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Long noncoding rna

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https://www.readbyqxmd.com/read/29653367/upregulation-of-lncrna-plncrna-1-indicates-the-poor-prognosis-and-promotes-glioma-progression-by-activation-of-notch-signal-pathway
#1
Xiaolong Wang, Yungang Yan, Chunman Zhang, Wei Wei, Xin Ai, Yongbin Pang, Ying Bian
Prostate cancer-up-regulated long noncoding RNA 1(PlncRNA-1) has been demonstrated to be increased in several cancers, which plays an oncogenic role in the development of cancer. However, the exact functions and molecular mechanism of PlncRNA-1 in the tumorigenesis of glioma has not been studied. In present work, we firstly identified that PlncRNA-1 expression levels were prominently augmented in glioma patient tissues and glioma cell lines compared with adjacent noncancerous tissue and normal cells, respectively...
April 10, 2018: Biomedicine & Pharmacotherapy, Biomédecine & Pharmacothérapie
https://www.readbyqxmd.com/read/29653362/the-long-noncoding-rna-zfas1-facilitates-bladder-cancer-tumorigenesis-by-sponging-mir-329
#2
Jin-Shan Wang, Qing-Hong Liu, Xiao-Hua Cheng, Wen-Yuan Zhang, Yong-Chao Jin
The incidence and mortality rate of bladder cancer have dramatically expanded, so it's urgent to discover new biomarker and therapeutic target for bladder cancer. Recently, lncRNA has been identified as oncogene or tumor suppressor to regulate the tumorigenesis. LncRNA ZFAS1 has been confirmed as oncogene in various tumors. However, the expression, function, and underlying mechanism of ZFAS1 in bladder carcinogenesis have yet to be totally clarified. In the current study, our data demonstrated that ZFAS1 expression was significantly upregulated in bladder cancer tissues and cell lines...
April 10, 2018: Biomedicine & Pharmacotherapy, Biomédecine & Pharmacothérapie
https://www.readbyqxmd.com/read/29653267/emerging-landscape-of-circular-rnas-in-lung-cancer
#3
Wei Hu, Zhuo-Yue Bi, Zhen-Long Chen, Cong Liu, Lin-Lin Li, Feng Zhang, Qun Zhou, Wei Zhu, Yang-Yi-Yan Song, Bo-Tao Zhan, Qian Zhang, Yong-Yi Bi, Cheng-Cao Sun, De-Jia Li
Lung cancer, the leading cause of cancer deaths worldwide, is characterized with malignant cell growth. Advances in next-generation sequencing has helped us further understand RNA and identify novel circular RNAs (circRNAs) that may be useful in the early diagnosis and treatment of lung cancer. Similar to other noncoding RNAs, circRNAs present diverse biological functions in normal and disease states, including various types of cancers. This review focuses mainly on the poorly understood functions of circRNA in lung cancer...
April 10, 2018: Cancer Letters
https://www.readbyqxmd.com/read/29653123/long-noncoding-rna-lnchand2-promotes-liver-repopulation-via-c-met-signaling
#4
Yanying Wang, Pingping Zhu, Jing Wang, Xiaoxiao Zhu, Jianjun Luo, Shu Meng, Jiayi Wu, Buqing Ye, Luyun He, Ying Du, Lei He, Runsheng Chen, Yong Tian, Zusen Fan
BACKGROUND & AIMS: Long noncoding RNAs (lncRNAs) play important roles in various biological processes and regulate gene expression by diverse mechanisms. However, how lncRNAs regulate liver repopulation is unknown. METHODS: Here we identify a divergent lncRNA termed LncHand2 that is highly expressed over liver regeneration after partial hepatectomy (PHx). RESULTS: LncHand2 is constitutively expressed in the nuclei of pericentral hepatocytes in mouse and human livers...
April 10, 2018: Journal of Hepatology
https://www.readbyqxmd.com/read/29651883/lncrna-dancr-promotes-lung-cancer-by-sequestering-mir-216a
#5
Qiang Zhen, Li-Na Gao, Ren-Feng Wang, Wei-Wei Chu, Ya-Xiao Zhang, Xiao-Jian Zhao, Bao-Lei Lv, Jia-Bao Liu
BACKGROUND: Long noncoding RNAs (lncRNAs) are a new class of cancer regulators. Here, we aimed to investigate the diagnostic and therapeutic values of an lncRNA, differentiation antagonizing noncoding RNA (DANCR), in lung cancer. METHODS: Real-time polymerase chain reaction was used to compare DANCR levels in normal and cancerous lung tissues as well as lung cancer cells. Lentiviral transduction was used to induce DANCR overexpression or silencing in vitro, followed by monitoring cell proliferation, colony formation, and changes in microRNA-216a (miR-216a) expression...
