K. Cheng

Desert ant (Melophorus bagoti) dumpers learn from experience to improve waste disposal and show spatial fidelity

This study shows that experienced Melophorus bagoti ants dump waste more efficiently and with spatial fidelity compared to naive ants, suggesting learning improves waste disposal and navigation.

Assessing fecal metaproteomics workflow and small protein recovery using DDA and DIA PASEF mass spectrometry

This study evaluates how different experimental workflows affect fecal metaproteomic results, showing that DIA-PASEF improves protein identification and small protein recovery compared to DDA.

Chromosome 7 to the rescue: overcoming chromosome 10 loss in gliomas

The paper investigates the co-occurrence of chromosome 10 loss and chromosome 7 gain in gliomas, finding functional rescue interactions on chromosome 7 that may compensate for chromosome 10 loss.

Moonlight Polarisation Pattern Guides Nocturnal Bull Ants Home

This study shows nocturnal bull ants use polarized moonlight for navigation during the night, similar to how they use solar polarized light during the day.

Temporal genomic analysis of melanoma rejection identifies regulators of tumor immune evasion

The paper identifies Mif as a regulator of tumor immune evasion in low intra-tumor heterogeneity melanoma by analyzing single-cell RNA sequencing data and validating in patient data.

AMP-activated protein kinase is necessary for Treg cell functional adaptation to microenvironmental stress

This study shows AMPK is necessary for Treg cell adaptation to metabolic stress in tumors and lung injury but not for baseline immune homeostasis.

Cell context-specific Synthetic lethality Prediction and Mechanism Analysis

This paper introduces SLWise, a deep-learning model for predicting synthetic lethal interactions in specific cellular contexts, and SLAD-CE for analyzing their mechanisms, showing improved accuracy over existing methods.

Rationally designed multimeric nanovaccines using icosahedral DNA origami for molecularly controlled display of SARS-CoV-2 receptor binding domain

This study designs multimeric nanovaccines using icosahedral DNA origami to display SARS-CoV-2 RBD, showing enhanced B cell activation and immune responses in mice.

Promotion of tumor angiogenesis and growth induced by low-dose antineoplastic agents via bone-marrow-derived cells

This study investigates low-dose antineoplastic agents' effects on tumor growth and angiogenesis via bone-marrow-derived cells in mouse models.

Universal DNA methylation age across mammalian tissues

The paper develops universal epigenetic clocks that accurately estimate age across mammalian tissues using DNA methylation data from 185 species.

Optimizing Cell Therapy by Sorting Cells with High Extracellular Vesicle Secretion

The paper develops a method to enrich cells with high extracellular vesicle secretion and shows improved therapeutic outcomes in a mouse model.

Mutational processes of tobacco smoking and APOBEC activity generate protein-truncating mutations in cancer genomes

The paper analyzes the impact of mutational signatures from tobacco smoking and APOBEC activity on protein-truncating mutations in 12,341 cancer genomes across 18 types, showing their enrichment in key cancer pathways and tumor suppressors.

A Host-Harbored Metabolic Susceptibility of Coronavirus Enables Broad-Spectrum Targeting

The paper identifies a host metabolic pathway essential for coronavirus replication and shows that inhibiting it with Propranolol has broad antiviral effects.

Sickle red blood cell derived extracellular vesicles activate endothelial cells and enhance sickle red cell adhesion mediated by von Willebrand factor

This study shows that sickle RBC-derived extracellular vesicles activate endothelial cells and enhance RBC adhesion via von Willebrand factor, with implications for SCD treatment.

Disentangling leaf-microbiome interactions in Arabidopsis thaliana by network mapping

This paper uses network mapping to identify plant genes and SNPs that influence microbial network architecture in Arabidopsis thaliana, revealing genetic control of microbial interactions and their impact on plant traits.

Using a recently approved tumor mutational burden biomarker to stratify patients for immunotherapy may introduce a sex bias

The paper investigates if using a high tumor mutational burden (TMB) threshold for immunotherapy selection introduces sex bias, finding significant bias in melanoma but not in other cancers.

Cross-species identification of cancer-resistance associated genes uncovers their relevance to human cancer risk

The paper identifies cancer-resistance associated genes across species and finds their relevance to human cancer risk through conservation analysis and functional studies.

Community Evaluation of Glycoproteomics Informatics Solutions Reveals High-Performance Search Strategies of Serum N- and O-Glycopeptide Data

This study evaluates glycoproteomics software performance using human serum datasets, identifies high-performance strategies, and provides recommendations for improved analysis.

Detour learning ability and the effect of novel sensory cues on learning in Australian bull ants, Myrmecia midas

This study investigates detour learning in Australian bull ants, finding that they learn new routes around barriers without relying on barrier cues, but their navigation is disrupted by novel sensory cues.

Exploring the microbiome-wide lysine acetylation, succinylation and propionylation in human gut microbiota

The paper develops a method to analyze lysine acylations in the human gut microbiome, identifying thousands of modified peptides and showing differential distribution across microbial species.

Inhibition of SARS-CoV-2 viral entry in vitro upon blocking N- and O-glycan elaboration

This study shows that blocking N- and O-glycan biosynthesis reduces SARS-CoV-2 viral entry by affecting Spike protein proteolysis and RBD presentation.

Nanoparticle-mediated microRNA-145 Delivery for Vascular Smooth Muscle Cell Phenotype Modulation and Atherosclerosis Treatment

This study develops miR-145-loaded nanoparticles to target VSMC phenotype switching and atherosclerosis, showing reduced plaque growth and restored contractile markers in vitro and in mice.

Synthetic lethality across normal tissues is strongly associated with cancer risk, onset, and tumor suppressor specificity

The paper quantifies synthetic lethality in normal tissues and links it to cancer risk, onset, and tumor suppressor specificity using GTEx transcriptomics data.

Organic manure managements increases soil microbial community structure and diversity in double-cropping paddy field of Southern China

The study shows that organic manure and rice straw residue increase soil microbial diversity and abundance in double-cropping paddy fields compared to chemical fertilizer alone or no fertilizer.

The type 2 diabetes gene product STARD10 is a phosphoinositide binding protein that controls insulin secretory granule biogenesis

This study identifies STARD10 as a phosphoinositide binding protein that regulates insulin granule biogenesis in beta-cells by affecting phosphatidylinositol levels and proinsulin processing.

Growth phase-dependent responses of an in vitro gut microbiome to metformin

This study shows that metformin affects in vitro gut microbiota differently depending on when it is added during growth phases, with the log phase showing the strongest impact on growth and functional changes.

Integrated computational and experimental identification of p53, KRAS and VHL mutant selection associated with CRISPR-Cas9 editing

The paper identifies p53, KRAS, and VHL mutations as being selected during CRISPR-Cas9 editing through computational and experimental analysis.

Avoiding pitfalls: Trace conditioning and rapid aversive learning during route navigation in desert ants

This study shows desert ants use aversive trace conditioning to learn route detours and avoid pit traps, with positive reinforcement shaping new routes.

An in vitro model maintaining taxon-specific functional activities of the gut microbiome

The paper develops an in vitro model called Mipro that maintains gut microbiome functional and compositional profiles, showing strong correlation with in vivo responses to metformin.

RapidAIM: A culture- and metaproteomics-based Rapid Assay of Individual Microbiome responses to drugs

RapidAIM screens xenobiotics against individual microbiomes using metaproteomics, showing compound effects on abundance, composition, and functional pathways across individuals.