Feng Zhang

LigRNA: High-accuracy prediction of RNA-ligand binding sites via dynamic chemical complementarity and language model encoding

LigRNA predicts RNA-ligand binding sites using a graph neural network that combines language model embeddings and physicochemical features, achieving improved performance over existing methods.

BioIMA: a one-click desktop tool for standardized extraction of phenotypic traits from biological images

BioIMA is a desktop tool that automates phenotypic trait extraction from biological images, achieving high accuracy and speed compared to manual methods.

A hybrid framework integrating structural machine learning and 3D liver-on-chip assay for drug-induced liver injury prediction

Oakuloid combines a structural machine learning model with a 3D liver-on-chip assay to predict drug-induced liver injury, achieving high AUROC on external benchmarks and offering orthogonal confirmation signals.

Multiplexed direct RNA sequencing using RB-dRNAseq with RNA barcodes

This paper introduces RB-dRNAseq, a multiplexed direct RNA sequencing method that improves demultiplexing accuracy and read recovery compared to conventional DNA barcoding methods.

Fluctuating selection breaks Hamilton's rule for the evolution of altruism

This paper shows that altruism can evolve without assortment mechanisms under fluctuating selection in limited populations, challenging Hamilton's rule.

Regulating AMPK and insulin level by Vinegar, Swimming and Refeeding on High-Fat Diet Rats to Rebuild Lipid Homeostasis

This study investigates the effects of dietary and behavioral interventions on lipid homeostasis in high-fat diet rats, finding that refeeding normal diet is most effective in restoring metabolic balance.

An R Implementation of Tumor-Stroma-Immune Transcriptome Deconvolution Pipeline using DeMixT

The paper presents an R pipeline using DeMixT for tumor-stroma-immune transcriptome deconvolution, showing immune proportion variations in COAD and PRAD datasets.

Regulatory B cells contribute to the alleviation of colitis induced by Dextran Sulphate Sodium after H.pylori infection

This study shows that Helicobacter pylori infection reduces colitis severity in DSS-treated mice by increasing anti-inflammatory Breg cells.

Genome Editing With Targeted Deaminases

This paper introduces targeted deaminases for site-specific C-to-T genomic edits without DNA cleavage, achieving 13% efficiency in E. coli and 2.5% in human cells with reduced toxicity.