A5100397607- Single-cell and spatial transcriptomics
- T-cell and B-cell Immunology
- Gene expression and cancer classification
- Asthma and respiratory diseases
- Data Quality and Management
- Data Management and Algorithms
- SARS-CoV-2 and COVID-19 Research
- Immunotherapy and Immune Responses
- Ferroptosis and cancer prognosis
- Gene Regulatory Network Analysis
- Bioinformatics and Genomic Networks
- Cell Image Analysis Techniques
- Systemic Lupus Erythematosus Research
- Advanced MRI Techniques and Applications
- Immune Cell Function and Interaction
- Gut microbiota and health
- Advanced Image and Video Retrieval Techniques
- Sparse and Compressive Sensing Techniques
- Cancer Immunotherapy and Biomarkers
- Methemoglobinemia and Tumor Lysis Syndrome
- Advanced X-ray Imaging Techniques
- Mycobacterium research and diagnosis
- Traditional Chinese Medicine Analysis
- Phytochemical Studies and Bioactivities
- Nephrotoxicity and Medicinal Plants
The University of Queensland
2014-2025
Second Affiliated Hospital of Nanchang University
2025
Nanchang University
2025
Second Affiliated Hospital of Xi'an Jiaotong University
2023
Southern University of Science and Technology
2023
Shandong Academy of Sciences
2021-2023
Qilu University of Technology
2021-2023
Translational Research Institute
2020-2022
State Key Laboratory of Biotherapy
2022
Sichuan University
2022
Transcriptomic analysis plays a key role in biomedical research. Linear dimensionality reduction methods, especially principal-component (PCA), are widely used detecting sample-to-sample heterogeneity, while recently developed non-linear such as t-distributed stochastic neighbor embedding (t-SNE) and uniform manifold approximation projection (UMAP), can efficiently cluster heterogeneous samples single-cell RNA sequencing analysis. Yet, the application of t-SNE UMAP bulk transcriptomic...
A defining feature of successful vaccination is the ability to induce long-lived antigen-specific memory cells. T follicular helper (Tfh) cells specialize in providing help B mounting protective humoral immunity infection and after vaccination. Memory Tfh that retain CXCR5 expression can confer protection through enhancing response upon antigen re-exposure but how they are maintained poorly understood. + human blood divided into Tfh1, Tfh2, Tfh17 by chemokine receptors CXCR3 CCR6 associated...
Background Kunxian (KX) has been reported to be effective in treating Immunoglobulin A nephropathy (IgAN) and autoimmune disorders, such as lupus nephritis, but there is a lack of controlled trial on its effectiveness safety for IgAN. Methods This multicenter, prospective cohort study was conducted with individuals aged 18–60 years biopsy-confirmed primary IgAN, proteinuria greater than 0.75 g/d, estimated glomerular filtration rate (eGFR) 60 mL/min/1.73 m 2 . Patients were treated KX or...
Abstract Objectives We aimed to gain an understanding of the paradox immunity in COVID‐19 patients with T cells showing both functional defects and hyperactivation enhanced proliferation. Methods A total 280 hospitalised were evaluated for cytokine profiles clinical features including viral shedding. mouse model acute infection by lymphocytic choriomeningitis virus (LCMV) was applied dissect relationship between immunological, virological pathological features. The results from validated...
Sophisticated interactions between stromal and immune cells play crucial roles in various biological pathological processes. In chronic rhinosinusitis with nasal polyps (CRSwNP), the upper airway inflammation many patients is driven by TH2, ILC2, eosinophils, thus being treated glucocorticoids anti-type 2 biologics. The resistance to these therapies often associated neutrophilic inflammation, which has also been widely identified CRSwNP, but underlying mechanisms remain unclear. Using...
We present hypergraph variational autoencoder (HyperG-VAE), a Bayesian deep generative model that leverages representation to single-cell RNA sequencing (scRNA-seq) data. The features cell encoder with structural equation account for cellular heterogeneity and construct gene regulatory networks (GRNs) alongside using self-attention identify modules. synergistic optimization of encoders via decoder improves GRN inference, clustering, data visualization, as validated by benchmarks. HyperG-VAE...
Compressed sensing (CS) has been applied to magnetic resonance imaging for the acceleration of data collection. However, existing CS techniques usually produce images with residual artifacts, particularly at high reduction factors. In this paper, we propose a novel, two-stage reconstruction scheme, which takes advantage properties k-space and under-sampling patterns that are useful in CS. algorithm, under-sampled is segmented into low-frequency high-frequency domains. Then, stage one, using...
