keyword
https://read.qxmd.com/read/38528365/methylation-of-microrna-genes-and-its-effect-on-secondary-xylem-development-of-stem-in-poplar
#21
JOURNAL ARTICLE
Ruiqi Wang, Meixuan Wu, Xiao Zhang, Tingbo Jiang, Zhigang Wei
MicroRNAs (miRNAs) and DNA methylation are both vital regulators of gene expression. DNA methylation can affect the transcription of miRNAs, just like coding genes, through methylating the CpG islands in the gene regions of miRNAs. Although previous studies have shown that DNA methylation and miRNAs can each be involved in the process of wood formation, the relationship between the two has been relatively little studied in plant wood formation. Studies have shown that the second internode (IN2) (from top to bottom) of 3-month-old poplar trees can represent the primary stage of poplar stem development and IN8 can represent the secondary stage...
March 25, 2024: Plant Genome
https://read.qxmd.com/read/38527761/unveiling-the-regulatory-role-of-mirnas-in-internode-elongation-integrated-analysis-of-microrna-and-mrna-expression-profiles-across-diverse-dwarfing-treatments-in-maize-zea-mays-l
#22
JOURNAL ARTICLE
Chuanxi Peng, Haidong Xu, Shipeng Xie, Xingyu Zhong, Limei Chen, Yan He, Zhaohu Li, Yuyi Zhou, Liusheng Duan
MicroRNAs are crucial regulators of gene expression in maize. However, the mechanisms through which miRNAs control internode elongation remain poorly understood. This study engineered varying levels of internode elongation inhibition, revealing that dwarfing treatments diminished gibberellin levels, curtailed cell longitudinal growth, and slowed the rate of internode elongation. Comprehensive transcriptome and miRNA profiling of the internode elongation zone showed gene expression changes that paralleled the extent of the internode length reduction...
March 25, 2024: Journal of Agricultural and Food Chemistry
https://read.qxmd.com/read/38527674/identification-and-preliminary-validation-of-differently-expressed-genes-as-candidate-biomarkers-associated-with-atherosclerosis
#23
JOURNAL ARTICLE
Liqin Zhou, Liping Zhou, Qiliang Chen, Congying Chen, Yuanyuan Qian, Dayong Lou, Huanjie Ma, Suying Wang
OBJECTIVE: Atherosclerosis (AS) is the primary cause of deadly cardio-cerebro vascular diseases globally. This study aims to explore the key differentially expressed genes (DEGs), potentially serving as predictive biomarkers for AS. METHODS: Microarray datasets were retrieved from the GEO database for DEGs and DE-miRNAs identification. Then biological function of DEGs were elucidated based on gene ontology (GO) and KEGG pathway enrichment analysis. The protein-protein interaction (PPI) network and DEGs-DE-miRNAs network were constructed, with emphasis on hub DEGs selection and their interconnections...
March 23, 2024: Gene
https://read.qxmd.com/read/38526324/identification-and-validation-of-dhcr7-as-a-diagnostic-biomarker-involved-in-the-proliferation-and-mitochondrial-function-of-breast-cancer
#24
JOURNAL ARTICLE
Yanfeng Wang, Jiaxin Fan, Yongcheng Liu, Jie Du, Boyu Liang, Huxia Wang, Zhangjun Song
BACKGROUND: Energy metabolism has a complex intersection with pathogenesis and development of breast cancer (BC). This allows for the possibility of identifying energy-metabolism-related genes (EMRGs) as novel prognostic biomarkers for BC. 7-dehydrocholesterol reductase (DHCR7) is a key enzyme of cholesterol biosynthesis involved in many cancers, and in this paper, we investigate the effects of DHCR7 on the proliferation and mitochondrial function of BC. METHODS: EMRGs were identified from the Gene Expression Omnibus (GEO) and MSigDB databases using bioinformatics methods...
