Sunjae Lee

This study shows T-cell immunological synaptosomes (TIS) reprogram APCs and induce durable anti-tumor immunity in a mouse model.

Metacontam is a decontamination method for metagenomic data that improves detection of low-abundance contaminants without needing negative controls.

The paper identifies oral-gut microbial translocation in ACLD patients linked to intestinal barrier dysfunction and hepatic fibrosis, with prtC encoding bacteria as a biomarker.

The paper identifies two types of antimicrobial resistant bacteria in the gut microbiome after antibiotic treatment and shows how one type persists and reshapes the microbial community.

The paper develops and evaluates optimized computational and experimental methods for analyzing the human mycobiome, identifying novel fungal species in oral and gut samples.

This paper introduces a normalization method for scRNA-seq data using partial least squares with adaptive fuzzy weights, showing improved performance on real and simulated datasets.

This study identifies distinct metabolite profiles in Parkinson's disease subtypes based on REM sleep behavior disorder status using untargeted plasma metabolomics.

This paper improves RNA-seq normalization by adapting the TMM method using Jaeckels Estimator, showing better performance in differential expression analysis.

This study uses metabolic modeling of gut microbiome data from type 2 diabetes patients to show how metformin treatment alters microbial growth rates and metabolic pathways.

The paper identifies metabolic differences between Candida species using genomic, metabolomic, and gene expression data, highlighting unique pathways in the AGAu cluster.

The paper introduces the reactobiome, a stratification method for the human gut microbiome, identifying five reactotypes with distinct metabolic features and validating them in a longitudinal cohort.

This study compares mucosal microbiota composition and function along the intestine using shotgun metagenomics, highlighting functional enrichments and antimicrobial resistance patterns.

Memote, open-source Python software, runs a community-maintained, partly scored test suite (consistency, biomass, annotations, optional experimental data) on SBML-encoded genome-scale metabolic models, once or through continuous integration.

RMetD2 integrates differentially expressed genes into genome-scale metabolic models to reveal metabolic differences between conditions, outperforming existing methods in capturing experimentally observed features.