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miRNA prediction

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https://www.readbyqxmd.com/read/28734158/interaction-between-platelet-derived-micrornas-and-cyp2c19-2-genotype-on-clopidogrel-antiplatelet-responsiveness-in-patients-with-acs
#1
Li Peng, Jun Liu, Liuan Qin, Jia Liu, Shaozhi Xi, Caiyi Lu, Tong Yin
BACKGROUND: Both platelet-derived microRNAs and the genotype of CYP2C19*2 were implicated for the variability of clopidogrel antiplatelet responsiveness. However, their interaction on the antiplatelet responsiveness of clopidogrel in patients with acute coronary syndrome (ACS) remains unknown. METHODS: Consecutive clopidogrel-treated patients with ACS were recruited, with their antiplatelet responsiveness evaluated by the relative platelet inhibition (RI), as measured by light transmittance aggregometry (LTA) at baseline and 5days' after the maintenance treatment of clopidogrel...
July 13, 2017: Thrombosis Research
https://www.readbyqxmd.com/read/28732175/genome-wide-identification-functional-prediction-and-evolutionary-analysis-of-r2r3-myb-superfamily-in-brassica-napus
#2
Ali Hajiebrahimi, Hajar Owji, Shiva Hemmati
R2R3-MYBs are important transcription factors (TFs) in planta, involved in development and various stress conditions. Phylogenetic analysis showed the presence of 249 R2R3-MYB TFs in Brassica napus called BnaR2R3-MYBs, clustered into 38 clades. BnaR2R3-MYBs were distributed on 19 chromosomes of B. napus. Sixteen gene clusters were identified. BnaR2R3-MYBs were characterized by motif prediction, gene structure analysis and gene ontology. Evolutionary analysis revealed that BnaR2R3-MYBs are mainly formed as a result of whole genome duplication...
July 21, 2017: Genome Génome / Conseil National de Recherches Canada
https://www.readbyqxmd.com/read/28731196/microrna-106a-promotes-cell-migration-and-invasion-by-targeting-tissue-inhibitor-of-matrix-metalloproteinase-2-in-cervical-cancer
#3
Xia Li, Qi Zhou, Ling Tao, Chunxia Yu
Increasing evidence has demonstrated that miRNAs play a critical role in tumor development and progression. Previous studies have revealed that miR-106a is abnormally expressed in various cancers. However, its function and underlying mechanism in cervical cancer (CC) remains unknown. In this study, we confirmed that the expression of miR-106a was significantly upregulated in both CC cell lines and tissues by qRT-PCR. The increased expression of miR-106a was obviously associated with adverse prognostic features...
July 18, 2017: Oncology Reports
https://www.readbyqxmd.com/read/28731161/investigation-of-the-molecular-mechanisms-underlying-myotonic-dystrophy-types-1-and-2-cataracts-using-microrna%C3%A2-target-gene-networks
#4
Dewang Shao, Xiaoquan Zhu, Wei Sun, Lu Huo, Wei Chen, Hua Wang, Bing Liu, Peng Pan
The purpose of the present study was to investigate the molecular mechanisms of myotonic dystrophy (DM) 1 and 2 cataracts using bioinformatics methods. A microarray dataset (E‑MEXP‑3365) downloaded from the Array Express database included lens epithelial samples of DM1 and DM2 cataract patients (n=3/group) and non‑DM lens epithelial samples as a control (n=4). Differentially expressed genes (DEGs) were identified between DM1 and control samples, and between DM2 and control samples. Pathway enrichment analyses were performed for the DEGs...
July 21, 2017: Molecular Medicine Reports
https://www.readbyqxmd.com/read/28731048/altered-peritumoral-microrna-expression-predicts-head-and-neck-cancer-patients-with-a-high-risk-of-recurrence
#5
Federica Ganci, Andrea Sacconi, Valentina Manciocco, Renato Covello, Maria Benevolo, Francesca Rollo, Sabrina Strano, Sara Valsoni, Silvio Bicciato, Giuseppe Spriano, Paola Muti, Giulia Fontemaggi, Giovanni Blandino
Head and neck squamous cell carcinoma is typically characterized by a high incidence of local recurrences. It has been extensively shown that mucosa from head and neck squamous cell carcinoma patients carries both genetic and gene expression alterations, which are mostly attributable to major etiologic agents of head and neck squamous cell carcinoma. We previously identified a signature of microRNAs (miRNAs) whose high expression in tumors is predictive of recurrence. Here, we investigated whether the deregulation of miRNA expression in the tumor-surrounding mucosa is correlated to disease recurrence...