Although much progress has been made recently in revealing the heterogeneity of thymic stromal components, molecular programs cell lineage divergency and temporal dynamics epithelial (TEC) development are largely elusive. Here, we constructed a single-cell transcriptional landscape non-hematopoietic cells from mouse thymus spanning embryonic to adult stages, producing transcriptomes 30,959 TECs. We resolved developing TECs highlighted nature early TEC determination cortico-medullary...
Abstract In constructing Gene Regulatory Networks (GRNs), it is crucial to consider cellular heterogeneity and differential gene regulatory modules. However, traditional methods have predominantly focused on heterogeneity, approaching the subject from a relatively narrow scope. We present HyperG-VAE, Bayesian deep generative model that utilizes hypergraph single-cell RNA sequencing (scRNA-seq) data. HyperG-VAE employs cell encoder with Structural Equation Model address build GRNs, alongside...
Knowledge of the changes in immune microenvironment during pulmonary bacterial acute and chronic infections is limited. The dissection system may provide a basis for effective therapeutic strategies against infection. Here, we describe single cell atlas mouse lungs after
Random phase-encode undersampling of Cartesian k-space trajectories is widely implemented in compressed sensing (CS) MRI. However, its one-dimensional (1-D) randomness inherently introduces large coherent aliasing artefacts along the undersampled direction reconstruction and, thus, degrades image quality. This paper proposes a novel scheme to reduce 1-D undersampling-induced artefacts.The proposed progress separated into two steps our new algorithm. In step one, we transfer original...
In this paper, we study the problem of approximate containment similarity search. Given two records Q and X, between X with respect to is |Q intersect X|/ |Q|. a query record set S, search finds from S whose regarding are not less than given threshold. This has many important applications in commercial scientific fields such as matching domain Existing solution relies on asymmetric LSH method by transforming well-studied Jaccard similarity. use different framework intersection. We propose...
Non-infectious uveitis is often secondary to systemic autoimmune diseases, with Behçet's disease (BD) and Vogt-Koyanagi-Harada (VKHD) as the two most common causes. Uveitis in BD VKHD can show similar clinical manifestations, but underlying immunopathogenesis remains unclear.
Nontypeable Haemophilus influenzae (NTHi) persists in the airways chronic obstructive pulmonary disease (COPD). NTHi expresses 4 immunoglobulin (Ig)A protease variants (A1, A2, B1, B2) with distinct cleavage specificities for human IgA1. Little is known about different roles of IgA infection.Twenty-six isolates from a 20-year longitudinal study COPD were analyzed expression, survival respiratory epithelial cells, and lysosomal-associated membrane protein 1 (LAMP1).IgA B1 B2-expressing...
Abstract Transcriptome profiling and differential gene expression constitute a ubiquitous tool in biomedical research clinical application. Linear dimensionality reduction methods especially principal component analysis (PCA) are widely used detecting sample-to-sample heterogeneity bulk transcriptomic datasets so that appropriate analytic can be to correct batch effects, remove outliers distinguish subgroups. In response the challenge analysing with large sample size such as single-cell...
Abstract Our previous study identified a tag single‐nucleotide polymorphism (SNP) rs204900 in TNXB associated with risk of esophageal squamous‐cell carcinoma (ESCC) the Chinese population. However, functional role and causal variants had not been interrogated that study. In present study, we explored effects expression development ESCC searched for this gene. We found was downregulated tumors. Using small interfering RNAs CRISPR–Cas9 methods, both knockdown knockout significantly promoted...
Abstract Systemic lupus erythematosus (SLE) is a systemic autoimmune disease characterized by extraordinary heterogeneity, due to the complex pathogenesis and diverse manifestations. Stratification of patients for therapy prognosis represents major challenge manage SLE. Conventional biomarkers diagnosis activity assessment provide very limited insight into immunological therapeutic response rates. The advancement “omics” technologies including genomics, transcriptomics, proteomics,...
Abstract In this paper, we study the problem of selectivity estimation on set containment search. Given a query record Q and dataset $${\mathcal {S}}$$ <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"> <mml:mi>S</mml:mi> </mml:math> , aim to accurately efficiently estimate search over . We first extend existing distinct value estimating techniques solve develop an inverted list G-KMV sketch-based approach IL-GKMV analyze that performance degrades with increase in vocabulary size....