Y. Gao

The Genome In A Bottle HG002 assembly-based variant benchmark set enables comprehensive benchmarking of small and structural variants.

The paper introduces a comprehensive variant benchmark set derived from a high-quality diploid assembly, improving small and structural variant detection across complex genomic regions.

Viral haplotype reconstruction from long reads with virCHap

virCHap reconstructs viral haplotypes from long-read sequencing data, outperforming existing methods in recall, abundance estimation, and read clustering.

Epidermal ZBP1 stabilizes mitochondrial Z-DNA to drive UV-induced IFN signaling in autoimmune photosensitivity

The paper identifies ZBP1 and mitochondrial Z-DNA as drivers of autoimmune photosensitivity through cGAS-STING activation in response to UVB.

MtrAB two-component system is crucial for the intrinsic resistance and virulence of Mycobacterium abscessus

This study shows that disrupting MtrA or MtrB in Mycobacterium abscessus increases antibiotic susceptibility and reduces virulence by affecting cell division and permeability.

Virological characteristics of SARS-CoV-2 Omicron BA.5.2.48

This study evaluates the virological characteristics of BA.5.2.48 subvariant isolates, finding enhanced transmission and pathogenicity compared to BA.2, with divergent features among subvariants.

Matrimeres are systemic nanoscale mediators of tissue integrity and function

The paper identifies matrimeres as nanoscale mediators of tissue integrity, showing they can restore vascular integrity after injury and are reconstituted from fibronectin, DNA, and acidic conditions.

T cell cholesterol transport is a metabolic checkpoint that links intestinal immune responses to dietary lipid absorption

This study identifies Aster-A as a cholesterol transporter in T cells that regulates immune signaling and metabolic responses by controlling membrane cholesterol levels.

Changes of urine proteome after intragastric administration of polysaccharide iron complex in rats

This study compares urine proteomes of rats before and after polysaccharide-iron complex administration, identifying iron-related proteins and pathways.

Changes of urinary proteome in rats after intragastric administration of zinc gluconate

This study compares the urinary proteome of rats before and after zinc gluconate administration, identifying zinc-related differential proteins and their biological functions.

Changes of urinary proteome in rats after intragastric administration of calcium gluconate

The paper examines changes in the urinary proteome of rats after calcium gluconate administration, identifying calcium-related proteins and their pathway associations.

A binary trait model reveals the fitness effects of HIV-1 escape from T cell responses

The paper develops a binary trait model to separate the fitness effects of HIV-1 immune escape from replication, finding that T cell escape contributes significantly to early fitness gains.

A Lung Cancer Mouse Model Database

The paper establishes a database of lung cancer mouse models to improve data comparison and translational relevance by aligning mouse mutations with human lung cancer mutations.

Fes-deficient macrophages enhance CD8+ T cell priming and tumour control through increased proinflammatory cytokine production and localization

Establishment of an Inhalation Administration Noninvasive Murine Model for Rapidly Testing Drug Activity against Mycobacterium tuberculosis

This paper develops a non-invasive murine inhalation model using autoluminescent M. tuberculosis to rapidly assess drug efficacy against tuberculosis.

EmbB and EmbC Regulate the Sensitivity of Mycobacterium abscessus to Echinomycin

This study identifies EmbB and EmbC as regulators of Mycobacterium abscessus sensitivity to echinomycin, showing that EmbB mutations can partially compensate for EmbC loss and alter cell wall permeability.

Mutations in ClpC1 or ClpX subunit of the caseinolytic protease confer resistance to natural product ilamycins in mycobacteria

This study identifies two ilamycin analogs targeting mycobacterial Clp protease components and discovers mutations conferring resistance to these compounds.

Characterization of the SARS-CoV-2 BA.5 Variants in H11-K18-hACE2 Hamsters

This study characterizes SARS-CoV-2 BA.5 variants in H11-K18 hACE2 golden hamsters, showing disease progression and severity similar to human infections, supporting the model's utility for research.

Regulatory divergences in dosage compensation cause hybrid male inviability in Caenorhabditis

PerturBase: a comprehensive database for single-cell perturbation data analysis and visualization

PerturBase is a database that compiles and visualizes single-cell perturbation data from multiple studies, enabling analysis of genetic and chemical perturbations across millions of cells.

3D Bioprinting of Human Neural Tissues with Functional Connectivity

This study develops a 3D bioprinting platform to create human neural tissues with functional connectivity, showing differentiation into neurons and astrocytes and forming functional circuits.

Urinary protein changes during the short-term growth and development of rats

This study shows that the urine proteome can detect short-term growth and development changes in rats, with 195 differentially expressed proteins identified between Day 0 and Day 6.

Comparison of urine proteome between obese people and normal weight people

The paper compares urine proteomes between obese and normal weight individuals to identify differential proteins associated with obesity and metabolism.

Phosphorylated transcription factor PuHB40 is involved in ROS-dependent anthocyanin biosynthesis in pear exposed to high-light stress

This study identifies PuHB40 as a phosphorylation-regulated transcription factor that mediates ROS-dependent anthocyanin biosynthesis in pear under high-light stress.

A novel nested gene Aff3ir participates in vascular remodelling by enhancing endothelial cell differentiation in mice

This study identifies Aff3ir as a novel gene involved in endothelial cell differentiation by enhancing vascular stem/progenitor cell differentiation in mice.

A Day in the Life of Arabidopsis: 24-Hour Time-lapse Single-nucleus Transcriptomics Reveal Cell-type specific Circadian Rhythms

This study uses snRNA-seq to analyze circadian rhythms in Arabidopsis over 24 hours, revealing cell-type specific gene expression patterns and identifying key circadian regulators.

Exploring natural genetic variation in photosynthesis-related traits of barley in the field

The paper evaluates photosynthesis-related traits in barley under field conditions, finding heritable variations and correlations with yield traits.

Biosurfactant stabilized nanoemulsions as multifunctional magnetically targeted delivery vehicles

This paper develops biosurfactant-stabilized magnetic nanoemulsions for targeted drug delivery, showing enhanced cell uptake in cancer and macrophage cells under magnetic fields.

Comparison of urinary proteome in the first two days after mating in male rats

The paper compares the urinary proteome of male rats on the day of mating and the next day to identify proteins related to spermatogenesis.

Guanylate cyclase activity of TIR1/AFB auxin receptors mediates rapid auxin responses

The paper shows TIR1/AFB auxin receptors have both adenylate and guanylate cyclase activities, mediating transcriptional reprogramming and rapid Ca2+-dependent growth responses.

Guidelines for performing ribosome profiling in plants including structural analysis of rRNA fragments

This paper provides guidelines for performing ribosome profiling in plants, including methods to remove rRNA contaminants and structural insights into rRNA fragments.