A5100421627- Cancer-related molecular mechanisms research
- Neuroinflammation and Neurodegeneration Mechanisms
- Genomics and Chromatin Dynamics
- Neurological Disease Mechanisms and Treatments
- RNA modifications and cancer
- Single-cell and spatial transcriptomics
- RNA Research and Splicing
- RNA and protein synthesis mechanisms
- Molecular Biology Techniques and Applications
- Protist diversity and phylogeny
- Chronic Obstructive Pulmonary Disease (COPD) Research
- Animal Genetics and Reproduction
- Epigenetics and DNA Methylation
- Immune cells in cancer
- Gene expression and cancer classification
- Genomics and Phylogenetic Studies
- Brain Tumor Detection and Classification
- Cancer Genomics and Diagnostics
- Bioinformatics and Genomic Networks
- Ferroptosis and cancer prognosis
- Ubiquitin and proteasome pathways
- Gene Regulatory Network Analysis
- Advanced Glycation End Products research
- Machine Learning in Bioinformatics
- Traditional Chinese Medicine Analysis
National Clinical Research Center for Digestive Diseases
2025
Peking University
2021-2025
Shandong University
2010-2024
Nanjing Institute of Technology
2024
The Ohio State University
2019-2024
Ministry of Agriculture and Rural Affairs
2024
Shandong Agricultural University
2024
Sir Run Run Shaw Hospital
2024
Zhejiang University
2024
Ningxia Medical University
2024
CD73 (5'-ectonucleotidase) is expressed by two distinct mouse CD4 T cell populations: CD25+ (FoxP3+) regulatory (Treg) cells that suppress proliferation but do not secrete IL-2, and CD25- uncommitted primed precursor Th (Thpp) IL-2 in standard Treg suppressor assays. on both Thpp converted extracellular 5'-AMP to adenosine. Adenosine suppressed cytokine secretion of Th1 Th2 effector cells, even when target were activated anti-CD3 anti-CD28. This represents an additional suppressive mechanism...
Traumatic spinal cord injury (SCI) triggers a neuro-inflammatory response dominated by tissue-resident microglia and monocyte derived macrophages (MDMs). Since activated MDMs are morphologically identical express similar phenotypic markers in vivo, identifying responses specifically coordinated has historically been challenging. Here, we pharmacologically depleted use anatomical, histopathological, tract tracing, bulk single cell RNA sequencing to reveal the cellular molecular SCI controlled...
Neuroinflammation is an important component mechanism in the development of depression. Exosomal transfer MDD-associated microRNAs (miRNAs) from neurons to microglia might exacerbate neuronal cell inflammatory injury.By sequence identification, we found significantly higher miR-9-5p expression levels serum exosomes MDD patients than healthy control (HC) subjects. Then, cultured model, observed that BV2 microglial cells internalized PC12 neuron cell-derived while successfully transferring...
Abstract Single-cell multi-omics (scMulti-omics) allows the quantification of multiple modalities simultaneously to capture intricacy complex molecular mechanisms and cellular heterogeneity. Existing tools cannot effectively infer active biological networks in diverse cell types response these external stimuli. Here we present DeepMAPS for network inference from scMulti-omics. It models scMulti-omics a heterogeneous graph learns relations among cells genes within both local global contexts...
Abstract Human middle temporal gyrus (MTG) is a vulnerable brain region in early Alzheimer’s disease (AD), but little known about the molecular mechanisms underlying this regional vulnerability. Here we utilize 10 × Visium platform to define spatial transcriptomic profile both AD and control (CT) MTG. We identify unique marker genes for cortical layers white matter, layer-specific differentially expressed (DEGs) human compared CT. Deconvolution of spots showcases significant difference...
Abstract Background Ischemic stroke is a serious cerebrovascular disease with high morbidity and disability. Zinc accumulation has been shown to play vital role in neuronal death blood–brain barrier damage following ischemia acute stage. However, almost nothing known about whether zinc involved neurological recovery ischemic prolonged period. This study investigates promotes through astrocytes‐induced angiogenesis during repair phase. Methods Sprague–Dawley rats were subjected 2 h...
The morphology of dendritic spines is highly correlated with the neuron function. Therefore, it positive influence for research spines. However, tried to manually label spine types statistical analysis. In this work, we proposed an approach based on combination wavelet contour analysis backbone detection, packet entropy, and fuzzy support vector machine classification. experiments show that promising. average detection accuracy "MushRoom" achieves 97.3%, "Stubby" 94.6%, "Thin" 97.2%.
Abstract The identification of transcription factor binding sites and cis-regulatory motifs is a frontier whereupon the rules governing protein–DNA are being revealed. Here, we developed new method (DEep Sequence Shape mOtif or DESSO) for motif prediction using deep neural networks binomial distribution model. DESSO outperformed existing tools, including DeepBind, in predicting 690 human ENCODE ChIP-sequencing datasets. Furthermore, deep-learning framework expanded discovery beyond...
