The characterization of oral microbial communities and their functional potential has been
shaped by metagenomics and metatranscriptomics studies. Here, a meta-analysis of four …

Centrifuger is an efficient taxonomic classification method that compares sequencing reads
against a microbial genome database. In Centrifuger, the Burrows-Wheeler transformed …

The steadily increasing presence of both natural and anthropogenic pollutants in our
environment poses a considerable challenge, given the recalcitrance of many of these …

The colored compacted de Bruijn graph (c-dBG) has become a fundamental tool used
across several areas of genomics and pangenomics. For example, it has been widely …

We describe lossless compressed data structures for the colored de Bruijn graph (or c-dBG).
Given a collection of reference sequences, a c-dBG can be essentially regarded as a map …

Purpose Patients with non-infectious complications have worse clinical outcomes in
common variable immunodeficiency (CVID) than those with infections-only. Non-infectious …

Background Taxonomic classification of reads obtained by metagenomic sequencing is
often a first step for understanding a microbial community, but correctly assigning …

This note introduces the meta-colored compacted de Bruijn graph (Mac-dBG)–a colored de
Bruijn graph data structure where colors are represented holistically, ie, taking into account …

Background The presence of microbiomes within healthy human internal organs still
remains under question. Our study endeavors to discern distinctive microbial signatures …

Metagenomics and metatranscriptomics studies have reshaped our understanding of oral
microbial communities and their functional potential. Nevertheless, these studies have not …