January 2018: Cancer Control: Journal of the Moffitt Cancer Center
https://www.readbyqxmd.com/read/29648472/downregulation-of-serum-long-noncoding-rna-gas5-may-contribute-to-insulin-resistance-in-pcos-patients
#6
Haiyan Lin, Weijie Xing, Yu Li, Yanxin Xie, Xiaoshi Tang, Qingxue Zhang
Polycystic ovary syndrome (PCOS) is a common endocrine disease that affects reproductive-aged women and mostly characterized by insulin resistance (IR). The underlying mechanism remains unknown. Long noncoding RNAs (lncRNAs) have been demonstrated to be involved in various levels of biological regulation process of cell development, metabolism, and differentiation. This study aims to investigate the relationship between IR and differential expression of lncRNA Growth-arrest specific transcript 5 (GAS5) in patients' serum with and without PCOS...
April 12, 2018: Gynecological Endocrinology
https://www.readbyqxmd.com/read/29644261/detection-and-analysis-of-circular-rnas-by-rt-pcr
#7
Amaresh C Panda, Myriam Gorospe
Gene expression in eukaryotic cells is tightly regulated at the transcriptional and posttranscriptional levels. Posttranscriptional processes, including pre-mRNA splicing, mRNA export, mRNA turnover, and mRNA translation, are controlled by RNA-binding proteins (RBPs) and noncoding (nc)RNAs. The vast family of ncRNAs comprises diverse regulatory RNAs, such as microRNAs and long noncoding (lnc)RNAs, but also the poorly explored class of circular (circ)RNAs. Although first discovered more than three decades ago by electron microscopy, only the advent of high-throughput RNA-sequencing (RNA-seq) and the development of innovative bioinformatic pipelines have begun to allow the systematic identification of circRNAs (Szabo and Salzman, 2016; Panda et al ...
March 20, 2018: Bio-protocol
https://www.readbyqxmd.com/read/29644076/lost-in-translation-the-3-utr-of-igf1r-as-an-ancient-long-noncoding-rna
#8
Avantika Mainieri, David Haig
Background and objectives: The insulin-like growth factor (IGF) signaling system is a major arena of intragenomic conflict over embryonic growth between imprinted genes of maternal and paternal origin and the IGF type 1 receptor (IGF1R) promotes proliferation of many human cancers. The 3'-untranslated region (3'-UTR) of the mouse Igf1r mRNA is targeted by miR-675-3p derived from the imprinted H19 long noncoding RNA. We undertook a comparative sequence analysis of vertebrate IGF1R 3'-UTRs to determine the evolutionary history of miR-675 target sequences and to identify conserved features that are likely to be involved in post-transcriptional regulation of IGF1R translation...
2018: Evolution, Medicine, and Public Health
https://www.readbyqxmd.com/read/29643973/epigenetic-versus-genetic-deregulation-of-the-keap1-nrf2-axis-in-solid-tumors-focus-on-methylation-and-noncoding-rnas
#9
REVIEW
F P Fabrizio, A Sparaneo, D Trombetta, L A Muscarella
Oxidative and electrophilic changes in cells are mainly coordinated by the KEAP1/NRF2 (Kelch-like erythroid-derived cap-n-collar homology- (ECH-) associated protein-1/nuclear factor (erythroid-derived 2)-like 2) axis. The physical interaction between these two proteins promotes the expression of several antioxidant defense genes in response to exogenous and endogenous insults. Recent studies demonstrated that KEAP1/NRF2 axis dysfunction is also strongly related to tumor progression and chemo- and radiotherapy resistance of cancer cells...
2018: Oxidative Medicine and Cellular Longevity
https://www.readbyqxmd.com/read/29643274/hidden-peptides-encoded-by-putative-noncoding-rnas
#10
Akinobu Matsumoto, Keiichi I Nakayama
Although the definition of a noncoding RNA (ncRNA) is an RNA molecule that does not encode a protein, recent evidence has revealed that some ncRNAs are indeed translated to give rise to small polypeptides (usually containing fewer than 100 amino acids). Despite their small size, however, these peptides are often biologically relevant in that they are required for a variety of cellular processes. In this review, we summarize the production and functions of peptides that have been recently identified as translation products of putative ncRNAs...
April 11, 2018: Cell Structure and Function
https://www.readbyqxmd.com/read/29643239/kshv-mrna-accumulation-in-nuclear-foci-is-influenced-by-viral-dna-replication-and-the-viral-noncoding-pan-rna
#11
Tenaya K Vallery, Johanna B Withers, Joana A Andoh, Joan A Steitz
Kaposi's sarcoma-associated herpesvirus (KSHV), like other herpesviruses, replicates within the nuclei of its human cell host and hijacks host machinery for expression of its genes. The activities that culminate in viral DNA synthesis and assembly of viral proteins into capsids physically concentrate in nuclear areas termed viral replication compartments. We sought to better understand the spatiotemporal regulation of viral RNAs during the KSHV lytic phase by examining and quantifying the subcellular localization of select viral transcripts...
