A5077679037- Epigenetics and DNA Methylation
- Cancer Genomics and Diagnostics
- Genomics and Chromatin Dynamics
- RNA modifications and cancer
- Molecular Biology Techniques and Applications
- Cancer Cells and Metastasis
- Wnt/β-catenin signaling in development and cancer
- Endoplasmic Reticulum Stress and Disease
- Genetic factors in colorectal cancer
- Cervical and Thoracic Myelopathy
- Cancer-related Molecular Pathways
- Genetic Syndromes and Imprinting
- Cancer-related molecular mechanisms research
- Ovarian cancer diagnosis and treatment
- Pancreatic function and diabetes
- Proteoglycans and glycosaminoglycans research
- Synthesis and bioactivity of alkaloids
- FOXO transcription factor regulation
- Autophagy in Disease and Therapy
- Berberine and alkaloids research
- MicroRNA in disease regulation
- Cell death mechanisms and regulation
- Circular RNAs in diseases
- Spine and Intervertebral Disc Pathology
- Cholangiocarcinoma and Gallbladder Cancer Studies
Northwestern University
2024-2025
Cincinnati Children's Hospital Medical Center
2022-2024
Dalian Medical University
2016-2024
Nanjing Agricultural University
2013
Non-small cell lung cancer (NSCLC) is the most common type of with a poor prognosis. We previously found that protein disulfide isomerase family 6 (PDIA6) upregulated in squamous carcinoma (LSCC). This study aimed to elucidate clinical relevance, biological functions, and molecular mechanisms PDIA6 NSCLC. The expression NSCLC was assessed using TCGA database, western blotting, immunohistochemistry. Correlations clinicopathological survival features were evaluated. functions regulating...
Abstract Analysis of DNA methylation in cell-free reveals clinically relevant biomarkers but requires specialized protocols such as whole-genome bisulfite sequencing. Meanwhile, millions samples are being profiled by Here, we develop FinaleMe, a non-homogeneous Hidden Markov Model, to predict and, therefore, tissues-of-origin, directly from plasma We validate the performance with 80 pairs deep and shallow-coverage sequencing data.
Our previous study demonstrated that aldolase A (ALDOA) is overexpressed in clinical human lung squamous cell carcinoma and ALDOA promotes epithelial-mesenchymal transition tumorigenesis. The present aimed to explore the function of modulation non-small cancer (NSCLC) proliferation cycle progression potential mechanism.ALDOA was knocked down by short hairpin RNA H520 H1299 cells. with vectors carrying full-length sequence H157 capacities were assessed immunohistochemical staining, Cell...
Bronchopulmonary dysplasia (BPD) is a chronic lung disease in premature infants with no curative therapy, characterized by impaired alveologenesis and capillary formation. However, the molecular mechanisms underlying endothelial dysfunction, key driver of BPD pathogenesis human, remain poorly understood. Here, through multiomic profiling vascular cells isolated from control patient lungs, we uncovered an expansion general (gCap) aberrant expression neurotrophic receptor tyrosine kinase 2...
Abstract The fine-scale cell-free DNA fragmentation patterns in early-stage cancers are poorly understood. We developed a de novo approach to characterize the hotspots from plasma whole-genome sequencing. Hotspots enriched open chromatin regions, and, interestingly, 3′end of transposons. showed global hypo-fragmentation liver and associated with genes involved initiation hepatocellular carcinoma cancer stem cells. varied across multiple demonstrated high performance for diagnosis...
Abstract In multiple sclerosis (MS), there is a critical need for non-invasive biomarkers to concurrently classify disease subtypes, evaluate disability severity, and predict long-term progression. this proof-of-concept study, we performed low-coverage whole-genome bisulfite sequencing (WGBS) on 75 plasma cell-free DNA (cfDNA) samples assessed the clinical utility of cfDNA methylation as single assay distinguishing MS patients from non-MS controls, identifying estimating predicting...
Abstract Epigenetic regulation, including the three-dimensional (3D) architecture of genome, plays a critical role in gene expression and cellular function. Aberrations chromatin organization are implicated various diseases, particularly cancer. While Hi-C is gold standard for mapping chromosomal conformations, it has significant limitations: requires fixed cells, limiting its capacity longitudinal monitoring dynamic changes. Cell-free DNA (cfDNA), which consists short fragments released...
Abstract Epigenetic marks, including DNA methylation, chromatin accessibility, and three-dimensional (3D) genome organization, play instrumental roles in gene regulation mammals. Gene activation or repression potential, however, cannot be entirely predicted by looking at a single modality. Accurate predictive models require multiple modalities simultaneously. We previously developed single-cell Methyl-HiC technology to jointly profile methylation 3D from the same cells. Further, we...
