The many microbial communities around us form interactive and dynamic ecosystems called
microbiomes. Though concealed from the naked eye, microbiomes govern and influence …

Short-read, high-throughput sequencing (HTS) methods have yielded numerous important
insights into microbial ecology and function. Yet, in many instances short-read HTS …

It is challenging to associate features such as human health outcomes, diet, environmental
conditions, or other metadata to microbial community measurements, due in part to their …

In 2020, we identified cancer-specific microbial signals in The Cancer Genome Atlas
(TCGA). Multiple peer-reviewed papers independently verified or extended our findings …

Bacteriophages, which are viruses infecting bacteria, are the most ubiquitous and diverse
entities in the biosphere. There is accumulating evidence revealing their important roles in …

Motivation Although the set of currently known viruses has been steadily expanding, only a
tiny fraction of the Earth's virome has been sequenced so far. Shotgun metagenomic …

Microbiome data, metadata and analytical workflows have become 'big'in terms of volume
and complexity. Although the infrastructure and technologies to share data have been …

Evaluating metagenomic software is key for optimizing metagenome interpretation and focus
of the Initiative for the Critical Assessment of Metagenome Interpretation (CAMI). The CAMI II …

Culture-independent analyses of microbial communities have progressed dramatically in the
last decade, particularly due to advances in methods for biological profiling via shotgun …

Due to technical limitations, most gut microbiome studies have focused on prokaryotes,
overlooking viruses. Phanta, a virome-inclusive gut microbiome profiling tool, overcomes the …