July 21, 2017: Modern Pathology: An Official Journal of the United States and Canadian Academy of Pathology, Inc
https://www.readbyqxmd.com/read/28730912/rhd-specific-microrna-for-regulation-of-the-del-blood-group-integration-of-computational-and-experimental-approaches
#6
J Thongbut, U Kerdpin, T Sakuldamrongpanich, C Issarankura-Na-Ayudhya, P Nuchnoi
OBJECTIVE: The discovery of specific microRNAs (miRNA) mediates a better understanding of molecular mechanisms, diagnosis and prognosis of complex phenotypes. Synthesis of the RhD blood group involves multiple factors causing variation in the expression of RHD antigens. The mechanism underlying the extremely weak expression of RHD antigen associated with the RHD variant called DEL (D-elute) is incompletely understood. Down-regulation of gene expression through miRNA is a guide to the potential involvement of miRNAs in the DEL blood group...
July 21, 2017: British Journal of Biomedical Science
https://www.readbyqxmd.com/read/28730758/platinum-derivatives-a-multidisciplinary-approach
#7
Sinziana Gheorghe-Cetean, Calin Cainap, Luminita Oprean, Adriana Hangan, Piroska Virag, Eva Fischer-Fodor, Alexandra Gherman, Simona Cainap, Anne-Marie Constantin, Istvan Laszlo, Catalin Vlad, Radu Oprean
Cancer is one of the most difficult diseases to be treated. The particularities regarding the tumors' occurrence mechanism, their evolution under chemotherapy, disease-free interval, but also the increasing number of patients make cancer an intensively studied health domain. Although introduced in therapy since the early 80s, platinum derivatives play an essential role in anticancer therapy. Their use in therapy resulted in improving the patient quality of life and prolonging disease-free interval, which makes them still a benchmark for other anticancer compounds...
May 2017: Journal of B.U.ON.: Official Journal of the Balkan Union of Oncology
https://www.readbyqxmd.com/read/28730433/computational-prediction-of-the-immunomodulatory-potential-of-rna-sequences
#8
Gandharva Nagpal, Kumardeep Chaudhary, Sandeep Kumar Dhanda, Gajendra Pal Singh Raghava
Advances in the knowledge of various roles played by non-coding RNAs have stimulated the application of RNA molecules as therapeutics. Among these molecules, miRNA, siRNA, and CRISPR-Cas9 associated gRNA have been identified as the most potent RNA molecule classes with diverse therapeutic applications. One of the major limitations of RNA-based therapeutics is immunotoxicity of RNA molecules as it may induce the innate immune system. In contrast, RNA molecules that are potent immunostimulators are strong candidates for use in vaccine adjuvants...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28730334/mir-181a-2-downregulates-the-e3-ubiquitin-ligase-cul4a-transcript-and-promotes-cell-proliferation
#9
Venkateshwarlu Bandi, Sudhakar Baluchamy
MiR-181a-2 plays a major role in cell proliferation both positively and negatively depending on tissue type by targeting several regulators 3'UTR regions. We have predicted several targets for miR-181a-2 through computational approaches and characterized one its interesting target, CUL4A, an E3 ubiquitin ligase. CUL4A regulates diverse functions in the cells including DNA repair, DNA replication, cell cycle, genomic stability through polyubiquitination of target proteins. Deregulation of both miR-181a-2 and CUL4A are reported in many cancerous cells, but the functional link between them is unknown...
August 2017: Medical Oncology
https://www.readbyqxmd.com/read/28729919/toward-understanding-non-coding-rna-roles-in-intracranial-aneurysms-and-subarachnoid-hemorrhage
#10
Fengzhen Huang, Jiping Yi, Tieqiao Zhou, Xiaoxiang Gong, Hong Jiang, Xiaoxi Yao
Subarachnoid hemorrhage (SAH) is a common and frequently life-threatening cerebrovascular disease, which is mostly related with a ruptured intracranial aneurysm. Its complications include rebleeding, early brain injury, cerebral vasospasm, delayed cerebral ischemia, chronic hydrocephalus, and also non neurological problems. Non-coding RNAs (ncRNAs), comprising of microRNAs (miRNAs), small interfering RNAs (siRNAs) and long non-coding RNAs (lncRNAs), play an important role in intracranial aneurysms and SAH. Here, we review the non-coding RNAs expression profile and their related mechanisms in intracranial aneurysms and SAH...
