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miRNA analysis

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https://www.readbyqxmd.com/read/29333940/expression-analysis-of-liver-specific-circulating-micrornas-in-hcv-induced-hepatocellular-carcinoma-in-egyptian-patients
#1
Lobna Mourad, Eman El-Ahwany, Mona Zoheiry, Hoda Abu-Taleb, Marwa Hassan, Amged Ouf, Ali Abdel Rahim, Moataz Hassan, Suher Zada
OBJECTIVES: Due to the absence of reliable and accurate biomarkers for the early detection of liver malignancy, circulating microRNAs have recently emerged as great candidates for prompt cancer identification. Therefore, the aim of this study was to investigate the potential of liver-specific circulating microRNAs as an accurate non-invasive diagnostic tool for early diagnosis of hepatitis C virus (HCV)-induced hepatocellular carcinoma (HCC). METHODOLOGY: A total of 165 patients were enrolled in this study and categorized into four main groups: 42 chronic hepatitis C (CHC) without cirrhosis, 45 CHC with cirrhosis (LC), 38 HCC with HCV patients, and 40 healthy controls...
January 15, 2018: Cancer Biology & Therapy
https://www.readbyqxmd.com/read/29333091/in-vitro-and-in-vivo-effects-of-mirna-19b-20a-92a-on-gastric-cancer-stem-cells-and-the-related-mechanism
#2
Qianwen Shao, Jing Xu, Xin Guan, Bing Zhou, Wei Wei, Rong Deng, Dongzhen Li, Xinyu Xu, Haitao Zhu
We aimed to analyze the in vitro and in vivo effects of miRNA-19b/20a/92a on gastric cancer stem cells (GCSCs) and the related mechanism. GCSCs were cultured until adherence and differentiation, and subjected to miRNA microarray analysis to find and to verify miRNA deletion. Cells stably expressing lentivirus carrying miRNA-19b/20a/92a were constructed by transfection. The relationship between miRNA-19b/20a/92a and renewal of GCSCs was studied by the tumor sphere assay, and that between miRNA-19b/20a/92a and their proliferation was explored with MTT and colony formation assays...
2018: International Journal of Medical Sciences
https://www.readbyqxmd.com/read/29332829/synchronous-detection-of-ebolavirus-conserved-rna-sequences-and-ebolavirus-encoded-mirna-like-fragment-based-on-a-zwitterionic-copper-ii-metal-organic-framework
#3
Gui-Hua Qiu, Zi-Hua Weng, Pei-Pei Hu, Wen-Jun Duan, Bao-Ping Xie, Bin Sun, Xiao-Yan Tang, Jin-Xiang Chen
From a three-dimensional (3D) metal-organic framework (MOF) of {[Cu(Cmdcp)(phen)(H2O)]2·9H2O}n (1, H3CmdcpBr = N-carboxymethyl-(3,5-dicarboxyl)pyridinium bromide, phen = phenanthroline), a sensitive and selective fluorescence sensor has been developed for the simultaneous detection of ebolavirus conserved RNA sequences and ebolavirus-encoded microRNA-like (miRNA-like) fragment. The results from molecular dynamics simulation confirmed that MOF 1 absorbs carboxyfluorescein (FAM)-tagged and 5(6)-carboxyrhodamine, triethylammonium salt (ROX)-tagged probe ss-DNA (probe DNA, P-DNA) by π…π stacking and hydrogen bonding, as well as additional electrostatic interactions to form a sensing platform of P-DNAs@1 with quenched FAM and ROX fluorescence...
April 1, 2018: Talanta
https://www.readbyqxmd.com/read/29332449/mir-452-3p-a-potential-tumor-promoter-that-targets-the-cpeb3-egfr-axis-in-human-hepatocellular-carcinoma
#4
Hui Tang, Jianwen Zhang, Zhenyu Yu, Linsen Ye, Kun Li, Fan Ding, Xiao Feng, Wei Meng
PURPOSE: We proposed to investigate the effects of miR-452-3p on the proliferation and mobility of hepatocellular carcinoma (HCC) cells by targeting cytoplasmic polyadenylation element binding protein 3/estimated glomerular filtration rate (CPEB3/EGFR) axis. METHODS: Quantitative real-time polymerase chain reaction (qRT-PCR) was used to detect miR-452-3p expression in 84 pairs of HCC tissues and adjacent tissues. Luciferase reporter assay was employed to examine the relationship between miR-452-3p and CPEB3...
