A5100433702- Circular RNAs in diseases
- MicroRNA in disease regulation
- Cancer-related molecular mechanisms research
- RNA modifications and cancer
- RNA Research and Splicing
- RNA and protein synthesis mechanisms
- Seismic Waves and Analysis
- Genomics and Chromatin Dynamics
- Seismic Imaging and Inversion Techniques
- Genomics and Phylogenetic Studies
- Extracellular vesicles in disease
- Advancements in Battery Materials
- Cancer-related gene regulation
- Epigenetics and DNA Methylation
- RNA regulation and disease
- Viral Infections and Vectors
- Corrosion Behavior and Inhibition
- Plant-Microbe Interactions and Immunity
- interferon and immune responses
- Drilling and Well Engineering
- Viral Infections and Immunology Research
- Nonlinear Optical Materials Research
- Viral Infectious Diseases and Gene Expression in Insects
- earthquake and tectonic studies
- Ferroptosis and cancer prognosis
First Affiliated Hospital of Soochow University
2020-2025
Nanjing University
2025
Tumor Hospital of Xinjiang Medical University
2025
University of Michigan
2025
Soochow University
2020-2025
Southern Medical University
2025
Nanfang Hospital
2025
Shanghai Jiao Tong University
2019-2025
Xinjiang Medical University
2025
Ruijin Hospital
2025
Abstract We present a new de novo transcriptome assembler, Bridger, which takes advantage of techniques employed in Cufflinks to overcome limitations the existing assemblers. When tested on dog, human, and mouse RNA-seq data, Bridger assembled more full-length reference transcripts while reporting considerably fewer candidate transcripts, hence greatly reducing false positive comparison with state-of-the-art It runs substantially faster requires much less memory space than most More...
Circular RNAs (circRNAs) are emerging as a new class of endogenous and regulatory noncoding in latest years. With the widespread application RNA sequencing (RNA-seq) technology bioinformatics prediction, large numbers circRNAs have been identified. However, at present, we lack comprehensive characterization all these interested samples. In this study, integrated 87 935 sequences that cover most identified till now represented circBase to design microarray probes targeting back-splice site...
Rational: Ischemic injury of the skeletal muscle remains a serious clinical problem and currently there is no effective therapy. The aim present study to determine whether human umbilical cord mesenchymal stem cells- derived exosomes (UMSC-Exo) could repair ischemic by releasing circular RNA. Methods Results: To create hindlimb ischemia, we surgically ligated left femoral artery in C57BL/6 mice. Using circRNA-seq analyses total RNA from control muscles, found reduced expression circHIPK3...
Laryngeal squamous cell carcinoma (LSCC) is the second most common malignant tumor in head and neck. Autophagy circular RNAs (circRNAs) play critical roles cancer progression chemoresistance. However, function mechanism of circRNA autophagy regulation LSCC remain unclear. The autophagy-suppressive circPARD3 was identified via RNA sequencing 107 tissues paired adjacent normal mucosal (ANM) high-content screening. RT-PCR, Sanger sequencing, qPCR fluorescence situ hybridization were performed...
Significance We found that BRD4 interacts with the LSD1/NuRD complex and colocalizes this repressive on super-enhancers decommissioning BRD4-directed super-enhancer organization of transcription repression programs inflicts widespread drug resistance in breast cancer. The study uncovers a functional duality activation linking to oncogenesis chemoresistance, respectively, supporting pursuit combined targeting PELI1 effective treatment
The transcription factor GATA1 regulates an extensive program of gene activation and repression during erythroid development. However, the associated mechanisms, including contributions distal versus proximal cis -regulatory modules, co-occupancy with other factors, effects histone modifications, are poorly understood. We studied these problems genome-wide in a Gata1 knockout erythroblast cell line that undergoes GATA1-dependent terminal maturation, identifying 2616 GATA1-responsive genes...
Circular RNAs (circRNAs) are a novel class of noncoding that play an important role in cancer. However, the mechanisms by which circRNAs regulate gene expression pancreatic ductal adenocarcinoma (PDAC) remain unclear. This study seeks to elucidate proliferation PDAC cells. On basis previous studies circRNA profiles PDAC, we found circRNA_100782 was markedly upregulated tissue. Functional experiments revealed down-regulation inhibited BxPC3 cell and colony formation. Loss-of-function showed...
