Repetitive DNA sequences are abundant in a broad range of species, from bacteria to
mammals, and they cover nearly half of the human genome. Repeats have always presented …

Deep Learning (DL) has recently enabled unprecedented advances in one of the grand
challenges in computational biology: the half-century-old problem of protein structure prediction. …

DNA repeats are causes and consequences of genome plasticity. Repeats are created by
intrachromosomal recombination or horizontal transfer. They are targeted by recombination …

Mash extends the MinHash dimensionality-reduction technique to include a pairwise
mutation distance and P value significance test, enabling the efficient clustering and search of …

Whole-genome sequences are now available for many microbial species and clades,
however existing whole-genome alignment methods are limited in their ability to perform …

New sequencing technology has dramatically altered the landscape of whole-genome
sequencing, allowing scientists to initiate numerous projects to decode the genomes of previously …

Gene duplication followed by neo- or sub-functionalization deeply impacts the evolution of
protein families and is regarded as the main source of adaptive functional novelty in …

The oral microbiome, the complex ecosystem of microbes inhabiting the human mouth, harbors
several thousands of bacterial types. The proliferation of pathogenic bacteria within the …

A Modular Open‐Source Assembler (AMOS) was designed to offer a modular approach to
genome assembly. AMOS includes a wide range of tools for assembly, including the …

We describe MetAMOS, an open source and modular metagenomic assembly and analysis
pipeline. MetAMOS represents an important step towards fully automated metagenomic …