Y. Peng

Single-cell profiling reveals the intratumor heterogeneity and immunosuppressive microenvironment in cervical adenocarcinoma

This study uses single-cell RNA sequencing to identify unique cell clusters and immunosuppressive features in cervical adenocarcinoma compared to squamous cell carcinoma.

Nuclear stiffening in neoplastic cells aggregates T cell exhaustion via pFAK/SP1/IL-6 axis in colorectal cancer

The paper shows that nuclear stiffening in colorectal cancer cells promotes T cell exhaustion through the pFAK/SP1/IL-6 axis, and inhibiting pFAK improves antitumor immunity.

PLINDER: The protein-ligand interactions dataset and evaluation resource

PLINDER provides a large, annotated PLI dataset with diverse annotations and improved evaluation splits to better assess computational methods for drug design.

Integrated single-cell RNA-seq analysis revealed PTN secreted by fibroblasts acting on itself and macrophages via SDC4 ligand in myocardial hypertrophy

The paper identifies PTN secreted by fibroblasts acting on itself and macrophages via SDC4 in myocardial hypertrophy using scRNA-seq and experimental validation.

Bacteroides expand the functional versatility of a universal transcription factor and transcribed DNA to program capsule diversity

The paper investigates how Bacteroides use the Y-Z regulatory system to control capsule polysaccharide (CPS) transcription and create subpopulations for fitness.

Oligopeptide (FK)4 facilitates the determination of the absolute stereochemistry of chiral organic compounds via NMR Spectroscopy

This study demonstrates how the oligopeptide (FK)4 enables the determination of absolute stereochemistry of chiral compounds using NMR spectroscopy by combining alignment medium and chiral differentiating properties.

Viral diversiy within marine biofilms and their potential roles in microbially influenced corrosion

This study analyzes viral communities in marine biofilms on 8 materials to explore their roles in microbially influenced corrosion, finding viruses influence corrosion through interactions with corrosive microbes.

Electrostatic interactions in nucleosome and higher-order structures are regulated by protonation state of histone ionizable residue

The paper investigates how changes in histone protonation states affect nucleosome electrostatic potentials and interactions with partner proteins, and how cancer mutations influence these interactions.

The genomic and epigenomic dynamics of hemizygous genes across crops with contrasting mating systems

This study examines hemizygous genes in 22 crop genomes, finding higher hemizygosity in clonal lineages and distinct expression and epigenetic features compared to diploid genes.

Enzymes enabling the biosynthesis of various C20 polyunsaturated fatty acids in a sea urchin Hemicentrotus pulcherrimus

This study identifies genes encoding enzymes involved in the biosynthesis of C20 polyunsaturated fatty acids in the sea urchin Hemicentrotus pulcherrimus.

Grifola frondosa polysaccharide Ameliorates Inflammation and Insulin Resistance by Regulating Macrophage Polarization of liver in Type 2 Diabetes Mellitus Rats

This study shows that Grifola frondosa polysaccharide reduces inflammation and insulin resistance in T2DM rats by modulating liver macrophage polarization.

The protective roles of Eugenol on type 1 diabetes mellitus through NRF2 mediated oxidative stress pathway

This study investigates the protective effects of eugenol on type 1 diabetes mellitus by activating the NRF2 pathway, reducing oxidative stress and apoptosis in pancreatic β cells.

ATM-Mediated Translocation of RanBPM Regulates DNA Damage Response by Stabilizing p21 in Non-Small Cell Lung Cancer Cells

The paper identifies a novel mechanism where RanBPM stabilizes p21 via deubiquitination, regulating DNA damage response in NSCLC cells.

Reductive dehalogenation by diverse microbes is central to biogeochemical cycles in deep-sea cold seeps

The paper investigates reductive dehalogenation in deep-sea cold seeps, identifying diverse RDases and their ecological role in biogeochemical cycles.

Monocytic fibrocyte-like cell enrichment and myofibroblastic adaptation causes nucleus pulposus fibrosis and associates with disc degeneration severity

The paper identifies fibrocyte-like cells as key drivers of nucleus pulposus fibrosis in disc degeneration, showing their role in myofibroblast formation and disease severity.

