S. Cheng

Golgi-associated retrograde protein (GARP) complex recruits retromer to trans-Golgi network for FgKex2 and FgSnc1 recycling, necessary for development and pathogenicity of Fusarium graminearum

This study identifies the GARP complex as a mediator that recruits retromer to the trans-Golgi network, facilitating the recycling of FgKex2 and FgSnc1, which is essential for growth, development, and pathogenicity of Fusarium graminearum.

Computationally designed mRNA-launched protein nanoparticle vaccines

This paper develops an mRNA-launched nanoparticle vaccine that combines protein nanoparticle and mRNA vaccine advantages, showing enhanced antibody and T cell responses in mice.

Systematic Multi-Omics Investigation of Androgen Receptor Driven Gene Expression and Epigenetics changes in Prostate Cancer

This study investigates AR-driven gene expression and epigenetic changes in prostate cancer using multi-omics data from LNCaP cells, identifying gene expression shifts and AR binding patterns under androgen deprivation therapy.

Nematode Extracellular Protein Interactome Expands Connections between Signaling Pathways

The paper reports a C. elegans extracellular interactome dataset, revealing new interactions between signaling pathways and potential roles in human disease mechanisms.

TAD hierarchy restricts poised LTR activation and loss of TAD hierarchy promotes LTR co-option in cancer

The paper shows that TAD hierarchy restricts LTR activation, and its loss in cancer allows LTRs to act as alternative promoters, driving oncogene activation and transcriptional diversity.

Paradigm shift in biomarker translation: a pipeline to generate clinical grade biomarker candidates from DIA-MS discovery

This paper introduces TEAQ, a software tool that selects clinical-grade biomarker candidates from DIA-MS data by evaluating protein quantification metrics in a discovery cohort.

Genetic regulation and targeted reversal of lysosomal dysfunction and inflammatory sterol metabolism in pulmonary arterial hypertension

The paper identifies NCOA7's role in lysosomal function and inflammatory sterol metabolism in PAH, showing its deficiency exacerbates disease through oxysterol/bile acid generation.

Multimodal illumination platform for 3D single-molecule super-resolution imaging throughout mammalian cells

This paper introduces a multimodal illumination platform for 3D single-molecule super-resolution imaging in mammalian cells, improving signal-to-background ratio and localization precision.

PCTA, A PAN-CANCER CELL LINE TRANSCRIPTOME ATLAS

PCTA provides a curated pan-cancer cell line transcriptome atlas with user-friendly tools for gene expression analysis across diverse cancer types.

Transcriptomic analysis of melanoma cells reveals an association of α-synuclein with regulation of the inflammatory response.

This study identifies α-synuclein's role in regulating inflammatory gene expression in melanoma cells through RNA sequencing and validation.

The Marchantia pangenome reveals ancient mechanisms of plant adaptation to the environment

This study analyzes the pangenome of Marchantia polymorpha to identify genetic features involved in plant adaptation to terrestrial environments, finding shared and lineage-specific genes with flowering plants.

Harnessing Landrace Diversity Empowers Wheat Breeding for Climate Resilience

This study uses landrace diversity in wheat to identify genetic resources for climate resilience and improved traits, providing a framework for crop improvement.

A senescence-like state is beneficial for ovarian cancer treatment

This study shows that senescence in ovarian cancer cells after chemotherapy correlates with better patient survival, suggesting senescence could be a therapeutic target.

The expression of PKM1 and PKM2 in developing, benign, and cancerous prostatic tissues

This study examines PKM1 and PKM2 expression in mouse and human prostatic tissues across development, benign, and cancerous states, revealing distinct patterns in PCa and NEPCa.

The wheat powdery mildew resistance gene Pm4 also confers resistance to wheat blast

The paper identifies that the wheat resistance gene Pm4 confers resistance to wheat blast caused by Magnaporthe oryzae, highlighting its importance for developing resistant cultivars in affected regions.

Nifuroxazide Suppresses PD-L1 Expression and Enhances the Efficacy of Radiotherapy in Hepatocellular Carcinoma

This study shows nifuroxazide enhances radiotherapy in HCC by reducing PD-L1 expression and improving tumor response.

Unveiling Novel Double-Negative Prostate Cancer Subtypes Through Single-Cell RNA Sequencing Analysis

This study identifies two novel double-negative prostate cancer subtypes using scRNA-seq and develops a web tool for visualization.

Optogenetic strategies for optimizing the performance of biosensors of membrane phospholipids in live cells

This paper presents optogenetic strategies to enhance phospholipid biosensors in live cells by reducing background signals and amplifying detection through light-controlled probe release and phase separation.

Photosynthetic acclimation mediates exponential growth of a desert plant in Death Valley summer

This study shows Tidestromia oblongifolia rapidly acclimates to extreme heat by altering gene expression, organellar dynamics, and photosynthesis.

CytoSIP: An annotated structural atlas for interactions involving cytokine or cytokine receptor

CytoSIP provides a database of cytokine-cytokine receptor interactions with SNPs, interfaces, and disease associations to aid drug design and precision medicine.

Structural basis and functional roles for Toll-like receptor binding to Latrophilin adhesion-GPCR in embryo development

This study identifies TOL-1 as a ligand for LAT-1 in C. elegans, showing their interaction is essential for embryonic development.

Computational design of non-porous, pH-responsive antibody nanoparticles

This paper designs pH-responsive antibody nanoparticles with three distinct protein components that disassemble at tunable pH levels, enabling targeted delivery of biologics.

Comparative Phylogenomics and Phylotranscriptomics Provide Insights into the Genetic Complexity of Nitrogen Fixing Root Nodule Symbiosis

The paper uses phylogenomic and phylotranscriptomic analyses to study the evolution of nitrogen-fixing root nodule symbiosis across the Nitrogen-Fixing Nodulation Clade, finding no convergence at the amino acid level and highlighting the role of NIN as a master regulator.

Multi-omics of the gut microbial ecosystem in the immunotherapy resistance in microsatellite instability-high gastrointestinal cancer patients

The paper uses multi-omics data to identify gut microbiome and metabolite markers of immunotherapy resistance in MSI-H/dMMR gastrointestinal cancer patients and develops a predictive model with 0.83 accuracy.

Genetic control of cell layer interactions in plants via tissue mechanics

The paper shows that brassinosteroid genes control tissue growth coordination in plants by modulating mechanical constraints between cell layers.

Age but not menopausal status is linked to lower resting energy expenditure

This study finds that age, not menopausal status, is associated with lower fat-free mass-adjusted resting energy expenditure in women.

SGC-CLK-1 (CAF-170) a chemical probe for the Cdc2-Like kinases CLK1, CLK2, and CLK4

This paper identifies and characterizes SGC-CLK-1, a potent inhibitor of CLK1, CLK2, and CLK4, showing its selectivity and effects on SR protein phosphorylation and localization.

Comparative transcriptome revealed potential genes related with drug resistance in Melanoma

The paper identifies SENP1 and Hippo signaling pathway activation as factors contributing to drug resistance in melanoma using transcriptomic and functional analyses.

Time-Aligned Hourglass Gastrulation Models in Rabbit and Mouse

This study compares rabbit and mouse gastrulation dynamics using single-cell data to explore molecular convergence and divergence in body plan development.

Understanding water conservation vs. profligation traits in vegetable legumes through a physio-transcriptomic-functional approach

This study compares water use strategies in soybean and cowpea under drought using phenomic and transcriptomic analyses, identifying gene networks and regulatory mechanisms underlying their contrasting responses.