March 22, 2024: Aging
https://read.qxmd.com/read/38525874/dual-encoded-affinity-microbead-signature-combinatorial-profiling-for-acute-myocardial-infarction-high-sensitivity-diagnosis
#25
JOURNAL ARTICLE
Luxuan He, Jiacheng Wu, Zhun Lin, Yuanqing Zhang, Peiqing Liu
The early diagnosis of acute myocardial infarction (AMI) is dependent on the combined feedback of multiple cardiac biomarkers. However, it remains challenging to precisely detect multicardiac biomarkers in complex blood early due to the lack of sensitive and specific diagnostic indicators and the low abundance and small size of associated biomarkers with high specificity (such as microRNAs). To make matters worse, spectral overlap significantly limits the multiplex analysis of cardiac biomarkers by fluorescent probes, leading to bias in the diagnosis of myocardial infarction...
March 25, 2024: ACS Sensors
https://read.qxmd.com/read/38525814/withaferin-a-alters-the-expression-of-micrornas-146a-5p-and-34a-5p-and-associated-hub-genes-in-mda-mb-231-cells
#26
JOURNAL ARTICLE
Mohd Shuaib, Smriti Chaudhri, Shashank Kumar
Triple-negative breast cancer (TNBC) is a highly metastatic subtype of breast cancer. Due to the absence of obvious therapeutic targets, microRNAs (miRNAs) provide possible hope to treat TNBC. Withaferin A (WA), a steroidal lactone, possesses potential anticancer activity with lesser side effects. The present study identifies hub genes ( CDKN3 , TRAF6 , CCND1 , JAK1 , MET , AXIN2 , JAG1 , VEGFA , BRCA1 , E2F3 , WNT1 , CDK6 , KRAS , MYB , MYCN , TGFβR2 , NOTCH1 , SIRT1 , MYCN , NOTCH2 , WNT3A ) from the list of predicted targets of the differentially expressed miRNAs (DEMs) in WA-treated MDA-MB-231 cells using in silico protein-protein interaction network analysis...
January 1, 2024: Biomolecular Concepts
https://read.qxmd.com/read/38524234/circulating-mir-129-3p-in-combination-with-clinical-factors-predicts-vascular-calcification-in-hemodialysis-patients
#27
JOURNAL ARTICLE
Jingjing Jin, Meijuan Cheng, Xueying Wu, Haixia Zhang, Dongxue Zhang, Xiangnan Liang, Yuetong Qian, Liping Guo, Shenglei Zhang, Yaling Bai, Jinsheng Xu
BACKGROUND: Vascular calcification (VC) commonly occurs and seriously increases the risk of cardiovascular events and mortality in patients with hemodialysis. For optimizing individual management, we will develop a diagnostic multivariable prediction model for evaluating the probability of VC. METHODS: The study was conducted in four steps. First, identification of miRNAs regulating osteogenic differentiation of vascular smooth muscle cells (VSMCs) in calcified condition...
March 2024: Clinical Kidney Journal
https://read.qxmd.com/read/38524085/unraveling-the-molecular-complexity-of-adenoid-cystic-carcinoma-acc-a-comprehensive-exploration-of-hub-genes-protein-protein-interaction-ppi-networks-microrna-mirna-involvement-and-drug-gene-interactions-dgis
#28
JOURNAL ARTICLE
Roja L Karri, Manasa Bojji, Amrutha Rudraraju, Abdul Sadik Mohammad, Vamseedhar Kosuru, Sandeep Kalisipudi
Background Adenoid cystic carcinoma (ACC) poses clinical challenges with its unique histology and potential for perineural invasion, recurrence, and distant metastases. Recent genomic advancements have unveiled key genetic alterations in ACC, offering insights into its pathogenesis. Aim This study aims to unravel the intricate molecular landscape of ACC through a comprehensive analysis of gene expression patterns. By integrating data from multiple microarray datasets, the study explores differentially expressed genes (DEGs), their functional enrichment, protein-protein interactions (PPI), hub genes, microRNA (miRNA) involvement, transcription factors, and potential drug-gene interactions...
