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Long non coding rna

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https://www.readbyqxmd.com/read/28214888/analysis-of-long-non-coding-rna-expression-of-lymphatic-endothelial-cells-in-response-to-type-2-diabetes
#1
Min Qi, Qiuhong Zhou, Weiqi Zeng, Minxue Shen, Xiaomin Liu, Chang Luo, Jing Long, Wangqing Chen, Jianglin Zhang, Siyu Yan
BACKGROUND: Recent evidence has indicated that long non-coding RNA (lncRNA) is involved in the pathogenesis of type 2 diabetes, but nothing is known about lncRNA expression changes of lymphatic endothelial cells in response to type 2 diabetes. METHODS: The GSE38396 dataset was downloaded from the Gene Expression Omnibus database and the probe sets of Human Gnome U133 Plus2.0 microarray were annotated for lncRNA. Differentially expressed lncRNAs between diabetic and non-diabetic lymphatic endothelial cells were calculated...
January 27, 2017: Cellular Physiology and Biochemistry
https://www.readbyqxmd.com/read/28212533/upregulation-of-long-non-coding-rna-plncrna-1-promotes-proliferation-and-induces-epithelial-mesenchymal-transition-in-prostate-cancer
#2
Yang Jin, Zilian Cui, Xudong Li, Xunbo Jin, Jian Peng
OBJECTIVE: To confirm that PlncRNA-1 regulates the cell cycle in prostate cancer cells and induces epithelial-mesenchymal transition (EMT) in prostate cancer through the TGF-β1 pathway. RESULTS: PlncRNA-1 and TGF-β1 expression levels were significantly higher in prostate cancer tissues than in normal prostate tissues (P < 0.05) and were significantly positively correlated. TGF-β1, N-cadherin and Cyclin-D1 were downregulated and E-Cadherin was upregulated in LNCAP cells after silencing of PlncRNA-1, as determined by real-time PCR and Western blot...
February 13, 2017: Oncotarget
https://www.readbyqxmd.com/read/28212532/long-non-coding-rna-ptenp1-functions-as-a-cerna-to-modulate-pten-level-by-decoying-mir-106b-and-mir-93-in-gastric-cancer
#3
Rupeng Zhang, Yuenan Guo, Zhenchi Ma, Gang Ma, Qiang Xue, Fangxuan Li, Liren Liu
Recent studies have shown that competing endogenous RNAs (ceRNAs) play an important role in the regulation of gene expression, and participate in a wide range of biological processes, including carcinogenesis. Long non-coding RNA PTENP1, the pseudogene of PTEN tumor suppressor, has been reported to exert its tumor suppressive function via modulation of PTEN expression in many malignancies. However, whether a PTENP1~miRNA~PTEN ceRNA network exists and how it functions in gastric cancer (GC) remains elusive. In order to identify and characterize the PTENP1~miRNA~PTEN ceRNA network in GC, we first determined PTENP1 levels in clinical GC samples and found that PTENP1 and PTEN were concurrently downregulated in these samples...
February 13, 2017: Oncotarget
https://www.readbyqxmd.com/read/28211799/increased-expression-of-long-non-coding-rna-glidr-in-prostate-cancer
#4
Yingyi Zhang, Zhe Kong, Yalong Zhang, Wenhua Huang, Hai Wu, Xuechao Wan, Yao Li
Prostate cancer (PCa) was one of the most common cancers in males in China. Long non-coding RNAs (lncRNA), a class of non-coding RNAs with more than 200 nucleotides, played key roles in the progression of prostate cancer. GLIDR, a novel long intergenic ncRNA, was found to be upregulated in tumors compared to normal tissues by using publically databases. In the clinical validation cohort, our results showed GLIDR was significantly up-regulated in prostate cancer samples and cell lines. To explore the potential functions of the GLIDR, we constructed gene co-expression networks and applied GO analysis...
