X. Ding

Human cell surface-AAV interactomes identify LRP6 as blood-brain-barrier transcytosis receptor and immune cytokine IL3 as AAV9 binder

Follicular helper- and peripheral helper-like T cells drive autoimmune disease in human immune system mice

The paper shows that PD-1+CD4+ Tfh-like and Tph-like cells in human immune system mice drive autoimmune disease, with disease progression linked to HLA-restricted T cell-APC interactions.

Novel, postnatal manifestation of an epidermal barrier defect in a mouse model of isolated sulfite oxidase deficiency

This study identifies a postnatal skin barrier defect in Suox-/- mice, linking sulfite oxidase deficiency to epidermal dysfunction and early mortality.

Scalable primordial germ cell-like-cell platform for functional genomics identifies epigenetic fertility modifiers

This paper develops a scalable method to generate PGC-like cells and uses it to identify epigenetic factors affecting germline development.

Mechanism of connexin channel inhibition by mefloquine and 2-aminoethoxydiphenyl borate

The paper identifies two distinct binding sites for connexin channel inhibitors mefloquine and 2APB, showing they block channel function through different mechanisms.

Structural basis of connexin-36 gap junction channel inhibition

The paper reports the cryo-EM structure of connexin-36 bound to mefloquine, revealing how small molecules inhibit gap junction channels by partially occluding the pore and altering electrostatics.

Transferable Coarse Graining via Contrastive Learning of Graph Neural Networks

The paper develops a transferable coarse-grained force field using graph neural networks trained on atomistic simulation data, achieving accurate solvation free energy estimations and reasonable transferability.

CDK19 and CDK8 Mediator kinases drive androgen-independent in vivo growth of castration-resistant prostate cancer

This study identifies CDK8 and CDK19 as drivers of androgen-independent growth in castration-resistant prostate cancer and shows that their inhibition can suppress tumor growth and induce regression.

The essential genome of Xanthomonas citri

This study identifies essential genes and genomic features of Xanthomonas citri using transposon mutagenesis, revealing insights into its genome organization and potential therapeutic targets.

OpenABC Enables Flexible, Simplified, and Efficient GPU Accelerated Simulations of Biomolecular Condensates

OpenABC simplifies GPU-accelerated simulations of biomolecular condensates using Python, offering performance comparable to hundreds of CPUs and tools for converting to all-atom structures.

Efficient Hi-C inversion facilitates chromatin folding mechanism discovery and structure prediction

This paper introduces an efficient algorithm to convert Hi-C data into contact energies, revealing chromatin loop anchors and enabling 3D structure prediction.

Proteomic-based stratification of intermediate-risk prostate cancer patients

The paper identifies an 18-protein signature from proteomic data to stratify intermediate-risk prostate cancer patients into low- and high-risk groups for biochemical recurrence.

Primate-conserved Carbonic Anhydrase IV and murine-restricted Ly6c1 are new targets for crossing the blood-brain barrier

The paper identifies two new receptors, Ly6c1 and Car4/CA4, for crossing the blood-brain barrier using AAV vectors and computational modeling.

Functional gene delivery to and across brain vasculature of systemic AAVs with endothelial-specific tropism in rodents and broad tropism in primates

The paper develops AAV vectors with endothelial-specific tropism for brain delivery in rodents and broad tropism in primates, demonstrating their utility in genetic engineering of the blood-brain barrier.

Fast, accurate ranking of engineered proteins by receptor binding propensity using structure modeling

This paper introduces APPRAISE, a method that rapidly ranks engineered proteins by their receptor binding propensity using structure modeling, demonstrating its accuracy on various protein classes.

Microbiome features differentiating unsupervised-stratification based clusters of patients with abnormal glycometabolism

This paper identifies microbiome features distinguishing three patient clusters with abnormal glycometabolism, stratified using unsupervised clustering of clinical parameters.

Enhancing detectable fluorescence fluctuation for high-throughput and four-dimensional live-cell super-resolution imaging

This paper introduces SACD, a super-resolution imaging method that reduces acquisition time and improves resolution, enabling high-throughput and 4D live-cell imaging.

Quantitatively mapping local quality of super-resolution microscopy by rolling Fourier ring correlation

This paper introduces a method to quantitatively map the local quality of super-resolution microscopy images, enabling better integration of reconstructions and detection of uncertainties.

Sensitive bacterial Vm sensors revealed the excitability of bacterial Vm and its role in antibiotic tolerance

The paper develops bacterial Vm sensors to study Vm dynamics and shows that excitable states enhance antibiotic tolerance.

Deeply conserved super-enhancers maintain stem cell pluripotency in placental mammals

The paper identifies three deeply conserved super-enhancers in placental mammals that are essential for maintaining stem cell pluripotency.

Two Competing Guilds as a Core Microbiome Signature for Health Recovery

The paper identifies two competing bacterial guilds in the gut microbiome that correlate with host health conditions and can classify multiple diseases across diverse populations.

Profiling the size-dependent heterogeneity of membrane proteins in a mixed population of small extracellular vesicle for potential cancer diagnosis

This study profiles size-dependent membrane protein heterogeneity in small EVs to improve cancer diagnosis accuracy using a novel single EV enumeration approach.

Ascorbic acid derived carbon dots promote circadian rhythm and contribute to attention deficit hyperactivity disorder

This paper shows that ascorbic acid-derived carbon dots (VCDs) improve circadian rhythm and reduce hyperactive behavior in a zebrafish ADHD model caused by per1b mutation.

Improved Heat Tolerance in Heat-acclimated Mice: the Probable Role of the PD-L1 Pathway

This study shows that heat-acclimated mice have more Tregs, which reduce inflammation and improve heat tolerance through the PD-1/PD-L1 pathway.

Effective infection with dengue virus in experimental neonate and adult mice through intranasal route

This study infects neonate and adult mice with dengue virus via the nasal route, showing viral tropism and replication in multiple tissues, suggesting respiratory transmission as a potential non-vector route.

Multiplexed imaging mass cytometry reveals distincttumor-immune microenvironments linked to immunotherapyresponses in melanoma

This study uses imaging mass cytometry to analyze tumor-immune microenvironments in melanoma patients, identifying distinct microenvironment archetypes linked to responses to anti-PD-1 therapy.

Multi-Wavelength Analytical Ultracentrifugation of Biopolymer Mixtures and Interactions

The paper demonstrates the utility of multi-wavelength analytical ultracentrifugation for analyzing complex biopolymer mixtures and interactions.

Molecular mechanisms governing circulating immune cell heterogeneity across different species revealed by single cell sequencing

This study uses single-cell RNA-sequencing to analyze immune cell diversity across 12 species, revealing conserved and divergent molecular mechanisms and cellular interactions.

Distinct roles of glutamine metabolism in benign and malignant cartilage tumors with IDH mutations

This study shows that glutamine metabolism has different roles in benign and malignant cartilage tumors with IDH mutations, suggesting GLS inhibition as a potential therapy for chondrosarcoma.

Screening of cell-virus, cell-cell, gene-gene interactions among kingdoms of life at single cell resolution

The paper screens cell-virus and cell-cell interactions across multiple species to identify potential hosts and co-evolution patterns of viruses including SARS-CoV-2.