December 2017: Technology in Cancer Research & Treatment
https://www.readbyqxmd.com/read/29332191/genome-wide-characterization-of-differentially-expressed-genes-provides-insights-into-regulatory-network-of-heat-stress-response-in-radish-raphanus-sativus-l
#5
Ronghua Wang, Yi Mei, Liang Xu, Xianwen Zhu, Yan Wang, Jun Guo, Liwang Liu
Heat stress (HS) causes detrimental effects on plant morphology, physiology, and biochemistry that lead to drastic reduction in plant biomass production and economic yield worldwide. To date, little is known about HS-responsive genes involved in thermotolerance mechanism in radish. In this study, a total of 6600 differentially expressed genes (DEGs) from the control and Heat24 cDNA libraries of radish were isolated by high-throughput sequencing. With Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis, some genes including MAPK, DREB, ERF, AP2, GST, Hsf, and Hsp were predominantly assigned in signal transductions, metabolic pathways, and biosynthesis and abiotic stress-responsive pathways...
January 13, 2018: Functional & Integrative Genomics
https://www.readbyqxmd.com/read/29332170/mirna-mrna-crosstalk-in-laryngeal-squamous-cell-carcinoma-based-on-the-tcga-database
#6
Guan-Jiang Huang, Meng-Si Luo, Guo-Ping Chen, Min-Yi Fu
BACKGROUND: The functional characterization of non-coding microRNAs (miRNAs) has been shown to be associated with the pathophysiology of the disease, but it is still a challenging task to elucidate the pathogenesis of microRNAs and disease. In addition, the understanding of the role of miRNAs in the development of LSCC still needs further exploration. MATERIALS AND METHODS: In this study, to identify miRNAs that play a key role in LSCC, we analyzed miRNA and mRNA sequence data from 162 LSCC samples from the TCGA database, and screened specific miRNAs and mRNAs by differential gene expression analysis...
January 13, 2018: European Archives of Oto-rhino-laryngology
https://www.readbyqxmd.com/read/29331678/microrna-320-enhances-radiosensitivity-of-glioma-through-down-regulation-of-sirtuin-type-1-by-directly-targeting-forkhead-box-protein-m1
#7
Tengfei Li, Ji Ma, Xinwei Han, Yongxu Jia, Huifeng Yuan, Shaofeng Shui, Dong Guo
Glioma is the most common cancer in human brain system and seriously threatens human health. miRNA-320 has been demonstrated to be closely correlated with the development of glioma. However, its effect and molecular mechanism underlying radioresistance have not been fully elucidated in glioma. Here, RT-qPCR assay was used to assess the expressions of miR-320 and forkhead box protein M1 (FoxM1) mRNA in glioma tumor tissues and cells. The effects of miR-320, FoxM1 and sirtuin type 1 (Sirt1) on radiosensitivity in glioma cells were evaluated by clone formation assay, apoptosis assay, histone H2AX phosphorylation level (γH2AX) detection and caspase 3 activity analysis, respectively...
January 10, 2018: Translational Oncology
https://www.readbyqxmd.com/read/29331478/comprehensive-analysis-of-lncrnas-and-mrnas-with-associated-co-expression-and-cerna-networks-in-c2c12-myoblasts-and-myotubes
#8
Rui Chen, Ting Jiang, Yanling She, Sidong Xie, Shanyao Zhou, Cheng Li, Jun Ou, Yulin Liu
Long non-coding RNAs (lncRNAs) are emerging as important regulators in the modulation of muscle development and muscle-related diseases. To explore potential regulators of muscle differentiation, we determined the expression profiles of lncRNAs and mRNAs in C2C12 mouse myoblast cell line using microarray analysis. Gene ontology and Kyoto Encyclopedia of Genes and Genomes pathway enrichment analyses were performed to explore their function. We also constructed co-expression, cis/trans-regulation, and competing endogenous RNA (ceRNA) networks with bioinformatics methods...