February 3, 2017: Cancer Biomarkers: Section A of Disease Markers
https://www.readbyqxmd.com/read/28209301/iswi-atp-dependent-remodeling-of-nucleoplasmic-%C3%AF-speckles-in-the-brain-of-drosophila-melanogaster
#5
Luca Lo Piccolo, Andrea Attardi, Rosa Bonaccorso, Lorenzo Li Greci, Giorgio Giurato, Antonia Maria Rita Ingrassia, Maria Cristina Onorati
Heterogeneous nuclear ribonucleoproteins (hnRNPs) belong to the RNA-binding proteins family. They are involved in processing heterogeneous nuclear RNAs (hnRNAs) into mature mRNAs. These proteins participate in every step of mRNA cycle, such as mRNA export, localization, translation, stability and alternative splicing. At least 14 major hnRNPs, which have structural and functional homologues in mammals, are expressed in Drosophila melanogaster. Until now, six of these hnRNPs are known to be nucleus-localized and associated with the long non-coding RNA (lncRNA) heat shock responsive ω (hsrω) in the omega speckle compartments (ω-speckles)...
December 22, 2016: Journal of Genetics and Genomics, Yi Chuan Xue Bao
https://www.readbyqxmd.com/read/28208661/differential-binding-of-three-major-human-adar-isoforms-to-coding-and-long-non-coding-transcripts
#6
Josephine Galipon, Rintaro Ishii, Yutaka Suzuki, Masaru Tomita, Kumiko Ui-Tei
RNA editing by deamination of adenosine to inosine is an evolutionarily conserved process involved in many cellular pathways, from alternative splicing to miRNA targeting. In humans, it is carried out by no less than three major adenosine deaminases acting on RNA (ADARs): ADAR1-p150, ADAR1-p110, and ADAR2. However, the first two derive from alternative splicing, so that it is currently impossible to delete ADAR1-p110 without also knocking out ADAR1-p150 expression. Furthermore, the expression levels of ADARs varies wildly among cell types, and no study has systematically explored the effect of each of these isoforms on the cell transcriptome...
February 11, 2017: Genes
https://www.readbyqxmd.com/read/28207735/long-non-coding-rna-hotair-inhibits-mir-17-5p-to-regulate-osteogenic-differentiation-and-proliferation-in-non-traumatic-osteonecrosis-of-femoral-head
#7
Biaofang Wei, Wei Wei, Baoxiang Zhao, Xiaxia Guo, Song Liu
BACKGROUND AND AIM: The biological functions of non-coding RNAs (ncRNAs) have been widely identified in many human diseases. In the present study, the relationship between long non-coding RNA HOTAIR and microRNA-17-5p (miR-17-5p) and their roles in osteogenic differentiation and proliferation in non-traumatic osteonecrosis of femoral head (ONFH) were investigated. METHODS: The expression levels of HOTAIR and miR-17-5p in the mesenchymal stem cells (MSCs) derived from patients with non-traumatic ONFH and osteoarthritis (OA) were examined by real-time PCR...
2017: PloS One
https://www.readbyqxmd.com/read/28206970/genetic-variation-in-long-noncoding-rnas-and-the-risk-of-nonalcoholic-fatty-liver-disease
#8
Silvia Sookoian, Cristian Rohr, Adrián Salatino, Hernán Dopazo, Tomas Fernandez Gianotti, Gustavo O Castaño, Carlos J Pirola
: The human transcriptome comprises a myriad of non protein-coding RNA species, including long noncoding RNAs (lncRNAs), which have a remarkable role in transcriptional and epigenetic regulation. We hypothesized that variants in lncRNAs influence the susceptibility to nonalcoholic fatty liver disease (NAFLD). Using next generation sequencing, we performed a survey of genetic variation associated with randomly selected lncRNA-genomic regions located within both experimentally validated and computationally predicted regulatory elements...
