As the advent of next-generation sequencing (NGS) technology, various de novo assembly
algorithms based on the de Bruijn graph have been developed to construct chromosome …

Human cancer cell lines are an integral part of drug discovery practices. However, modeling
the complexity of cancer utilizing these cell lines on standard plastic substrata, does not …

Sequence assembly of large and repeat-rich plant genomes has been challenging,
requiring substantial computational resources and often several complementary sequence …

The centromere represents a single region in most eukaryotic chromosomes. However,
several plant and animal lineages assemble holocentromeres along the entire chromosome …

An ordered draft sequence of the 17-gigabase hexaploid bread wheat (Triticum aestivum)
genome has been produced by sequencing isolated chromosome arms. We have annotated …

Advances in deciphering the functional architecture of eukaryotic genomes have been
facilitated by recent breakthroughs in sequencing technologies, enabling a more …

Motivation: Counting the number of occurrences of every k-mer (substring of length k) in a
long string is a central subproblem in many applications, including genome assembly, error …

The Velvet de novo assembler was designed to build contigs and eventually scaffolds from
short‐read sequencing data. This protocol describes how to use Velvet, interpret its output …

Chromosome-scale genome sequence assemblies underpin pan-genomic studies. Recent
genome assembly efforts in the large-genome Triticeae crops wheat and barley have relied …

Genome annotations are often published as plain text files describing genomic features and
their subcomponents by an implicit annotation graph. In this paper, we present the …