January 10, 2018: Gene
https://www.readbyqxmd.com/read/29331043/role-of-mir-203-in-estrogen-receptor-mediated-signaling-in-the-rat-uterus-and-endometrial-carcinoma
#9
Oliver Zierau, Janina Helle, Sabina Schadyew, Yanni Morgenroth, Martin Bentler, Alexander Hennig, Sridar Chittur, Martin Tenniswood, Georg Kretzschmar
The role of microRNAs (miRNA) in estrogen receptor (ER) signaling in the uterus and in endometrial cancer is not well understood. We therefore analyzed miRNA expression in uterine samples from a standard three-day uterotrophic assay using young female adult rats to identify E2-regulated miRNAs. Microarray analysis identified 47 E2 down-regulated miRNAs including miR-30a, and 25 E2up-regulated miRNAs including miR-672, miR-203 and miR-146b. The strongly E2-upregulated miR-203 was selected for further analysis...
January 13, 2018: Journal of Cellular Biochemistry
https://www.readbyqxmd.com/read/29330775/a-peg-based-method-for-the-isolation-of-urinary-exosomes-and-its-application-in-renal-fibrosis-diagnostics-using-cargo-mir-29c-and-mir-21-analysis
#10
Chun-Yan Lv, Wei-Jun Ding, Yi-Li Wang, Zi-Yi Zhao, Jin-Hui Li, Yan Chen, Jiao Lv
PURPOSE: To assess a new and highly specific, but low-cost, easily performed and suitable for large-scale applications method for renal fibrosis (RF) diagnostics. METHODS: Thirty-five RF and twenty non-RF patients were enrolled in the study. An appropriate polyethylene glycol (PEG) was used to isolate urinary exosomes. The efficiency of isolation process was evaluated by the morphology and size observation, as well as the detection of specific markers (CD63, CD9)...
January 12, 2018: International Urology and Nephrology
https://www.readbyqxmd.com/read/29330663/human-cytomegalovirus-encoded-mir-ul112-contributes-to-hcmv-mediated-vascular-diseases-by-inducing-vascular-endothelial-cell-dysfunction
#11
Kai Shen, Liyun Xu, Dongdong Chen, Weiguo Tang, Yanyan Huang
Human cytomegalovirus (HCMV) infection has been linked to the pathogenesis of vasculopathy by inducing dysfunction of vascular cells such as endothelial cells. Hcmv-miR-UL112 is the most well-characterized HCMV-encoded microRNA occurring in the plasma of patients with cardiovascular diseases such as hypertension, while the specific underlying pathophysiological mechanisms are yet to be defined. The current study investigated the effect of hcmv-miR-UL112 on the growth and proliferation of human umbilical vascular endothelial cells (HUVECs); it might also be associated with signaling pathways...
January 12, 2018: Virus Genes
https://www.readbyqxmd.com/read/29330528/application-of-weighted-gene-co-expression-network-analysis-for-data-from-paired-design
#12
Jianqiang Li, Doudou Zhou, Weiliang Qiu, Yuliang Shi, Ji-Jiang Yang, Shi Chen, Qing Wang, Hui Pan
Investigating how genes jointly affect complex human diseases is important, yet challenging. The network approach (e.g., weighted gene co-expression network analysis (WGCNA)) is a powerful tool. However, genomic data usually contain substantial batch effects, which could mask true genomic signals. Paired design is a powerful tool that can reduce batch effects. However, it is currently unclear how to appropriately apply WGCNA to genomic data from paired design. In this paper, we modified the current WGCNA pipeline to analyse high-throughput genomic data from paired design...
