Shuiquan Tang

Orion Microbiome Database: mapping constellations in the microbiome universe

The Orion Microbiome Database integrates and standardizes microbiome datasets to enable reproducible analysis and cross-study comparisons.

Use of Metagenomic Reference Materials to Compare Lysis and Extraction Methods Against a Known Input

The paper evaluates lysis and extraction methods using metagenomic reference materials to identify optimal techniques and highlights biases in compositional metrics due to poor lysis.

Highly accurate metagenome-assembled genomes from human gut microbiota using long-read assembly, binning, and consolidation methods

This study improves metagenome-assembled genomes from human gut microbiota using long-read sequencing and novel assembly methods, yielding more high-quality MAGs and uncovering uncultured diversity.

Ultra-deep, long-read nanopore sequencing of mock microbial community standards

The paper presents ultra-deep, long-read nanopore sequencing datasets from a mock microbial community to evaluate bioinformatics tools and pipelines for long-read metagenomics.

FIGARO: An efficient and objective tool for optimizing microbiome rRNA gene trimming parameters

FIGARO chooses read-trimming settings for 16S/18S rRNA gene sequencing data to maximize reads kept after quality filtering in DADA2-based pipelines, reducing trial-and-error.

Eight new genomes of organohalide-respiring Dehalococcoides mccartyi reveal evolutionary trends in reductive dehalogenases

The paper closes eight new genomes of Dehalococcoides mccartyi and analyzes their reductive dehalogenase genes, revealing evolutionary trends and gene loss as the main source of variation.