for genotyping. We present a method named HISAT2 (hierarchical indexing for …

Methods to deconvolve single-cell RNA-sequencing (scRNA-seq) data are necessary for
samples containing a mixture of genotypes, whether they are natural or experimentally …

Background Histone lactylation has been recently described as a novel histone post-
translational modification linking cellular metabolism to epigenetic regulation. Results Given …

Genome graphs can represent genetic variation and sequence uncertainty. Aligning
sequences to genome graphs is key to many applications, including error correction …

A fundamental requirement for genetic studies is an accurate determination of sequence
variation. While human genome sequence diversity is increasingly well characterized, there …

Yak has been subject to natural selection, human domestication and interspecific
introgression during its evolution. However, genetic variants favored by each of these …

Aligning sequencing reads onto a reference is an essential step of the majority of genomic
analysis pipelines. Computational algorithms for read alignment have evolved in …

Abstract Dectin-1 (gene Clec7a), a receptor for β-glucans, plays important roles in the host
defense against fungi and immune homeostasis of the intestine. Although this molecule is …