Preclinical evaluation of RQ3013, a broad-spectrum mRNA vaccine against SARS-CoV-2 variants

This paper evaluates RQ3013, an mRNA vaccine against SARS-CoV-2 variants, showing robust immune responses and protection in animal models.

Stomatal maturomics: identifying genes regulating guard cell maturation and function formation from single-cell transcriptomes

The paper identifies 586 genes up-regulated during stomata maturation using single-cell RNA-seq data and shows two TFs regulate guard cell size and function.

Spatiotemporal Profiling Unveiling the Cellular Organization Patterns and Local Protumoral Immune Microenvironment Remodeling in Early Lung Adenocarcinoma Progression

The paper uses spatial transcriptomics and single-cell RNA sequencing to identify cellular organization patterns and immune microenvironment changes in early lung adenocarcinoma progression.

Data-driven optimization yielded a highly-efficient CRISPR/Cas9 system for gene editing in Arabidopsis

The paper develops a CRISPR/Cas9 system for Arabidopsis using the NUC1 promoter, achieving high editing efficiency and stable inheritance in the T2 generation.

Cep290 is cooperatively maintained at basal body by Cep131-Cep162 and Cby-Fam92 modules

This study identifies two modules, Cep131-Cep162 and Cby-Fam92, that cooperatively maintain Cep290 at the basal body and initiate ciliogenesis.

The Unexpected Role of GCN2 Kinase Activation in Mediating Pulmonary Vascular Remodeling and Pulmonary Arterial Hypertension

This study shows GCN2 kinase activation in hypoxia mediates pulmonary vascular remodeling and PAH via Edn1, suggesting GCN2 as a therapeutic target for PAH.

A vast repertoire of secondary metabolites influences community dynamics and biogeochemical processes in cold seeps

This study investigates secondary metabolites in cold seep microbiomes using metagenomic, metatranscriptomic, and metabolomic data, revealing diverse biosynthetic gene clusters and their potential ecological roles.

Genetic Screen Identified Prmt5 as a Neuroprotection Target against Cerebral Ischemia

This study identifies Prmt5 as a negative regulator of neuronal survival during cerebral ischemia and shows that its inhibition protects against neuronal death in a mouse model.

Target Identification and Mechanistic Characterization of Indole Terpenoid Mimics: Proper Spindle Microtubule Assembly Is Essential for Cdh1-Mediated Proteolysis of CENP-A

The paper identifies microtubule-targeting agents that induce CENP-A accumulation by destabilizing Cdh1, linking microtubule dynamics to CENP-A proteolysis.

Nano-silver and forskolin regulate rice seed germination mediated by OsPIP2-1 and α-amylase

This study shows nano-silver inhibits and forskolin promotes rice seed germination through regulation of OsPIP2-1 and α-amylase.

A comprehensive catalog with 100 million genes and 3,000 metagenome-assembled genomes from global cold seep sediments

The paper constructs a comprehensive gene and genome catalog from cold seep sediments, revealing novel microbial species and a large fraction of uncharacterized genes.

Viruses in deep-sea cold seep sediments harbor diverse survival mechanisms and remain genetically conserved within species

The paper examines viral genetic features and evolutionary patterns in deep-sea cold seep sediments, identifying diverse survival strategies and genetic conservation within species.

Redistribution and activation of CD16brightCD56dim NK cell subset to fight against Omicron subvariant BA.2 after COVID-19 vaccination

This study shows that COVID-19 vaccination enhances the activation and redistribution of CD16brightCD56dim NK cells in Omicron BA.2-infected patients, improving clinical outcomes.

Large clones of pre-existing T cells drive early immunity against SARS-COV-2 and LCMV infection.

The paper identifies high frequency naive T cell precursors that drive rapid T cell responses during early SARS-COV-2 and LCMV infections.

Exploring the genome and protein space of viruses

The paper estimates the genetic diversity of viruses using simulated discovery processes, finding that less than 3% of viral genetic diversity has been uncovered.