Ziyi Wang

Single-Cell Indel Detection Enhances Genetic Ancestry and Cellular Lineage Analysis

Monopogen-Indel calls germline indels from single-cell and single-nucleus RNA data at 73.0% (retina) and ~87% (ovarian cancer) WGS-validated precision, though no single-cell somatic indel matched a WGS somatic indel.

Patterns and environmental drivers of amphibian alpha and beta diversity in the Huangshan Mountains, southern Anhui, China

The paper assesses amphibian diversity patterns and environmental drivers in the Huangshan Mountains, finding precipitation and vegetation strongly influence diversity, while human impact reduces species richness.

Lineage Tracing Reveals a Shared Cellular Origin for Supraclavicular Brown and Inguinal Beige Adipocytes

This study identifies a shared cellular origin for supraclavicular brown adipocytes and beige adipocytes in inguinal white adipose tissue through lineage tracing.

Somatic variant detection in normal tissues from single-cell sequencing data

This study evaluates somatic variant calling in normal tissues using single-cell RNA and ATAC sequencing, showing Monopogen outperforms other tools in accuracy and sensitivity.

A long-read human pangenome initiative for comprehensive interpretation of nuclear-embedded mitochondrial DNA

The paper develops a method to detect and analyze NUMTs in human and non-human primate genomes, revealing their genomic features, population dynamics, and evolutionary implications.

The Effect of Vaccination on the Evolution of the SARS-CoV-2 B.1.351 Variant

This study finds a positive correlation between vaccination rates and increased nucleotide diversity in the SARS-CoV-2 B.1.351 variant, suggesting vaccination acts as a selective pressure driving viral evolution.

Atom-level generative foundation model for molecular interaction with pockets

This paper introduces PocketXMol, a generative foundation model for molecular interactions with protein pockets, achieving state-of-the-art performance in 11 tasks and demonstrating success in designing inhibitors and peptides.

PRDX6 Modulates Immune Checkpoint Inhibitor Response by Antagonizing Ferroptosis Induced By HDAC Inhibitors

This study identifies PRDX6 as a modulator of resistance to HDAC inhibitors and immune checkpoint therapies by suppressing ferroptosis and enhancing T-cell infiltration.

Histone 3 lysine 36 trimethylation by SETD2 shapes an epigenetic landscape in intestinal stem cells to orchestrate lipid metabolism and prevent cell senescence.

This study shows that H3K36me3, catalyzed by SETD2, maintains ISC stemness by regulating lipid metabolism and preventing senescence through chromatin remodeling and metabolic intervention.

Sequence specificity of an essential nuclear localization sequence in Mcm3

This study identifies the sequence specificity of Mcm3's NLS using mutagenesis and AlphaFold 3, showing that precise basic residue positioning is critical for nuclear import and chromatin loading.

Neuronal Detection Triggers Systemic Digestive Shutdown in Response to Adverse Food Sources

This study shows that neurons detect harmful food sources and trigger systemic digestive shutdown to avoid harm.