February 11, 2017: Oncotarget
https://www.readbyqxmd.com/read/28205334/long-non-coding-rna-tug1-promotes-migration-and-invasion-by-acting-as-a-cerna-of-mir-335-5p-in-osteosarcoma-cells
#9
Yong Wang, Tao Yang, Zhen Zhang, Ming Lu, Wei Zhao, Xiandong Zeng, Weiguo Zhang
Long non-coding RNAs (lncRNAs) have now become the new hotspots in an ocean of diseases including osteosarcoma. The function of taurine up-regulated gene 1 (TUG1) and its working mechanism in osteosarcoma remain unclear. In our research, we found that TUG1 was elevated and correlated with a poor prognosis in osteosarcoma patients. Also, the following functional experiment showed that decreased TUG1 could remarkably inhibit osteosarcoma cell migration and invasion, indicating that TUG1 functioned as an oncogene in osteosarcoma...
February 15, 2017: Cancer Science
https://www.readbyqxmd.com/read/28204819/lncrna-co-expression-network-model-for-the-prognostic-analysis-of-acute-myeloid-leukemia
#10
Jia-Qi Pan, Yan-Qing Zhang, Jing-Hua Wang, Ping Xu, Wei Wang
Acute myeloid leukemia (AML) is a highly heterogeneous hematologic malignancy with great variability of prognostic behaviors. Previous studies have reported that long non-coding RNAs (lncRNAs) play an important role in AML and may thus be used as potential prognostic biomarkers. However, thus use of lncRNAs as prognostic biomarkers in AML and their detailed mechanisms of action in this disease have not yet been well characterized. For this purpose, in the present study, the expression levels of lncRNAs and mRNAs were calculated using the RNA-seq V2 data for AML, following which a lncRNA‑lncRNA co-expression network (LLCN) was constructed...
February 13, 2017: International Journal of Molecular Medicine
https://www.readbyqxmd.com/read/28203482/long-non-coding-rna-h19-induces-cerebral-ischemia-reperfusion-injury-via-activation-of-autophagy
#11
Jue Wang, Bin Cao, Dong Han, Miao Sun, Juan Feng
Long non-coding RNA H19 (lncRNA H19) was found to be upregulated by hypoxia, its expression and function have never been tested in cerebral ischemia and reperfusion (I/R) injury. This study intended to investigate the role of lncRNA H19 and H19 gene variation in cerebral I/R injury with focusing on its relationship with autophagy activation. Cerebral I/R was induced in rats by middle cerebral artery occlusion followed by reperfusion. SH-SY5Y cells were subjected to oxygen and glucose deprivation and reperfusion (OGD/R) to simulate I/R injury...
February 2017: Aging and Disease
https://www.readbyqxmd.com/read/28202123/-expression-of-long-non-coding-rna-nanci-in-lung-tissues-of-neonatal-mice-with-hyperoxia-induced-lung-injury-and-its-regulatory-effect-on-nkx2-1
#12
Yuan Zhang, Huai-Ping Cheng, Tian-Ping Bao, Xiu-Gui Wang, Zhao-Fang Tian
OBJECTIVE: To investigate the expression of long non-coding RNA NANCI in lung tissues of neonatal mice with hyperoxia-induced lung injury and its regulatory effect on NKX2.1. METHODS: A total of 48 neonatal C57BL/6J mice were randomly divided into an air group and a hyperoxia group, with 24 mice in each group. Each group was further divided into 7-day, 14-day, and 21-day subgroups, with 8 mice in each subgroup. The mice in the air group were fed in the indoor environment (FiO(2)=21%) and those in the hyperoxia group were fed in a high-oxygen box (oxygen concentration: >95%)...