January 12, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29330490/differentially-expressed-micrornas-between-cattleyak-and-yak-testis
#13
Chuanfei Xu, Shixin Wu, Wangsheng Zhao, TserangDonko Mipam, Jingbo Liu, Wenjing Liu, Chuanping Yi, Mujahid Ali Shah, Shumin Yu, Xin Cai
Cattleyak are interspecific hybrids between cattle and yak, exhibiting the same prominent adaptability as yak and much higher performances than yak. However, male infertility of cattleyak resulted from spermatogenic arrest has greatly restricted their effective utilization in yak breeding. In past decades, much work has been done to investigate the mechanisms of spermatogenic arrest, but little is known about the differences of the post-transcriptional regulators between cattleyak and yak, which may contribute to the impaired spermatogenesis...
January 12, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29330361/discovery-of-microrna-target-modules-of-african-rice-oryza-glaberrima-under-salinity-stress
#14
Tapan Kumar Mondal, Alok Kumar Panda, Hukam C Rawal, Tilak Raj Sharma
Oryza glaberrima is the second edible rice in the genus Oryza. It is grown in the African countries. miRNAs are regulatory molecules that are involved in every domains of gene expression including salinity stress response. Although several miRNAs have been reported from various species of Oryza, yet none of them are from this species. Salt treated (200 mM NaCl for 48 h) and control smallRNA libraries of RAM-100, a salt tolerant genotype, each with 2 replications generated 150 conserve and 348 novel miRNAs...
January 12, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29330297/characterization-and-evidence-of-the-mir-888-cluster-as-a-novel-cancer-network-in-prostate
#15
Tsuyoshi Hasegawa, Garrison Glavich, Mary Pahuski, Aleena M Short, Oliver John Semmes, Lifang Yang, Vitold Galkin, Richard R Drake, Aurora Esquela-Kerscher
Prostate cancer afflicts 1 in 7 men and is the second leading cause of male cancer-related deaths in the United States. MicroRNAs (miRNAs), an extensive class of ~22 nucleotide non-coding RNAs, are often aberrantly expressed in tissues and fluids from prostate cancer patients but the mechanism of how specific miRNAs regulate prostate tumorigenesis and metastasis are poorly understood. Here, miR-888 was identified as a novel prostate factor that promotes proliferation and migration. miR-888 resides within a genomic cluster of 7 miRNA genes (mir-892c, mir-890, mir-888, mir-892a, mir-892b, mir-891b, mir-891a) on human chromosome Xq27...
January 12, 2018: Molecular Cancer Research: MCR
https://www.readbyqxmd.com/read/29330288/epigenetically-regulated-chromosome-14q32-mirna-cluster-induces-metastasis-and-predicts-poor-prognosis-in-lung-adenocarcinoma-patients
#16
Margarita Gonzalez-Vallinas, Manuel Rodriguez-Paredes, Marco Albrecht, Carsten Sticht, Damian Stichel, Julian Gutekunst, Adriana Pitea, Steffen Sass, Francisco J Sánchez-Rivera, Justo L Bermejo, Jennifer Schmitt, Carolina De La Torre, Arne Warth, Fabian Theis, Nikola Mueller, Norbert Gretz, Thomas Muley, Michael Meister, Darjus F Tschaharganeh, Peter Schirmacher, Franziska Matthäus, Kai Breuhahn
Most lung cancer deaths are related to metastases, which indicates the necessity of detecting and inhibiting tumor cell dissemination. Here, we aimed to identify microRNAs (miRNAs) involved in metastasis of lung adenocarcinoma as prognostic biomarkers and therapeutic targets. To that end, lymph node metastasis-associated miRNAs were identified in The Cancer Genome Atlas (TCGA) lung adenocarcinoma patient cohort (sequencing data; n=449) and subsequently validated by RT-qPCR in an independent clinical cohort (n=108)...