April 11, 2018: Journal of Virology
https://www.readbyqxmd.com/read/29642802/effect-of-high-fat-diet-on-immature-female-mice-and-messenger-and-noncoding-rna-expression-profiling-in-ovary-and-white-adipose-tissue
#12
Bin-Bin Huang, Xiao-Chun Liu, Xiao-Yun Qin, Jie Chen, Pei-Gen Ren, Wei-Fen Deng, Jian Zhang
Obesity is a chronic multifactorial disease prevalent in many areas of the world and is a major cause of morbidity and mortality. In women, obesity increases the risks of both metabolic and reproductive diseases, such as diabetes and infertility. The mechanisms underlying these effects, especially in young women, are largely unknown. To explore these mechanisms, we established a high-fat diet (HFD) model of obesity in immature female mice. Microarray analysis of gene expression in ovaries and white adipose tissue identified a large number of differentially expressed genes (>1...
January 1, 2018: Reproductive Sciences
https://www.readbyqxmd.com/read/29626931/who-needs-this-junk-or-genomic-dark-matter
#13
REVIEW
O I Podgornaya, D I Ostromyshenskii, N I Enukashvily
Centromeres (CEN), pericentromeric regions (periCEN), and subtelomeric regions (subTel) comprise the areas of constitutive heterochromatin (HChr). Tandem repeats (TRs or satellite DNA) are the main components of HChr forming no less than 10% of the mouse and human genome. HChr is assembled within distinct structures in the interphase nuclei of many species - chromocenters. In this review, the main classes of HChr repeat sequences are considered in the order of their number increase in the sequencing reads of the mouse chromocenters (ChrmC)...
April 2018: Biochemistry. Biokhimii︠a︡
https://www.readbyqxmd.com/read/29625226/long-noncoding-rna-bc200-regulates-cell-growth-and-invasion-in-colon-cancer
#14
Kaiming Wu, Kaiwu Xu, Kuanzhi Liu, Jiehong Huang, Jianhui Chen, Jian Zhang, Ning Zhang
Colon cancer is the third most commonly diagnosed and deadly cancer worldwide. Efforts have been made to characterize its pathological mechanisms and to explore new therapeutic targets of this disease. Aberrant expression of long noncoding RNAs (lncRNAs) has been associated with the pathogenesis of colon cancer. In the current study, we aimed to define the biological mechanism of the lncRNA BC200 in colon cancer. Here, we found that expression of BC200 was up-regulated in colon cancer tissues as compared with adjacent non-cancerous tissues...
April 3, 2018: International Journal of Biochemistry & Cell Biology
https://www.readbyqxmd.com/read/29621481/in-inflamed-intestinal-tissues-and-epithelial-cells-interleukin-22-signaling-increases-expression-of-h19-long-noncoding-rna-which-promotes-mucosal-regeneration
#15
Hua Geng, Heng-Fu Bu, Fangyi Liu, Longtao Wu, Karl Pfeifer, Pauline M Chou, Xiao Wang, Jiaren Sun, Lu Lu, Ashutosh Pandey, Marisa S Bartolomei, Isabelle G De Plaen, Peng Wang, Jindan Yu, Jiaming Qian, Xiao-Di Tan
BACKGROUND & AIMS: Inflammation affects regeneration of the intestinal epithelia; long non-coding RNAs (lncRNAs) regulate cell functions such as proliferation, differentiation, and migration. We investigated the mechanisms by which the lncRNA H19, imprinted maternally expressed transcript (H19) regulates regeneration of intestinal epithelium using cell cultures and mouse models of inflammation. METHODS: We performed RNA-seq transcriptome analyses of intestinal tissues from mice with LPS-induced sepsis to identify lncRNAs associated with inflammation; findings were confirmed by quantitative real-time PCR and in situ hybridization analyses of intestinal tissues from mice with sepsis or dextran sulfate sodium (DSS)-induced mucosal wound healing and patients with ulcerative colitis, compared to healthy individuals (controls)...
April 2, 2018: Gastroenterology
https://www.readbyqxmd.com/read/29620172/long-noncoding-rna-linc01296-promotes-tumor-growth-and-progression-by-sponging-mir-5095-in-human-cholangiocarcinoma
#16
Dawei Zhang, Haiyan Li, Juping Xie, Decan Jiang, Liangqi Cao, Xuewei Yang, Ping Xue, Xiaofeng Jiang
The aim of the present study was to elucidate whether, and how, long intergenic non-protein coding RNA 1296 (LINC01296) is involved in the modulation of human cholangiocarcinoma (CCA) development and progression. Microarray data analysis and reverse transcription-quantitative polymerase chain reaction analysis demonstrated that LINC01296 was significantly upregulated in human CCA compared with nontumor tissues. Furthermore, the expression of LINC01296 in human CCA was positively associated with tumor severity and clinical stage...