February 2017: Zhongguo Dang Dai Er Ke za Zhi, Chinese Journal of Contemporary Pediatrics
https://www.readbyqxmd.com/read/28199963/long-non-coding-rna-hulc-as-a-potential-prognostic-biomarker-in-human-cancers-a-meta-analysis
#13
Yang-Hua Fan, Miao-Jing Wu, Yuan Jiang, Minhua Ye, Shi-Gang Lu, Lei Wu, Xin-Gen Zhu
Since the long non-coding RNA HULC (Highly Upregulated in Liver Cancer) is dysregulated in many cancers, we performed a meta-analysis to determine its prognostic potential in malignant tumors. We searched electronic databases, including PubMed, Medline, OVID, Cochrane Library and Web of Science from inception until August 14, 2016 and identified seven studies with 730 cancer patients for the meta-analysis. We analyzed the hazard ratios (HRs) and 95% confidence intervals (CIs) to determine the relationship between HULC expression and overall survival (OS)...
February 10, 2017: Oncotarget
https://www.readbyqxmd.com/read/28198676/global-transcriptome-analysis-reveals-extensive-gene-remodeling-alternative-splicing-and-differential-transcription-profiles-in-non-seed-vascular-plant-selaginella-moellendorffii
#14
Yan Zhu, Longxian Chen, Chengjun Zhang, Pei Hao, Xinyun Jing, Xuan Li
BACKGROUND: Selaginella moellendorffii, a lycophyte, is a model plant to study the early evolution and development of vascular plants. As the first and only sequenced lycophyte to date, the genome of S. moellendorffii revealed many conserved genes and pathways, as well as specialized genes different from flowering plants. Despite the progress made, little is known about long noncoding RNAs (lncRNA) and the alternative splicing (AS) of coding genes in S. moellendorffii. Its coding gene models have not been fully validated with transcriptome data...
January 25, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28198463/overexpression-of-fam83h-as1-indicates-poor-patient-survival-and-knockdown-impairs-cell-proliferation-and-invasion-via-met-egfr-signaling-in-lung-cancer
#15
Jie Zhang, Shumei Feng, Wenmei Su, Shengbin Bai, Lei Xiao, Lihui Wang, Dafydd G Thomas, Jules Lin, Rishindra M Reddy, Philip W Carrott, William R Lynch, Andrew C Chang, David G Beer, You-Min Guo, Guoan Chen
Whole transcriptome analyses of next generation RNA sequencing (RNA-Seq) data from human cancer samples reveled thousands of uncharacterized non-coding RNAs including long non-coding RNA (lncRNA). Recent studies indicated that lncRNAs are emerging as crucial regulators in cancer processes and potentially useful as biomarkers for cancer diagnosis and prognosis. To delineate dysregulated lncRNAs in lung cancer, we analyzed RNA-Seq data from 461 lung adenocarcinomas (LUAD) and 156 normal lung tissues. FAM83H-AS1, one of the top dysregulated lncRNAs, was found to be overexpressed in tumors relative to normal lung and significantly associated with worse patient survival in LUAD...
February 15, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28198439/miat-is-a-pro-fibrotic-long-non-coding-rna-governing-cardiac-fibrosis-in-post-infarct-myocardium
#16
Xuefeng Qu, Yue Du, You Shu, Ming Gao, Fei Sun, Shenjian Luo, Ti Yang, Linfeng Zhan, Yin Yuan, Wenfeng Chu, Zhenwei Pan, Zhiguo Wang, Baofeng Yang, Yanjie Lu
A long non-coding RNA (lncRNA), named myocardial infarction associated transcript (MIAT), has been documented to confer risk of myocardial infarction (MI). The aim of this study is to elucidate the pathophysiological role of MIAT in regulation of cardiac fibrosis. In a mouse model of MI, we found that MIAT was remarkably up-regulated, which was accompanied by cardiac interstitial fibrosis. MIAT up-regulation in MI was accompanied by deregulation of some fibrosis-related regulators: down-regulation of miR-24 and up-regulation of Furin and TGF-β1...
