Innovations in sequencing technologies have allowed biologists to make incredible
advances in understanding biological systems. As experience grows, researchers …

Functional annotation of metagenomic and metatranscriptomic data sets relies on similarity
searches based on e-value thresholds resulting in an unknown number of false positive and …

The increasing number of metagenomic and genomic sequences has dramatically improved
our understanding of microbial diversity, yet our ability to infer metabolic capabilities in such …

Analyses of metagenome data (MG) and metatranscriptome data (MT) are often challenged
by a paucity of complete reference genome sequences and the uneven/low sequencing …

The chimpanzee is arguably the most important species for the study of human origins. A
key resource for these studies is a high-quality reference genome assembly; however, as …

Background A crucial task in metagenomic analysis is to annotate the function and
taxonomy of the sequencing reads generated from a microbiome sample. In general, the …

Metagenomics is the study of all genomic content contained in given microbial communities.
Metagenomic functional analysis aims to quantify protein families and reconstruct metabolic …

Background Metagenomics is a cultivation-independent approach that enables the study of
the genomic composition of microbes present in an environment. Metagenomic samples are …

In contrast to genome assemblers that use de Bruijn graphs, those based on string graphs
are able to losslessly retain information from sequence data. However, despite the …

Noncoding RNA plays important regulatory and functional roles in microorganisms, such as
gene expression regulation, signaling, protein synthesis, and RNA processing. Given its …