January 12, 2018: Molecular Cancer Research: MCR
https://www.readbyqxmd.com/read/29330215/mir-195-regulates-metabolism-in-failing-myocardium-via-alterations-in-sirt3-expression-and-mitochondrial-protein-acetylation
#17
Xiaokan Zhang, Ruiping Ji, Xianghai Liao, Estibaliz Castillero, Peter J Kennel, Danielle L Brunjes, Marcus Franz, Sven Möbius-Winkler, Konstantinos Drosatos, Isaac George, Emily I Chen, Paolo C Colombo, P Christian Schulze
Background -Heart failure (HF) leads to mitochondrial dysfunction and metabolic abnormalities of the failing myocardium coupled with an energy-depleted state and cardiac remodeling. The mitochondrial deacetylase sirtuin 3 (SIRT3) plays a pivotal role in the maintenance of mitochondrial function through regulating the mitochondrial acetylome. Interestingly, unique cardiac and systemic miRNAs have been shown to play an important role in cardiac remodeling by modulating key signaling elements in the myocardium...
January 12, 2018: Circulation
https://www.readbyqxmd.com/read/29330027/selective-estrogen-receptor-modulator-ormeloxifene-suppresses-embryo-implantation-via-inducing-mir-140-and-targeting-insulin-like-growth-factor-1-receptor-in-rat-uterus
#18
Vijay K Sirohi, Kanchan Gupta, Rohit Kumar, Vinay Shukla, Anila Dwivedi
Ormeloxifene, the non-steroidal SERM contraceptive, inhibits endometrial receptivity and embryo implantation via countering nidatory estrogen. However, the molecular mechanism of ormeloxifene action responsible for its contraceptive efficacy still remains unclear. Herein, we aimed to identify the miRNAs modulated under the influence of ormeloxifene and to explore their role in endometrial receptivity and embryo implantation. By doing microRNA sequencing analysis, a total of 168 miRNAs were found to be differentially expressed in uterine tissue of ormeloxifene-treated rats, on day 5 (10:00 h) of pregnancy i...
January 9, 2018: Journal of Steroid Biochemistry and Molecular Biology
https://www.readbyqxmd.com/read/29329703/highly-sensitive-microrna-detection-based-on-bio-bar-code-assay-and-catalytic-hairpin-assembly-two-stage-amplification
#19
Songsong Tang, Yuan Gu, Huiting Lu, Haifeng Dong, Kai Zhang, Wenhao Dai, Xiangdan Meng, Fan Yang, Xueji Zhang
Herein, a highly-sensitive microRNA (miRNA) detection strategy was developed by combining bio-bar-code assay (BBA) with catalytic hairpin assembly (CHA). In the proposed system, two nanoprobes of magnetic nanoparticles functionalized with DNA probes (MNPs-DNA) and gold nanoparticles with numerous barcode DNA (AuNPs-DNA) were designed. In the presence of target miRNA, the MNP-DNA and AuNP-DNA hybridized with target miRNA to form a "sandwich" structure. After "sandwich" structures were separated from the solution by the magnetic field and dehybridized by high temperature, the barcode DNA sequences were released by dissolving AuNPs...
April 3, 2018: Analytica Chimica Acta
https://www.readbyqxmd.com/read/29329594/modelling-the-structure-of-a-cerna-theoretical-bipartite-microrna-mrna-interaction-network-regulating-intestinal-epithelial-cellular-pathways-using-r-programming
#20
J M Robinson, W A Henderson
OBJECTIVE: We report a method using functional-molecular databases and network modelling to identify hypothetical mRNA-miRNA interaction networks regulating intestinal epithelial barrier function. The model forms a data-analysis component of our cell culture experiments, which produce RNA expression data from Nanostring Technologies nCounter® system. The epithelial tight-junction (TJ) and actin cytoskeleton interact as molecular components of the intestinal epithelial barrier. Upstream regulation of TJ-cytoskeleton interaction is effected by the Rac/Rock/Rho signaling pathway and other associated pathways which may be activated or suppressed by extracellular signaling from growth factors, hormones, and immune receptors...
January 12, 2018: BMC Research Notes
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