February 2024: Curēus
https://read.qxmd.com/read/38524071/the-relationship-of-grade-stage-and-tobacco-usage-in-head-and-neck-squamous-cell-carcinoma-with-p53-pik3ca-and-microrna-profiles
#29
JOURNAL ARTICLE
Kamini Kiran, Nilotpal Chowdhury, Ashok Singh, Manu Malhotra, Sanjeev Kishore
BACKGROUND:  Head and neck squamous cell carcinoma (HNSCC) has multiple epigenetic modifications including post-transcriptional regulation by microRNAs (miRNAs) as well as alterations in molecular pathways due to mutations. Examining these miRNAs and location-specific molecular alterations is essential to understanding the intricacies of HNSCC and directing focused diagnoses and treatments. AIM:  To investigate tobacco-related changes in the expression of miRNAs and proteins with clinicopathological parameters of HNSCC and disease-modifying personal habits like tobacco and alcohol use...
February 2024: Curēus
https://read.qxmd.com/read/38523597/circitga7-regulates-malignant-phenotypes-in-bladder-cancer-cells-via-targeting-mir-330-3p-klf10-axis
#30
JOURNAL ARTICLE
Xian-Xu Yang, Chao Wang
Bladder cancer (BCa) is one of the common malignancies. Circular RNAs (circRNAs) play regulatory roles in cancer progression. CircITGA7 is a circRNA generated from several exons of ITGA7. The potential role of circITGA7 in BCa remains unknown and needs to be explored. Quantitative real time polymerase chain reaction (qRT-PCR) was used to assess circITGA7 and miR-330-3p expression in BCa tissues and cell lines. Kaplan-Meier analysis was used to evaluate the overall survival of these BCa patients. The biological function of circITGA7 was examined by overexpression of circITGA7 using CCK-8, EdU, wound-healing, and Transwell assays...
March 25, 2024: Kaohsiung Journal of Medical Sciences
https://read.qxmd.com/read/38523407/high-expression-of-actl6a-leads-to-poor-prognosis-of-oral-squamous-cell-carcinoma-patients-through-promoting-malignant-progression
#31
JOURNAL ARTICLE
Yi Liu, Yisha Liu, Ying Li, Tong Wang, Bolong Li, Xianchen Kong, Changyi Li
OBJECTIVE: The aim was to research ACTL6A's role in oral squamous cell carcinoma (OSCC). METHODS: OSCC and normal samples were obtained from patients and public databases. GSEA was performed. CIBERSORT was utilized to analyze immune landscape. Kaplan-Meier survival analysis and multivariate Cox regression analysis were conducted. After knocking down ACTL6A, we performed MTT assay, transwell assays, and flow cytometry to detect the impact of knockdown. RESULTS: ACTL6A expressed higher in OSCC samples than normal samples...
March 24, 2024: Head & Neck
https://read.qxmd.com/read/38521953/tumor-derived-mir-6794-5p-enhances-cancer-growth-by-promoting-m2-macrophage-polarization
#32
JOURNAL ARTICLE
Jae Yeon Choi, Hyun Jeong Seok, Dong Hyeon Lee, Eunju Lee, Tae-Jin Kim, Sangwoo Bae, Incheol Shin, In Hwa Bae
BACKGROUND: Solid tumors promote tumor malignancy through interaction with the tumor microenvironment, resulting in difficulties in tumor treatment. Therefore, it is necessary to understand the communication between cells in the tumor and the surrounding microenvironment. Our previous study revealed the cancer malignancy mechanism of Bcl-w overexpressed in solid tumors, but no study was conducted on its relationship with immune cells in the tumor microenvironment. In this study, we sought to discover key factors in exosomes secreted from tumors overexpressing Bcl-w and analyze the interaction with the surrounding tumor microenvironment to identify the causes of tumor malignancy...
March 23, 2024: Cell Communication and Signaling: CCS
https://read.qxmd.com/read/38519735/identification-of-anoikis-related-genes-in-spinal-cord-injury-bioinformatics-and-experimental-validation
#33
JOURNAL ARTICLE
Wen Yin, Zhipeng Jiang, Youwei Guo, Yudong Cao, Zhaoping Wu, Yi Zhou, Quan Chen, Weidong Liu, Xingjun Jiang, Caiping Ren
Spinal cord injury (SCI) is a serious disease without effective therapeutic strategies. To identify the potential treatments for SCI, it is extremely important to explore the underlying mechanism. Current studies demonstrate that anoikis might play an important role in SCI. In this study, we aimed to identify the key anoikis-related genes (ARGs) providing therapeutic targets for SCI. The mRNA expression matrix of GSE45006 was downloaded from the Gene Expression Omnibus (GEO) database, and the ARGs were downloaded from the Molecular Signatures Database (MSigDB database)...
