Yue Li

A mammalian fibroblast zoo reveals barriers to cross-species virus replication and differential regulation of antiviral immunity

The paper uses fibroblasts from 86 mammalian species to study virus-host susceptibility and innate immune responses across diverse mammals.

Measurement-Dependent Parameter Recoverability in Neural Cardiovascular LPN Inference

The paper evaluates parameter recoverability in cardiovascular LPN inference using a probabilistic neural framework, showing that accurate hemodynamic prediction does not guarantee correct parameter recovery.

Substrate recognition and ion coupling mechanism of the human VIAAT

The paper determines the structures of human VIAAT in multiple functional states and elucidates its substrate recognition and ion coupling mechanism.

SpiE is a distinct gut microbial 4-cholesten-3-one 5β-reductase that acts with SpiR to convert cholesterol to coprostanol

The paper identifies SpiE as a gut microbial enzyme that, along with SpiR, converts cholesterol to coprostanol, and shows its correlation with stool coprostanol levels and antibiotic impact.

An accumbal cholinergic ISR-HCN2 axis sustains maladaptive cue motivation

The paper identifies an ISR-HCN2 cholinergic mechanism in nucleus accumbens interneurons that sustains maladaptive cue-driven motivation and shows HCN blockade reduces cue-seeking behavior.

Structure-aware deep learning predicts influenza antigenicity and guides vaccine strain recommendation

This paper introduces Vir3D, a structure-aware deep learning model that predicts influenza antigenicity and improves vaccine strain selection by incorporating 3D structural information from amino acid sequences.

Discovery of BilV reveals a multienzymatic basis for bilirubin reduction across vertebrate gut microbiomes

The paper identifies BilV, a novel enzyme that works with BilR to reduce bilirubin to urobilinogen, and shows its distribution varies across vertebrate gut microbiomes.

Synergistic integration of inducible RNA switches enhances the manipulation of vector expression

This paper develops a synergistic RNA switch system that enhances gene expression control by integrating multiple regulatory modules, achieving improved inducibility and reduced off-target effects.

AAV-based temporal APOE4-to-APOE2 replacement reveals rebound adaptation and RAB24-mediated Aβ and cholesterol dysregulation

This study uses AAV-based gene therapy to replace APOE4 with APOE2 in mice, revealing that long-term replacement reverses AD pathology while short-term replacement worsens it, with RAB24 playing a key role.

Gut Bacteria Encode Reductases that Biotransform Steroid Hormones

Gut bacteria encode 5β-reductase, fused 3β-HSDH/Δ5-4 isomerase and Δ6-3-ketosteroid reductase enzymes acting on steroid hormones; two of these genes are enriched in female gut metagenomes.

Cross-species alignment along the chronological axis reveals evolutionary effect on structural development of human brain

The paper develops models to predict chronological age in human and macaque brains and identifies a cross-species age gap linked to behavioral performance.

Persistent Memory as an Effective Alternative to Random Access Memory in Metagenome Assembly

This study evaluates using persistent memory to reduce out-of-memory errors in metagenome assembly, showing it can handle terabyte-sized datasets with increased scalability.

RiVIERA-beta: Joint Bayesian inference of risk variants and tissue-specific epigenomic enrichments across multiple complex human diseases

RiVIERA-beta jointly infers risk variants and tissue-specific epigenomic enrichments across multiple complex diseases, improving detection of causal variants and annotations.