February 15, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28196303/the-long-noncoding-rna-schlah-suppresses-metastasis-of-hepatocellular-carcinoma-through-interacting-with-fus
#17
Zhouhong Ge, Zhuoan Cheng, Xinrong Yang, Xisong Huo, Ning Wang, Hui Wang, Cun Wang, Dishui Gu, Fangyu Zhao, Ming Yao, Jia Fan, Wenxin Qin
Emerging evidence has indicated that deregulation of long non-coding RNAs (lncRNAs) can contribute to the progression and metastasis of human cancer, including hepatocellular carcinoma (HCC). However, the roles of most lncRNAs in HCC remain largely unknown. Here we found a long noncoding RNA termed SchLAH (seven chromosome locus associated with HCC; also called BC035072) was generally downregulated in HCC. Low expression of SchLAH was significantly correlated with shorter overall survival of HCC patients. In vitro and in vivo assays indicated that overexpression of SchLAH inhibited the migration and lung metastasis of HCC cells...
February 14, 2017: Cancer Science
https://www.readbyqxmd.com/read/28194033/integrative-analyses-of-transcriptome-sequencing-identify-novel-functional-lncrnas-in-esophageal-squamous-cell-carcinoma
#18
C-Q Li, G-W Huang, Z-Y Wu, Y-J Xu, X-C Li, Y-J Xue, Y Zhu, J-M Zhao, M Li, J Zhang, J-Y Wu, F Lei, Q-Y Wang, S Li, C-P Zheng, B Ai, Z-D Tang, C-C Feng, L-D Liao, S-H Wang, J-H Shen, Y-J Liu, X-F Bai, J-Z He, H-H Cao, B-L Wu, M-R Wang, D-C Lin, H P Koeffler, L-D Wang, X Li, E-M Li, L-Y Xu
Long non-coding RNAs (lncRNAs) have a critical role in cancer initiation and progression, and thus may mediate oncogenic or tumor suppressing effects, as well as be a new class of cancer therapeutic targets. We performed high-throughput sequencing of RNA (RNA-seq) to investigate the expression level of lncRNAs and protein-coding genes in 30 esophageal samples, comprised of 15 esophageal squamous cell carcinoma (ESCC) samples and their 15 paired non-tumor tissues. We further developed an integrative bioinformatics method, denoted URW-LPE, to identify key functional lncRNAs that regulate expression of downstream protein-coding genes in ESCC...
February 13, 2017: Oncogenesis
https://www.readbyqxmd.com/read/28193161/systematic-comparison-of-lncrnas-with-protein-coding-mrnas-in-population-expression-and-their-response-to-environmental-change
#19
Qin Xu, Zhihong Song, Caiyun Zhu, Chengcheng Tao, Lifang Kang, Wei Liu, Fei He, Juan Yan, Tao Sang
BACKGROUND: Long non-coding RNA (lncRNA) is a class of non-coding RNA with important regulatory roles in biological process of organisms. The systematic comparison of lncRNAs with protein coding mRNAs in population expression and their response to environmental change are still poorly understood. Here we identified 17,610 lncRNAs and calculated their expression levels based on RNA-seq of 80 individuals of Miscanthus lutarioriparius from two environments, the nearly native habitats and transplanted field, respectively...
February 13, 2017: BMC Plant Biology
https://www.readbyqxmd.com/read/28190799/short-lived-non-coding-transcripts-slits-clues-to-regulatory-long-non-coding-rna
#20
Hidenori Tani
Whole transcriptome analyses have revealed a large number of novel long non-coding RNAs (lncRNAs). Although the importance of lncRNAs has been documented in previous reports, the biological and physiological functions of lncRNAs remain largely unknown. The role of lncRNAs seems an elusive problem. Here, I propose a clue to the identification of regulatory lncRNAs. The key point is RNA half-life. RNAs with a long half-life (t1/2 > 4 h) contain a significant proportion of ncRNAs, as well as mRNAs involved in housekeeping functions, whereas RNAs with a short half-life (t1/2 < 4 h) include known regulatory ncRNAs and regulatory mRNAs...
February 13, 2017: Drug Discoveries & Therapeutics
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