Microbes are dominant drivers of biogeochemical processes, yet drawing a global picture of
functional diversity, microbial community structure, and their ecological determinants …

Orthology assignment is ideally suited for functional inference. However, because predicting
orthology is computationally intensive at large scale, and most pipelines are relatively …

Technical variation in metagenomic analysis must be minimized to confidently assess the
contributions of microbiota to human health. Here we tested 21 representative DNA extraction …

The biological carbon pump is the process by which CO 2 is transformed to organic carbon
via photosynthesis, exported through sinking particles, and finally sequestered in the deep …

Soils harbour some of the most diverse microbiomes on Earth and are essential for both
nutrient cycling and carbon storage. To understand soil functioning, it is necessary to model the …

Image segmentation is an essential step in many image analysis pipelines and many
algorithms have been proposed to solve this problem. However, they are often evaluated …

Association studies have linked microbiome alterations with many human diseases.
However, they have not always reported consistent results, thereby necessitating cross-study …

To minimize the impact of antibiotics, gut microorganisms harbour and exchange antibiotics
resistance genes, collectively called their resistome. Using shotgun sequencing-based …

Microbiome community typing analyses have recently identified the Bacteroides2 (Bact2)
enterotype, an intestinal microbiota configuration that is associated with systemic inflammation …

To quantify known and unknown microorganisms at species-level resolution using shotgun
sequencing data, we developed a method that establishes metagenomic operational …