Abstract Background Laryngeal squamous cell carcinoma (LSCC) is a common malignant tumor of the head and neck. LSCC patients have seriously impaired vocal, respiratory, swallowing functions with poor prognosis. Circular RNA (circRNA) has attracted great attention in cancer research. However, expression patterns roles circRNAs remain largely unknown. Methods sequencing was performed on 57 pairs matched adjacent normal mucosa tissues to construct circRNA, miRNA, mRNA profiles. RT-PCR, qPCR,...
Objective: The present study aimed to explore the association between NFIX circular RNA (circNFIX) and miR-34a-5p in glioma. Furthermore, this investigated influence that circNFIX has on glioma progression through upregulation of NOTCH1 via Notch signaling pathway by sponging miR-34a-5p. Methods: We applied five methods, CIRCexplorer2, circRNA-finder, CIRI, find-circ MapSplice2, screen for circRNAs with differential expression three tissue samples paired normal samples. GSEA software was...
A growing body of evidence has suggested that circular RNAs (circRNAs) are crucial for the regulation gene expression and their dysregulation is implicated in several diseases.However, function circRNAs obesity remains largely unexplored.Methods: Global changes circRNA patterns were detected adipose tissues derived from obese lean individuals.In particular, circSAMD4A was identified as significantly differentially upregulated functionally analyzed, both vitro vivo, using various...
SARS-CoV-2 is a major threat to global health. Here, we investigate the RNA structure and RNA-RNA interactions of wildtype (WT) mutant (Δ382) in cells using Illumina Nanopore platforms. We identify twelve potentially functional structural elements within genome, observe that subgenomic RNAs can form different structures, WT Δ382 virus genomes fold differently. Proximity ligation sequencing hundreds genome between host RNAs. binds strongly mitochondrial small nucleolar extensively...
Rational: Senescence is a major aging process that contributes to the development of cardiovascular diseases, but underlying molecular mechanisms remain largely unknown.One reason due lack suitable animal models.We aimed generate cardiomyocyte (CM)-specific senescent model, uncover mechanisms, and develop new therapies for associated cardiac dysfunction. Methods:The gain/loss circHIPK3 approach was used explore role in (CM) senescence.To investigate function senescence, we generated...
Abstract Background Our previous study has identified a novel circRNA (circDIDO1) that is down-regulated in gastric cancer (GC) and significantly inhibits GC progression. The purpose of this to identify the molecular mechanism for circDIDO1 evaluate therapeutic effect GC. Methods By combining bioinformatic analysis with RNA sequencing data, we predicted potential target further validated regulatory mechanisms its tumor suppressor function RIP assay, luciferase reporter assay vitro cell...
Abstract RNA structure is critical for multiple steps in gene regulation. However, how the structures of transcripts differ both within and between individual cells unknown. Here we develop a SHAPE-inspired method called single-cell probing that enables simultaneous determination transcript secondary abundance at resolution. We apply to human embryonic stem differentiating neurons. Remarkably, more homogeneous compared with neurons, greatest homogeneity found coding regions. More extensive...
Abstract Drought stress significantly impacts global rice production, highlighting the critical need to understand genetic basis of drought resistance in rice. Here, through a genome-wide association study, we reveal that natural variations DROUGHT RESISTANCE GENE 9 ( DRG9 ), encoding double-stranded RNA (dsRNA) binding protein, contribute resistance. Under stress, condenses into granules (SGs) liquid-liquid phase separation via crucial α-helix. recruits mRNAs OsNCED4 , key gene for...
A low-temperature ionic liquid reduction system is used to prepare Si nanospheres, which display excellent lithium storage properties with an initial Coulombic efficiency of 82.9% and capacity retention 94.2% after 100 cycles at 0.5 g −1 .
Temperature stress is a major environmental factor affecting not only plant growth and development, but also fruit postharvest life quality. MicroRNAs (miRNAs) are class of non-coding small RNAs that play important roles in various biological processes. Harvested banana can exhibit distinct symptoms response to different temperature stresses, the underlying miRNA-mediated regulatory mechanisms remained unknown. Here, we profiled temperature-responsive miRNAs banana, using deep sequencing...
Autopolyploidy is widespread in higher plants and important for agricultural yield quality. However, the effects of genome duplication on chromatin organization transcriptional regulation are largely unknown plants. Using High-throughput Chromosome Conformation Capture (Hi-C), we showed that autotetraploid Arabidopsis presented more inter-chromosomal interactions fewer short-range compared with its diploid progenitor. In addition, contributed to switching some loose compact structure domains...