The number of microbiome-related studies has notably increased the availability of data on
human microbiome composition and function. These studies provide the essential material …

Studying within-species variation has traditionally been limited to culturable bacterial
isolates and low-resolution microbial community fingerprinting. Metagenomic sequencing …

Aside from PD-L1 expression, biomarkers of response to immune checkpoint inhibitors (ICIs)
in non-small-cell lung cancer (NSCLC) are needed. In a previous retrospective analysis, we …

The human microbiome is an integral component of the human body and a co-determinant
of several health conditions,. However, the extent to which interpersonal relations shape the …

The human gut microbiome encodes a large variety of antimicrobial peptides (AMPs), but
the short lengths of AMPs pose a challenge for computational prediction. Here we combined …

Despite recent advances in metagenomic binning, reconstruction of microbial species from
metagenomics data remains challenging. Here we develop variational autoencoders for …

During the transition from a healthy state to cardiometabolic disease, patients become
heavily medicated, which leads to an increasingly aberrant gut microbiome and serum …

Microbiome community typing analyses have recently identified the Bacteroides 2 (Bact2)
enterotype, an intestinal microbiota configuration that is associated with systemic …

The link between the gut microbiota and type 2 diabetes (T2D) warrants further investigation
because of known confounding effects from antidiabetic treatment. Here, we profiled the gut …

The gut microbiome is shaped by diet and influences host metabolism; however, these links
are complex and can be unique to each individual. We performed deep metagenomic …