Q. Xu

Generation of a biliary tract cancer cell line atlas reveals molecular subtypes and therapeutic targets

This study creates a biliary tract cancer cell line atlas using multi-omics data to identify molecular subtypes and therapeutic targets.

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.

Proteasomal control of anti-CRISPRs for the regulation of CRISPR/Cas9 activity using Cas9-ACROBAT

The paper describes a method to control CRISPR/Cas9 activity using proteasomal degradation of an anti-CRISPR protein fused to a degradation or shutoff tag.

Protein S-glutathionylation confers cell resistance to ferroptosis

This study shows that protein S-glutathionylation protects cells from ferroptosis by maintaining ARF6 function and reducing labile iron pools.

Nor-LAAM loaded PLGA Microparticles for Treating Opioid Use Disorder

This paper develops sustained-release nor-LAAM-loaded PLGA microparticles for OUD treatment, showing prolonged drug release and reduced fentanyl choice and withdrawal in rats.

Deep learning based genomic breeding of pest-resistant grapevine

This study uses deep learning and genome-wide association studies to identify pest-resistant genes in grapevine, achieving high accuracy in predicting pest damage.

Clinical factors associated with SFTS diagnosis and severity in cats

This study identifies clinical biomarkers and develops a scoring model to predict SFTSV infection in cats, while analyzing the relationship between viral strain and disease severity.

Mechanisms mediating arylidene-indolinones induced degradation: thoughts on "Discovery of a Drug-like, Natural Product-Inspired, DCAF11 Ligand Chemotype"

The paper discusses discrepancies in conclusions about arylidene-indolinones' mechanism of action, suggesting possible explanations for conflicting findings on their role as DCAF11 ligands and autophagy-tethering compounds.

Structural characterization and dynamics of AdhE ultrastructures from Clostridium thermocellum: A containment strategy for toxic intermediates.

This study uses cryo-EM and molecular dynamics to characterize AdhE ultrastructures in C. thermocellum, revealing a containment strategy for toxic intermediates in ethanol synthesis.

Non-B DNA-Informed Mutation Burden as a Marker of Treatment Response and Outcome in Cancer

This paper introduces two novel markers, nbTMB and mlTNB, to improve prediction of treatment response and outcomes in cancer by incorporating non-B DNA mutation information.

Quantifying the Prevalence of Non-B DNA Motifs as a Marker of Non-B Burden in Cancer using NBBC

The paper introduces NBBC, a web-based tool for quantifying non-B DNA motifs in cancer, and provides a detailed protocol for its use in analyzing genomic stability and mutation signatures.

Chlamydial protease-like activating factor targets SLC7A11 for degradation to induce ferroptosis and facilitate dissemination.

This study identifies CPAF-mediated degradation of SLC7A11 as a mechanism for Chlamydia-induced ferroptosis, promoting bacterial dissemination and suggesting therapeutic targeting.

Inhibition of KLK8 promotes pulmonary endothelial repair by restoring VE-cadherin/Akt/FOXM1 pathway

This study shows that inhibiting KLK8 restores the VE-cadherin/Akt/FOXM1 pathway, promoting endothelial repair and reducing sepsis-induced lung injury and mortality.

An integrated transcriptomic cell atlas of human endoderm-derived organoids

This paper creates a human endoderm organoid cell atlas by integrating single-cell transcriptomes from multiple organoid types to compare cell states with primary tissues and disease models.

Cytotoxic rhamnolipid micelles drive acute virulence in Pseudomonas aeruginosa

This study shows rhamnolipid micelles from Pseudomonas aeruginosa are highly cytotoxic to host and bacterial cells, correlating with virulence in clinical isolates.

ULK1-dependent phosphorylation of PKM2 antagonizes O-GlcNAcylation and inhibits the Warburg effect in breast cancer

This study identifies ULK1-mediated phosphorylation of PKM2 that inhibits O-GlcNAcylation and reduces the Warburg effect in breast cancer.

Extract from Polygala fallax Hemsl. Protects Kidneys in db/db Mice by Inhibiting the TLR4/MyD88/NF-kappa B Signaling Pathway

This study shows that EPF reduces renal inflammation and protects kidneys in db/db mice by inhibiting the TLR4/MyD88/NF-kappa B pathway.

A genetic basis for cancer sex differences revealed in Xp11 translocation renal cell carcinoma

This study identifies a genetic basis for cancer sex differences in Xp11 translocation renal cell carcinoma by showing a 2:1 female:male ratio in TFE3 fusions involving the inactive X chromosome.

GDF15 is a Critical Renostat in the Defense Against Hypoglycemia

This study identifies GDF15 as a new hypoglycemia counterregulatory hormone, showing it increases hepatic gluconeogenesis through renal release and beta-adrenergic receptor-2 signaling.

Tomato CYP94C1 terminates jasmonate signaling during fruit ripening by inactivating bioactive jasmonoyl-L-isoleucine

This study identifies CYP94C1 as a key enzyme in tomato that terminates jasmonate signaling during ripening by converting bioactive JA-Ile to an inactive form, thereby reducing susceptibility to necrotrophic pathogens.

High-efficiency base editing for Stargardt disease in mice, non-human primates, and human retina tissue

This study develops a base-editing strategy to correct the ABCA4 mutation in mice, non-human primates, and human retinal tissue, achieving high editing rates in vivo.

High-throughput screening of functional neo-antigens and their specific TCRs via the Jurkat reporter system combine with droplet microfluidics

The paper develops a high-throughput platform for screening functional neo-antigens and their specific TCRs using droplet microfluidics and DNA barcoding.

In vitro Lung Epithelial Cell Model Reveals Novel Roles for Pseudomonas aeruginosa Siderophores

This study uses an in vitro human bronchial epithelial cell model to show that Pseudomonas aeruginosa siderophores pyoverdine and pyochelin have distinct roles in virulence during lung infection.

Characterization of a novel botybirnavirus with a unique dsRNA infecting Didymella theifolia from tea plants

The paper characterizes a novel botybirnavirus, DtBRV1, found in Didymella theifolia, which infects tea plants, and identifies a unique dsRNA unit with distinct molecular features.

Soft and stretchable organic bioelectronics for continuous intra-operative neurophysiological monitoring during microsurgery

This paper introduces a soft, stretchable organic bioelectronic system for continuous intra-operative neurophysiological monitoring during microsurgery, demonstrating improved signal quality and reduced post-operative complications in animal models.

Multi-omics analyses of single cell-derived colorectal cancer organoids reveal intratumor heterogeneity and immune response diversity

Consortium bibliometric analysis of hotspots and frontiers of immunotherapy in pancreatic cancer

This paper conducts a bibliometric analysis of immunotherapy research in pancreatic cancer, identifying key trends, hotspots, and future directions.

Enhanced donor antigen presentation by B-cells predicts acute cellular rejection and late outcomes after transplantation.

The paper shows that a higher antigen presenting index (API) in B-cells predicts acute rejection and poor long-term outcomes after liver or intestine transplantation.

A penultimate classification of canonical antibody CDR conformations

The paper updates the classification of antibody CDR conformations using improved clustering methods and electron density validation, identifying new clusters and retiring outdated ones.

Transfer Entropy Based Causality from Head Motion to Eye Movement for Visual Scanning in Virtual Driving

This paper quantifies causality from head motion to eye movement using transfer entropy to assess driving performance in virtual reality.