Shi Wei Huang

Rapid and Quantitative Phage Susceptibility Test by Ramanome

This paper introduces RPST, a ramanome-based platform for rapid and quantitative phage susceptibility testing, achieving 96% concordance with plaque assays and enabling dynamic assessment of infection dynamics.

Deep learning and host variable embedding augment microbiome-based simultaneous detection of multiple diseases

This paper introduces a deep learning method that detects multiple diseases simultaneously using microbiome data and host variables, outperforming traditional ML approaches and capturing key disease-related factors.

Eliminate false positives in metagenomic profiling based on type IIB restriction sites

The paper introduces MAP2B, a metagenomic profiler that reduces false positives and improves abundance estimation using type IIB restriction sites, outperforming existing methods on benchmark datasets.

Challenges in Benchmarking Metagenomic Profilers

This paper highlights challenges in benchmarking metagenomic profilers due to confusion between sequence abundance and taxonomic abundance.

OGUs enable effective, phylogeny-aware analysis of even shallow metagenome community structures

This paper introduces OGUs, a metagenome analysis method that uses sequence alignment hits to reference genomes for community analysis, showing better performance in predicting biological traits than taxonomic or 16S rRNA methods.