2017: Translational Neuroscience
https://www.readbyqxmd.com/read/28729764/deciphering-the-role-of-micrornas-in-brd4-nut-fusion-gene-induced-nut-midline-carcinoma
#11
Ekta Pathak, Bhavya, Divya Mishra, Neelam Atri, Rajeev Mishra
NUT midline carcinoma (NMC) is a very aggressive and lethal type of squamous epithelial cell cancer caused due to fusion of BRD4 and NUT genes. The gene fusion results into a new fusion protein that promotes oncogenesis. The detailed molecular mechanisms underlying the NMC are still not clear and new findings are urgently required to complement the current efforts. Abnormal microRNAs (miRNA) expression promotes tumour formation by modulating the functional expression of critical genes other than the parent genes involved in tumour cell proliferation or survival...
2017: Bioinformation
https://www.readbyqxmd.com/read/28729528/improved-low-rank-matrix-recovery-method-for-predicting-mirna-disease-association
#12
Li Peng, Manman Peng, Bo Liao, Guohua Huang, Wei Liang, Keqin Li
MicroRNAs (miRNAs) performs crucial roles in various human diseases, but miRNA-related pathogenic mechanisms remain incompletely understood. Revealing the potential relationship between miRNAs and diseases is a critical problem in biomedical research. Considering limitation of existing computational approaches, we develop improved low-rank matrix recovery (ILRMR) for miRNA-disease association prediction. ILRMR is a global method that can simultaneously prioritize potential association for all diseases and does not require negative samples...
July 20, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28729025/following-micrornas-through-the-cancer-metastatic-cascade
#13
Eleonora Grisard, Milena S Nicoloso
Approximately a decade ago the first MicroRNAs (MiRNAs) participating in cancer metastasis were identified and metastmiRs were initially only a handful. Since those first reports, MiRNA research has explosively thrived, mainly due to their revolutionary mechanism of action and the hope of having at hand a novel tool to control cancer aggressiveness. This has ultimately led to delineate an almost impenetrable regulatory network: hundreds of MiRNAs transversally dominating every aspect of normal and cancer biology, each MiRNA having hundreds of targets and context-dependent activity...
2017: International Review of Cell and Molecular Biology
https://www.readbyqxmd.com/read/28728223/-expression-and-bioinformatics-analysis-of-long-chain-non-coding-rna-pvt1-in-tumors
#14
M Wang, W Gao, Y F Bai, D H Lu, L H Teng
Objective: To study the expression and mechanism of long-chain non-coding RNA PVT1 in tumor by bioinformatics analysis and experimental verification, and to provide new ideas for the study of the pathogenesis of tumors. Methods: The expression of PVT1 in 14 common tumors was downloaded from starBase v2.0 public database, which also was verified by PVT1 RNA-in situ hybridization.The upstream transcription factors, the downstream target microRNA(miRNA) for PVT1 and the target genes for the target miRNAs were predicted and analyzed by using bioinformatics based on the database of UCSC Genome Browser, HMDD v2...
July 8, 2017: Zhonghua Bing Li Xue za Zhi Chinese Journal of Pathology
https://www.readbyqxmd.com/read/28727297/parsel-parallel-selection-of-micro-rnas-for-survival-classification-in-cancers
#15
Debajyoti Sinha, Debarka Sengupta, Sanghamitra Bandyopadhyay
It is known that tumor micro-RNAs (miRNA) can define patient survival and treatment response. We present a framework to identify miRNAs which are predictive of cancer survival. The framework attempts to rank the miRNAs by exploring their collaborative role in gene regulation. Our approach tests a significantly large number of combinatorial cases leveraging parallel computation. We carefully avoided parametric assumptions involved in evaluations of miRNA expressions but used rigorous statistical computation to assign an importance score to a miRNA...
July 2017: Molecular Informatics
https://www.readbyqxmd.com/read/28725241/mir-378-suppresses-the-proliferation-migration-and-invasion-of-colon-cancer-cells-by-inhibiting-sdad1
#16
Mingxi Zeng, Linlin Zhu, Liangping Li, Changming Kang
BACKGROUND: MicroRNAs (miRNAs) play important roles in the growth and metastasis of colon cancer. It is known that one set of miRNAs are dysregulated in colon cancer cells, but the mechanism of their role in cancer development is still largely unknown. Our study focuses on the role of miR-378 in colon cancer cells. METHODS: Human colon cancer tissues and adjacent non-tumor tissues were collected from patients diagnosed in pathological examinations. In addition, human colon cancer cell lines LoVo, CaCo2, SW1116, SW480 and HCT-116, and a normal colonic mucosa cell line NCM460 were included...
