Bin Yang

A multidimensional benchmark of confounder-aware differential abundance strategies for single- and multi-cohort microbiome studies

This paper benchmarks confounder-aware differential abundance methods for microbiome studies, finding that covariate adjustment improves false discovery control but reduces sensitivity, with different strategies performing better under various conditions.

DNA Methylation Drives Aberrant Osteochondrogenesis in Keloid and Is Reversible by Decitabine

This study identifies DNA methylation as a driver of aberrant osteochondrogenesis in keloids and shows that decitabine can reverse this epigenetic state.

IBDkb: an AI-enhanced integrative knowledge base for inflammatory bowel disease research and drug discovery

IBDkb integrates multi-source IBD data with AI tools to enhance research and drug discovery by enabling efficient exploration of drug-target-trial associations.

Sequence variability of BamA and FadL candidate vaccinogens suggests divergent evolutionary paths of Treponema pallidum outer membrane proteins

The paper analyzes sequence variability of BamA and FadL outer membrane proteins in 186 Treponema pallidum strains to identify evolutionary patterns and vaccine targets.

PathoEye: a deep learning framework for the whole-slide image analysis of skin tissue

PathoEye is a deep learning framework for analyzing whole-slide skin images, focusing on the dermis-epidermis junction to identify features of skin diseases and aging.

Analysis of Treponema pallidum strains from China using improved methods for whole-genome sequencing from primary syphilis chancres

The paper sequences Treponema pallidum from Chinese syphilis chancres using improved whole-genome sequencing methods without rabbit passage, revealing genetic diversity in China.