April 5, 2018: International Journal of Oncology
https://www.readbyqxmd.com/read/29620147/lncrna-pvt1-promotes-the-angiogenesis-of-vascular-endothelial-cell-by-targeting-mir%C3%A2-26b-to-activate-ctgf-angpt2
#17
Jifu Zheng, Lili Hu, Jing Cheng, Jing Xu, Zhiqiang Zhong, Yuan Yang, Zheng Yuan
Angiogenesis is essential for various biological processes, including tumor blood supply delivery, cancer cell growth, invasion and metastasis. Plasmacytoma variant translocation 1 (PVT1) long noncoding RNA (lncRNA) has been previously reported to affect angiogenesis of glioma microvascular endothelial cells by regulating microRNA (miR)‑186 expression level. However, the specific underlying molecular mechanism of PVT1 regulation of angiogenesis in vascular endothelial cells remains to be elucidated. The present study investigated the role of PVT1 in cell proliferation, migration and vascular tube formation of human umbilical vein endothelial cells (HUVECs) using MTT assay, Transwell migration assay and in vitro vascular tube formation assay, respectively...
March 29, 2018: International Journal of Molecular Medicine
https://www.readbyqxmd.com/read/29618315/variance-explained-by-whole-genome-sequence-variants-in-coding-and-regulatory-genome-annotations-for-six-dairy-traits
#18
Lambros T Koufariotis, Yi-Ping Phoebe Chen, Paul Stothard, Ben J Hayes
BACKGROUND: There are an exceedingly large number of sequence variants discovered through whole genome sequencing in most populations, including cattle. Deciphering which of these affect complex traits is a major challenge. In this study we hypothesize that variants in some functional classes, such as splice site regions, coding regions, DNA methylated regions and long noncoding RNA will explain more variance in complex traits than others. Two variance component approaches were used to test this hypothesis - the first determines if variants in a functional class capture a greater proportion of the variance, than expected by chance, the second uses the proportion of variance explained when variants in all annotations are fitted simultaneously...
April 5, 2018: BMC Genomics
https://www.readbyqxmd.com/read/29617692/prognostic-significance-of-lncrna-pvt1-and-its-potential-target-gene-network-in-human-cancers-a-comprehensive-inquiry-based-upon-21-cancer-types-and-9972-cases
#19
Rong-Quan He, Mei-Jiao Qin, Peng Lin, Yi-Huan Luo, Jie Ma, Hong Yang, Xiao-Hua Hu, Gang Chen
BACKGROUND/AIMS: Whether the level of long noncoding RNA plasmacytoma variant translocation 1 gene (lncRNA PVT1) expression influences the clinical development and outcome of human cancers has not been thoroughly elucidated to date. Inconsistencies still exist regarding the associations between PVT1 and the clinicopathological features, including patient survival data. Additionally, the regulatory mechanism of PVT1 among human cancers remains unclear. METHODS: we conducted a comprehensive inquiry to verify the implication of PVT1 expression in cancer patients by conducting a meta-analysis of 19 selected studies and The Cancer Genome Atlas (TCGA) database to examine the relationship between PVT1 expression and both the prognosis and clinicopathological features of cancer patients using STATA 12...
March 28, 2018: Cellular Physiology and Biochemistry
https://www.readbyqxmd.com/read/29617668/pan-cancer-analysis-of-lncrna-regulation-supports-their-targeting-of-cancer-genes-in-each-tumor-context
#20
Hua-Sheng Chiu, Sonal Somvanshi, Ektaben Patel, Ting-Wen Chen, Vivek P Singh, Barry Zorman, Sagar L Patil, Yinghong Pan, Sujash S Chatterjee, Anil K Sood, Preethi H Gunaratne, Pavel Sumazin
Long noncoding RNAs (lncRNAs) are commonly dysregulated in tumors, but only a handful are known to play pathophysiological roles in cancer. We inferred lncRNAs that dysregulate cancer pathways, oncogenes, and tumor suppressors (cancer genes) by modeling their effects on the activity of transcription factors, RNA-binding proteins, and microRNAs in 5,185 TCGA tumors and 1,019 ENCODE assays. Our predictions included hundreds of candidate onco- and tumor-suppressor lncRNAs (cancer lncRNAs) whose somatic alterations account for the dysregulation of dozens of cancer genes and pathways in each of 14 tumor contexts...
April 3, 2018: Cell Reports
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