Protein disulfide isomerase family 6 (PDIA6) belongs to the protein (PDI) family, which function as isomerases and molecular chaperones. PDIA6 has recently been shown promote proliferation growth of various types human cancer cells; however underlying mechanism remains elusive. Here, we report that enhances HeLa cells through activation Wnt/β-catenin signaling pathway. Ectopic overexpression in led increased cell accompanied with accelerated cycle progression. Further mechanistic...
Abstract Cis-regulatory elements are coordinated to regulate the expression of their targeted genes. However, joint measurement cis-regulatory elements’ activities and interactions in spatial proximity is limited by current sequencing approaches. We describe a method, NOMe-HiC, which simultaneously captures single-nucleotide polymorphisms, DNA methylation, chromatin accessibility (GpC methyltransferase footprints), chromosome conformation changes from same molecule, together with...
We investigated the effects of follicle-stimulating hormone (FSH) on atresia dominant follicle and changes in relevant apoptosis genes granulosa cells follicles regulated by FSH vivo.Four-week-old mice were administered intraperitoneal injection to induce follicular maturation.Granulosa collected at 48, 72, 96 h after first injection.Phosphate-buffered saline was injected as a control.The mRNA levels cell examined real-time quantitative polymerase chain reaction, ovarian determined terminal...
Sinomenine (SIN), an isoquinoline isolated from the Chinese medicinal plant<italic>Sinomenium acutum</italic>, is well known for its curative effect on rheumatic and arthritic diseases.
Background and Objective: Metastasis is the leading cause of death in patients with advanced non-small cell lung cancer (NSCLC), epithelial-mesenchymal transition (EMT) a crucial event metastasis NSCLC.Our previous works demonstrated that NgBR promoted EMT NSCLC.However, molecular mechanism was unclear.Methods: TGF-β1 used to induce process NSCLC cells.The biological functions promoting TGF-β1-induced were studied by gain-and loss-of-function assays both vitro vivo.The underlying mechanisms...
Abstract Non-random cell-free DNA fragmentation is a promising signature for cancer diagnosis. However, its aberration at the fine-scale in early-stage cancers poorly understood. Here, we developed an approach to de novo characterize hotspots from whole-genome sequencing. In healthy, are enriched gene-regulatory elements, including open chromatin regions, promoters, hematopoietic-specific enhancers, and, interestingly, 3’end of transposons. Hotspots identified hepatocellular carcinoma...
Analysis of DNA methylation in cell-free (cfDNA) reveals clinically relevant biomarkers but requires specialized protocols and sufficient input material that limits its applicability. Millions cfDNA samples have been profiled by genomic sequencing. To maximize the gene regulation information from existing dataset, we developed FinaleMe, a non-homogeneous Hidden Markov Model (HMM), to predict and, therefore, tissues-of-origin directly plasma whole-genome sequencing (WGS). We validated...
// Huijun Gao 1 , * Bing Sun 2 Hailu Fu Xinming Chi Faming Wang Xiaoyu Qi Jun Hu and Shujuan Shao 3 Department of Histology Embryology, Dalian Medical University, Dalian, China Thoracic Surgery, The First Hospital Key Laboratory Proteomics, These authors have contributed equally to this work Correspondence to: Hu, email: hjshouyang@163.com Shao, shaoshujuan2006@126.com Keywords: Received: RECEIVED_DATE Accepted: ACCEPTED_DATE Published: March 14, 2024 Copyright: © et al. This is an open...
Objective: To compare the clinical efficacy of unilateral biportal endoscopy laminotomy for bilateral decompression (UBE-ULBD) to posterior lumbar interbody fusion (PLIF) in treatment severe spinal stenosis (SLSS). Methods: The data 64 patients with SLSS treated PLIF and UBE-ULBD Dalian Central Hospital Affiliated Medical University from April 2018 2021 were collected divided into UBE group according different surgical procedures. There 30 cases group, including 12 males 18 females, aged...
Abstract Cis-regulatory elements coordinate the regulation of their targeted genes’ expression. However, joint measurement cis-regulatory elements’ activities and interactions in spatial proximity is limited by current sequencing approaches. We describe a method, NOMe-HiC, which simultaneously captures single nucleotide polymorphisms, DNA methylation, chromatin accessibility (GpC methyltransferase footprints), chromosome conformation changes from same molecule, together with transcriptome,...
Abstract Cis-regulatory elements (CREs) play instrumental roles in the regulation of mammalian gene expression. Sets transcriptional factors bring together multiple CREs, which can be up to megabases away, initiate and maintain How measure activity CREs their coordination with genetic variants over large genomic distances regulate expression is central question for regulatory genomics, still limited by current sequencing approaches. We report a method, TAGMe-seq, simultaneously captures...