March 23, 2024: Molecular Neurobiology
https://read.qxmd.com/read/38517989/the-role-of-epstein-barr-virus-ebv-infected-gastric-cancer-in-increasing-microrna124-mir-124-promoter-methylation-and-enhancer-of-zeste-homolog-2-ezh2-gene-expression
#34
JOURNAL ARTICLE
Zohreh-Al-Sadat Ghoreshi, Mohammad Rezaei Zadeh Rukerd, Hedyeh Askarpour, Ali Asghar Kheirkhah Vakilabad, Mohsen Nakhaie, Mohammad Javad Abbaszadeh Afshar, Emad Behboudi, Javad Charostad, Nasir Arefinia
The tumor suppressor microRNAs, miR-21, miR-124, and miR-494, participate in the controlling several cellular processes. To assess target miRNAs promoter methylation levels, we investigated 304 pairs of gastric cancer (GC) tissues and non-tumor tissues. We used a commercial real-time polymerase chain reaction (RT-PCR) for Epstein-Barr virus (EBV) and Helicobacter pylori kit to detect EBV and H. pylori DNA in GC tissues. After finding hypermethylation in the promoter of the miR-124 gene, we evaluated its expression level using quantitative PCR (qPCR)...
March 22, 2024: Medicine (Baltimore)
https://read.qxmd.com/read/38517478/long-non-coding-rnafoxd1-as1-modulated-ctcs-epithelial-mesenchymal-transition-and-immune-escape-in-hepatocellular-carcinoma-in-vitro-by-sponging-mir-615-3p
#35
JOURNAL ARTICLE
Bao-Ling Guo, Qiu-Xiang Zheng, Yun-Shan Jiang, Ying Zhan, Wen-Jin Huang, Zhi-Yong Chen
BACKGROUND: Hepatocellular carcinoma (HCC) is widely recognized as a globally prevalent malignancy. Immunotherapy is a promising therapy for HCC patients. Increasing evidence suggests that lncRNAs are involved in HCC progression and immunotherapy. AIM: The study reveals the mechanistic role of long non-coding RNA (lncRNA) FOXD1-AS1 in regulating migration, invasion, circulating tumor cells (CTCs), epithelial-mesenchymal transition (EMT), and immune escape in HCC in vitro...
March 2024: Cancer reports
https://read.qxmd.com/read/38517158/excessive-fatty-acids-activate-prmt5-mdm2-drosha-pathway-to-regulate-mirna-biogenesis-and-lipid-metabolism
#36
JOURNAL ARTICLE
Aijun Hou, Xiaoding Xu, Yu Zhang, Hongxiu He, Yihan Feng, Wenhui Fan, Rongrong Tan, Likun Gong, Jing Chen
BACKGROUND: Excessive fatty acids in the liver lead to the accumulation of lipotoxic lipids and then cellular stress to further evoke the related disease, like non-alcoholic fatty liver disease (NAFLD). As reported, fatty acid stimulation can cause some specific miRNA dysregulation, which caused us to investigate the relationship between miRNA biogenesis and fatty acid overload. METHODS: Gene expression omnibus (GEO) dataset analysis, miRNA-seq, miRNA cleavage assay, RT-qPCR, western blotting, immunofluorescence and co-immunoprecipitation (co-IP) were used to reveal the change of miRNAs under pathological status and explore the relevant mechanism...