Background: N6-methyladenosine (m6A), 5-methylcytosine (m5C) and N1-methyladenosine (m1A) are the main RNA methylation modifications involved in progression of cancer. However, it is still unclear whether m6A/m5C/m1A-related long non-coding RNAs (lncRNAs) affect prognosis head neck squamous cell carcinoma (HNSCC). Methods: We summarized 52 genes, downloaded 44 normal samples 501 HNSCC tumor with RNA-seq data clinical information from The Cancer Genome Atlas (TCGA) database, then searched for...
Radiotherapy is effective in reducing primary tumors, however, it may enhance macrophage infiltration to tumor sites, accelerating progression several ways. We investigated whether radiation can increase into non-small cell lung carcinoma (NSCLC) cells. Analysis of vitro (differentiated THP-1 cells) migration either nonirradiated or irradiated cells showed increased the Because IL-6 levels A549 and H157 were significantly after irradiation, we then this level contributes radiation-induced...
Human bladder cancer (BC) is the fourth most common in United States. Investigation of strategies aiming to elucidate tumor growth and metastatic pathways BC critical for management this disease. Here we found that ATG7 expression was remarkably elevated human urothelial carcinoma N-butyl-N-(4-hydroxybutyl)nitrosamine (BBN)-induced mouse invasive BC. Knockdown resulted a significant inhibitory effect on tumorigenic cells both vitro vivo by promoting p27 inducing cell cycle arrest at G2/M...
There is currently a lack of efficacious treatments for patients with chemo-resistant small-cell lung cancer (SCLC), leading to poor prognoses. We examined SCLC cell line using genome-wide CRISPR/Cas9 screening and identified serine/threonine kinase division cycle 7 (CDC7) as potential synergistic target. Silencing CDC7 in cells decreased the IC50 improved efficacy chemotherapy. Based on highest single agent model, inhibitor XL413 had effect both cisplatin etoposide cells, but no such...
Abstract Deciphering the intricate relationships between transcription factors (TFs), enhancers, and genes through inference of enhancer-driven gene regulatory networks (eGRNs) is crucial in understanding programs a complex biological system. This study introduces STREAM, novel method that leverages Steiner forest problem model, hybrid biclustering pipeline, submodular optimization to infer eGRNs from jointly profiled single-cell transcriptome chromatin accessibility data. Compared existing...
In this study, we introduce TESA (weighted two-stage alignment), an innovative motif prediction tool that refines the identification of DNA-binding protein motifs, essential for deciphering transcriptional regulatory mechanisms. Unlike traditional algorithms rely solely on sequence data, integrates high-resolution chromatin immunoprecipitation (ChIP) signal, specifically from ChIP-exonuclease (ChIP-exo), by assigning weights to positions, thereby enhancing discovery. employs a nuanced...
Objective Clinical reports have shown that adjuvant chemotherapy has a negative impact on perceived cognitive impairment (PCI) of patients with breast cancer; however, evidence concerning the effects psychological factors such as post-traumatic stress disorder (PTSD) symptoms PCI is limited, especially in relation to Chinese cancer. This research investigated associations between and women Methods In total, 204 cancer were assessed for PCI, PTSD symptoms, fatigue, anxiety, depression using...
Data selection methods, such as active learning and core-set selection, are useful tools for improving the data efficiency of deep models on large-scale datasets. However, recent have moved forward from independent identically distributed to graph-structured data, social networks, e-commerce user-item graphs, knowledge graphs. This evolution has led emergence Graph Neural Networks (GNNs) that go beyond existing methods designed for. Therefore, we present GRAIN, an efficient framework opens...
Abstract The classical complement cascade mediates synapse elimination in the visual thalamus during early brain development. However, whether primary cortex also undergoes complement‐mediated system development remains unknown. Here, we examined microglia‐mediated and of postnatal C1q SRPX2 knockout mice. In lateral geniculate nucleus, deletion caused a persistent decrease microglial engulfment, while transient increase same readouts. C1q‐SRPX2 double mice, phenotypes were dominant over...
Gene expression imputation has been an essential step of the single-cell RNA-Seq data analysis workflow. Among several deep-learning methods, debut scGNN gained substantial recognition in 2021 for its superior performance and ability to produce a cell-cell graph. However, implementation was relatively time-consuming could still be optimized.
Novel nitric oxide (NO) releasing derivatives (7a–7l) of 3-n-butylphthalide (NBP) were designed and synthesized. Compound 7e inhibited the adenosine diphosphate (ADP), thrombin (TH) arachidonic acid (AA)-induced in vitroplatelet aggregation, superior to NBP aspirin, released moderate levels NO, improved aqueous solubility relative NBP. Furthermore, exhibited greater antithrombotic activity than aspirin rats, protected against collagen adrenaline-induced thrombosis mice. Therefore,...