2017: Cellular & Molecular Biology Letters
https://www.readbyqxmd.com/read/28724410/identification-and-characterization-of-long-non-coding-rnas-in-subcutaneous-adipose-tissue-from-castrated-and-intact-full-sib-pair-huainan-male-pigs
#17
Jing Wang, Liushuai Hua, Junfeng Chen, Jiaqing Zhang, Xianxiao Bai, Binwen Gao, Congjun Li, Zhihai Shi, Weidong Sheng, Yuan Gao, Baosong Xing
BACKGROUND: Long non-coding RNAs (lncRNAs) regulate adipose tissue metabolism, however, their function on testosterone deficiency related obesity in humans is less understood. For this research, intact and castrated male pigs are the best model animal because of their similar proportional organ sizes, cardiovascular systems and metabolic features. RESULTS: We identified lncRNAs in subcutaneous adipose tissue by deep RNA-sequencing using the intact and castrated Huainan male pigs...
July 19, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28724364/tamoxifen-reverses-epithelial-mesenchymal-transition-by-demethylating-mir-200c-in-triple-negative-breast-cancer-cells
#18
Qian Wang, Yu Cheng, Yan Wang, Yibo Fan, Ce Li, Ye Zhang, Yiding Wang, Qian Dong, Yanju Ma, Yue-E Teng, Xiujuan Qu, Yunpeng Liu
BACKGROUND: Although the efficacy of tamoxifen (TAM) for breast cancer has been attributed to inducing cell cycle arrest and apoptosis by inhibiting estrogen receptor (ER) signaling, recent evidence indicates that TAM also possesses ER-independent antitumor activity through an unclear mechanism. The present study investigated the anti-tumor mechanism of TAM on mesenchymal triple-negative breast cancer (TNBC). METHODS: The inhibitory effect of TAM on tumor migration and metastasis was analyzed by transwell chamber in vitro and by murine xenograft model in vivo...
July 19, 2017: BMC Cancer
https://www.readbyqxmd.com/read/28723693/upregulation-of-microrna-876-induces-endothelial-cell-apoptosis-by-suppressing-bcl-xl-in-development-of-atherosclerosis
#19
Kaicheng Xu, Peng Liu, Yue Zhao
BACKGROUND/AIMS: The injury and apoptotic cell death of endothelial cells hallmark the development of atherosclerosis (AS), characterized by dysregulation of lipid homeostasis, immune responses, and formation of coronary plaques. However, the mechanisms underlying the initiation of endothelial cell apoptosis remain ill-defined. Recent evidence suggests a role of microRNAs in the processes of AS-associated endothelial cell apoptosis. Thus, we studied this question in the current study...
July 19, 2017: Cellular Physiology and Biochemistry
https://www.readbyqxmd.com/read/28722210/plasma-microrna-based-signatures-to-predict-3-year-postoperative-recurrence-risk-for-stage-ii-and-iii-gastric-cancer
#20
Xinyang Liu, Xiaowei Zhang, Zhe Zhang, Jinjia Chang, Zhichao Wang, Zheng Wu, Chenchen Wang, Zuojun Sun, Xiaoxiao Ge, Ruixuan Geng, Wenbo Tang, Congqi Dai, Ying Lin, Fengjuan Lin, Menghong Sun, Weihua Jia, Wenqiong Xue, Jiafu Ji, Ying Hu, Guoyou Qin, Jin Li
Our aim was to identify plasma microRNA (miRNA)-based signatures to predict 3-year postoperative recurrence risk for patients with stage II and III gastric cancer (GC) so as to provide insights for individualized adjuvant therapy. Plasma miRNA expression was investigated in three phases, involving 407 patients recruited from three centers. ABI miRNA microarray and TaqMan Low Density Array were adopted in the discovery phase to identify potential miRNAs. Quantitative reverse-transcriptase polymerase chain reaction was used to assess the expression of selected miRNAs...
July 19, 2017: International Journal of Cancer. Journal International du Cancer
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