March 22, 2024: Liver International: Official Journal of the International Association for the Study of the Liver
https://read.qxmd.com/read/38516278/data-on-microrna-expression-predicted-gene-targets-and-pathway-analysis-in-response-to-different-concentrations-of-a-cranberry-proanthocyanidin-rich-extract-and-its-metabolite-3-4-hydroxyphenyl-propionic-acid-in-intestinal-caco-2bbe1-cells
#37
JOURNAL ARTICLE
Zoe Dimoff, Zoe Lofft, Fred Liang, Siying Chen, Paraskevi Massara, Diana Wu, Inke Paetau-Robinson, Christina Khoo, Amel Taibi, Elena M Comelli
Cranberry-derived proanthocyanidin (PAC) is processed by the gut microbiota to produce 3-(4-hydroxyphenyl)-propionic acid (HPPA), among other metabolites. These data are in support of the article entitled, "Cranberry proanthocyanidin and its microbial metabolite 3,4-dihydroxyphenylacetic acid, but not 3-(4-hydroxyphenyl)-propionic acid, partially reverse pro-inflammatory microRNA responses in human intestinal epithelial cells," published in Molecular Nutrition and Food Research [1]. Here we describe data generated by nCounterⓇ Human v3 miRNA Expression Panel of RNA obtained from Caco-2BBe1 cells exposed to two different concentrations of cranberry extract rich in PAC (50 µg/ml or 100 µg/ml) or 3-(4-hydroxyphenyl)-propionic acid (5 µg/ml or 10 µg/ml) for 24 h, then stimulated with 1 ng/ml of IL-1ß or not (mock) for three hours...
June 2024: Data in Brief
https://read.qxmd.com/read/38514650/mir-218-5p-and-doxorubicin-combination-enhances-anticancer-activity-in-breast-cancer-cells-through-parkin-dependent-mitophagy-inhibition
#38
JOURNAL ARTICLE
Francesco Davide Naso, Krenare Bruqi, Valeria Manzini, Valerio Chiurchiù, Mara D'Onofrio, Ivan Arisi, Flavie Strappazzon
Breast Cancer (BC) is one of the most common tumours, and is known for its ability to develop resistance to chemotherapeutic treatments. Autophagy has been linked to chemotherapeutic response in several types of cancer, highlighting its contribution to this process. However, the role of mitophagy, a selective form of autophagy responsible for damaged mitochondria degradation, in the response to therapies in BC is still unclear. In order to address this point, we analysed the role of mitophagy in the treatment of the most common anticancer drug, doxorubicin (DXR), in different models of BC, such as a luminal A subtype-BC cell line MCF7 cells, cultured in 2-Dimension (2D) or in 3-Dimension (3D), and the triple negative BC (TNBC) cell line MDA-MB-231...
March 21, 2024: Cell Death Discovery
https://read.qxmd.com/read/38514598/revealing-a-novel-methylated-integrin-alpha-8-related-to-extracellular-matrix-and-anoikis-resistance-using-proteomic-analysis-in-the-immune-microenvironment-of-lung-adenocarcinoma
#39
JOURNAL ARTICLE
Tingting Liu, Wen Ji, Xue Cheng, Lin Lv, Xiaohui Yu, Na Wang, Mengcong Li, Tinghua Hu, Zhihong Shi
Genomic epigenetics of extracellular matrix (ECM) play an important role in lung adenocarcinoma (LUAD). Our study identified a signature of potential prognostic genes associated with ECM and constructed immune risk-related prognosis model in LUAD. We downloaded mRNAs transcriptome data, miRNAs expression data, and clinical patient information for LUAD based on The Cancer Genome Atlas. "Limma, clusterProfiler, ggplot2" R packages and GSEA were used to analyze meaningful genes and explore potential biological function...
March 21, 2024: Molecular Biotechnology
https://read.qxmd.com/read/38514443/first-report-of-sugarcane-mosaic-virus-infecting-goose-grass-in-shandong-province-china
#40
JOURNAL ARTICLE
Yifan Guo, Tong Jiang
Sugarcane mosaic virus (SCMV genus Potyvirus, family Potyviridae) can infect maize, sugarcane, sorghum, other graminaceous crops, and some weed species (Alegria et al., 2003; Achon et al., 2007). In August 2023, the leaves of goose grass (Eleusine indica) plants surrounding maize fields in a village of Liaocheng City, Shandong Province, China showed mosaic and chlorotic symptoms (26%, 11 of 43 grasses; Figure S1). Three symptomatic goose grass samples were selected and pooled for total RNA isolation using TRIzol reagent (Tiangen, Beijing, China)...
March 21, 2024: Plant Disease
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