W. Ding

Adaptive Functions of Structural Variants in Human Brain Development

This study identifies human-specific structural variants in rhesus macaques, showing their impact on human brain development through gene expression changes.

Mucin MUC5B levels are reduced in the colonic epithelia of ulcerative colitis patients

This study shows that MUC5B levels are reduced in ulcerative colitis colonic tissues and organoids, and IL-1β fails to induce MUC5B expression in UC-derived organoids.

Trans-Lesion Synthesis and Mismatch Repair Pathway Crosstalk Defines Chemoresistance and Hypermutation Mechanisms in Glioblastoma

This study identifies RAD18's role in TMZ resistance and hypermutation in GBM by linking it to TLS and MMR pathways through CRISPR screening and mutation analysis.

Germline-targeting chimpanzee SIV Envelopes induce V2-apex broadly neutralizing-like B cell precursors in a rhesus macaque infection model

This study shows that germline-targeting SCIVs can activate and expand B cells expressing V2-apex bnAb-like precursors in rhesus macaques.

Disease-associated gut microbiome and metabolome changes in chronic low back pain patients with bone marrow lesions

This study examines gut microbiome and serum metabolome changes in chronic low back pain patients with bone marrow lesions, identifying key microbial species and metabolic pathways involved.

In Vivo Three-dimensional Brain Imaging with Chemiluminescence Probes in Alzheimers Disease Models

This paper develops chemiluminescence probes for in vivo 3D brain imaging in Alzheimer's disease models, showing high photon emission and binding to amyloid beta.

A germline-targeting chimpanzee SIV envelope glycoprotein elicits a new class of V2-apex directed cross-neutralizing antibodies

This study identifies a new class of V2-directed cross-neutralizing antibodies targeting a cryptic epitope in occluded-open HIV and SIV Env trimers.

Highly synchronized cortical circuit dynamics mediate spontaneous pain

This study shows that spontaneous pain induces synchronized neural dynamics in the primary somatosensory cortex, and reversing this synchronization alleviates pain.

Autophagy Increases Occludin Levels to Enhance Intestinal Paracellular Tight Junction Barrier.

This study shows autophagy increases occludin levels, enhancing intestinal tight junction barrier function through ERK1/2 MAPK signaling.

Phototherapy with physically and molecularly produced light for Alzheimer's disease

This study shows that combining a photolabile Aβ ligand with LED or molecular light can reduce Aβ accumulation in mice, suggesting a new phototherapy approach for Alzheimer's disease.

Fish oil Nano-emulsion Kills Macrophage: Ferroptosis and Autophagy Triggered by Catalase-catalysed Superoxide Eruption

The paper shows fish oil nano-emulsions trigger ferroptosis and autophagy in macrophages via catalase-catalyzed superoxide production, leading to oxidative damage.

Environmental factors shape the culturable bacterial diversity in deep-sea water and surface sediments from the Mariana Trench

The paper isolates and identifies bacterial strains from deep-sea water and sediments in the Mariana Trench, finding that environmental factors shape culturable bacterial diversity.

Single-nucleus RNA Sequencing and Spatial Transcriptomics Reveal the Immunological Microenvironment of Cervical Squamous Cell Carcinoma

This study uses snRNA-seq and Stereo-seq to analyze the immunological microenvironment of cervical squamous cell carcinoma, identifying immune cell clusters and their associations with tumor progression and patient survival.

Emergence of an adaptive epigenetic cell state in human bladder urothelial carcinoma evolution

This study identifies a TM4SF1-positive cancer subpopulation in bladder cancer that drives intratumor heterogeneity and is associated with poor prognosis.

Combining Multi-Dimensional Molecular Fingerprints to Predict hERG Cardiotoxicity of Compounds

This study develops a molecular dynamic fingerprint (MDFP) and combines it with traditional fingerprints to predict hERG cardiotoxicity, achieving higher accuracy than single-fingerprint models.

Revealing the full biosphere structure and versatile metabolic functions in the deepest ocean sediment of the Challenger Deep

This study uses deep metagenomics to explore microbial communities in Challenger Deep sediment, revealing new MAGs, metabolic functions, and virus-host interactions in hadal zone ecosystems.

Single-cell transcriptome profiling reveals multicellular ecosystem of nucleus pulposus during degeneration progression

This study uses single-cell transcriptomics to identify novel cell populations and functional differences in human nucleus pulposus during degeneration, revealing potential regenerative and immunosuppressive roles.

Contrasting patterns of microbial dominance in the Arabidopsis thaliana phyllosphere

The paper compares the ecological roles of Sphingomonas and Pseudomonas in the phyllosphere of Arabidopsis thaliana, finding Sphingomonas to be more adaptable but a poor competitor in dead leaves.

Unbiased clade age estimation using a Bayesian Brownian Bridge

The paper defends the Bayesian Brownian Bridge method against criticism, showing its estimates of angiosperm clade ages are valid despite concerns about fossil data scarcity and sampling bias.

Winter wheat adapts to environmental pH by changing H+ net flux in roots at the seedling stage

This study shows winter wheat adjusts root H+ net flux to adapt to pH stress, with BN4199 showing stronger acid and alkali resistance than AK58.

Recapitulation of HIV-1 Env-Antibody Coevolution in Macaques Leading to Neutralization Breadth

Virus-antibody coevolution in rhesus macaques recapitulates developmental features of human antibodies.

High throughput small molecule screening reveals NRF2-dependent and -independent pathways of cellular stress resistance

This study identifies small molecules that induce cellular stress resistance against paraquat, cadmium, and methyl methanesulfonate, with some compounds activating Nrf2 signaling and others triggering inflammatory and AMPK pathways.

Dean flow assisted single cell and bead encapsulation for high performance single cell expression profiling

This paper introduces a microfluidic chip that improves single-cell encapsulation efficiency by fourfold, achieving a 3% co-capturing rate with low doublet rates in sequencing data.

Zebrafish DANA retroposon can form large zebrafish sequence in human Hepg2 and 293T cell lines

This study shows that zebrafish DANA retroposon can retrotranspose in human HepG2 and 293T cells, generating zebrafish genome fragments.

Stability of association between Arabidopsis thaliana and Pseudomonas pathogens over evolutionary time scales

The paper surveys Pseudomonas in Arabidopsis thaliana over multiple years and sites, finding that pathogenic sublineages coexist without a single dominant strain overtaking populations.

Genomic basis and evolutionary potential for extreme drought adaptation in Arabidopsis thaliana

The paper predicts future genetic changes in A. thaliana populations by integrating climate change models with genomic data from experimental drought survival experiments.

panX: pan-genome analysis and exploration

panX is a pipeline and visualization tool for analyzing pan-genomes, enabling exploration of gene clusters, phylogenetic trees, and evolutionary history.