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Long non-coding RNA

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https://www.readbyqxmd.com/read/28815726/differential-expression-profile-analysis-of-lncrna-uca1%C3%AE-regulated-mrnas-in-bladder-cancer
#1
Yu Wang, Hong Zhang, Xu Li, Wei Chen
Urothelial carcinoma associated 1α (UCA1α) is a novel long non-coding RNA (lncRNA) that regulates bladder cancer proliferation, migration, and invasion. The target genes of UCA1α have, however, not been identified. To address this, a pCDNA3.1(+)-UCA1α over-expression vector was transfected into UM-UC-2 bladder cancer cells. Genes differentially expressed between pCDNA3.1(+)-UCA1α and pCDNA3.1(+) transfected cell were then detected by microarray and bioinformatics analysis. A total of seventy-one differentially expressed genes were identified, including fifty-two up-regulated genes and nineteen down-regulated genes...
August 16, 2017: Journal of Cellular Biochemistry
https://www.readbyqxmd.com/read/28815535/history-discovery-and-classification-of-lncrnas
#2
Julien Jarroux, Antonin Morillon, Marina Pinskaya
The RNA World Hypothesis suggests that prebiotic life revolved around RNA instead of DNA and proteins. Although modern cells have changed significantly in 4 billion years, RNA has maintained its central role in cell biology. Since the discovery of DNA at the end of the nineteenth century, RNA has been extensively studied. Many discoveries such as housekeeping RNAs (rRNA, tRNA, etc.) supported the messenger RNA model that is the pillar of the central dogma of molecular biology, which was first devised in the late 1950s...
2017: Advances in Experimental Medicine and Biology
https://www.readbyqxmd.com/read/28810905/omni-polya-a-method-and-tool-for-accurate-recognition-of-poly-a-signals-in-human-genomic-dna
#3
Arturo Magana-Mora, Manal Kalkatawi, Vladimir B Bajic
BACKGROUND: Polyadenylation is a critical stage of RNA processing during the formation of mature mRNA, and is present in most of the known eukaryote protein-coding transcripts and many long non-coding RNAs. The correct identification of poly(A) signals (PAS) not only helps to elucidate the 3'-end genomic boundaries of a transcribed DNA region and gene regulatory mechanisms but also gives insight into the multiple transcript isoforms resulting from alternative PAS. Although progress has been made in the in-silico prediction of genomic signals, the recognition of PAS in DNA genomic sequences remains a challenge...
August 15, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28807541/urinary-rna-based-biomarkers-for-prostate-cancer-detection
#4
REVIEW
Filippo Martignano, Lorena Rossi, Antonio Maugeri, Valentina Gallà, Vincenza Conteduca, Ugo De Giorgi, Valentina Casadio, Giuseppe Schepisi
Prostate cancer (PCa) is the commonest malignancy in the male population worldwide. Serum prostate specific antigen (PSA) test is the most important biomarker for the detection, follow-up and therapeutic monitoring of PCa. Defects in PSA specificity have elicited research for new biomarkers to improve early diagnosis and avoid false-positive results. This review evaluates urinary RNA-based biomarkers. Urine is a versatile body fluid for non-invasive biomarker detection in case of urological malignancies. The importance of RNA-based biomarkers has been demonstrated by the current use of PCA3, a long non coding RNA biomarker already approved by the Food and Drugs Administration...
August 11, 2017: Clinica Chimica Acta; International Journal of Clinical Chemistry
https://www.readbyqxmd.com/read/28804550/long-noncoding-rna-meg3-suppressed-endothelial-cell-proliferation-and-migration-through-regulating-mir-21
#5
Ziheng Wu, Yangyan He, Donglin Li, Xin Fang, Tao Shang, Hongkun Zhang, Xiangtao Zheng
Long non-coding RNAs (lncRNAs) act critical roles in many biological processes, including cell proliferation, apoptosis, development, invasion and migration. LncRNA maternally expressed gene 3 (MEG3) is found to be downregulated in several tumors; however, its role in the atherosclerosis is still unknown. In the present study, we demonstrated that MEG3 expression level was downregulated in the coronary artery disease (CAD) tissues compared to in the control tissues. We also showed that TNF-α enhanced EC cell proliferation...
2017: American Journal of Translational Research
https://www.readbyqxmd.com/read/28803540/preparation-of-highly-multiplexed-small-rna-sequencing-libraries
#6
Helena Persson, Rolf Søkilde, Anna Chiara Pirona, Carlos Rovira
MicroRNAs (miRNAs) are ~22-nucleotide-long small non-coding RNAs that regulate the expression of protein-coding genes by base pairing to partially complementary target sites, preferentially located in the 3´ untranslated region (UTR) of target mRNAs. The expression and function of miRNAs have been extensively studied in human disease, as well as the possibility of using these molecules as biomarkers for prognostication and treatment guidance. To identify and validate miRNAs as biomarkers, their expression must be screened in large collections of patient samples...
August 1, 2017: BioTechniques
https://www.readbyqxmd.com/read/28803142/identification-and-characterization-of-a-long-non-coding-rna-up-regulated-during-hiv-1-infection
#7
Thomas S Postler, Shara N Pantry, Ronald C Desrosiers, Sankar Ghosh
Long non-coding RNAs (lncRNAs) are rapidly emerging as important regulators of a diverse array of cellular functions. Here, we describe a meta-analysis of two independent RNA-seq studies to identify lncRNAs that are differentially expressed upon HIV-1 infection. Only three lncRNA genes exhibited altered expression of ≥ 2-fold in HIV-1-infected cells. Of these, the uncharacterized lncRNA LINC00173 was chosen for further study. Both transcript variants of LINC00173 (lnc173 TSV1 and 2) could be detected by qPCR, localized predominantly to the nucleus and were reproducibly up-regulated during infection...
August 10, 2017: Virology
https://www.readbyqxmd.com/read/28801479/the-role-of-interactions-of-long-non-coding-rnas-and-heterogeneous-nuclear-ribonucleoproteins-in-regulating-cellular-functions
#8
REVIEW
Xinghui Sun, Mohamed Sham Shihabudeen Haider Ali, Matthew Moran
Long non-coding RNAs (lncRNAs) are emerging as critical regulators of various biological processes and human diseases. The mechanisms of action involve their interactions with proteins, RNA and genomic DNA. Most lncRNAs display strong nuclear localization. Heterogeneous nuclear ribonucleoproteins (hnRNPs) are a large family of RNA-binding proteins that are important for multiple aspects of nucleic acid metabolism. hnRNPs are also predominantly expressed in the nucleus. This review discusses the interactions of lncRNAs and hnRNPs in regulating gene expression at transcriptional and post-transcriptional levels or by changing genomic structure, highlighting their involvements in glucose and lipid metabolism, immune response, DNA damage response, and other cellular functions...
August 11, 2017: Biochemical Journal
https://www.readbyqxmd.com/read/28800794/long-intergenic-noncoding-rna-319-linc00319-promotes-cell-proliferation-and-invasion-in-lung-cancer-cells-by-directly-downregulating-the-tumor-suppressor-mir-32
#9
Bo Zhou, Wenwen Yuan, Xinping Li
Long non-coding RNAs (lncRNAs) have been shown to play important regulatory roles in the pathogenesis and progression of multiple cancers. Here, we investigated the role of long intergenic non coding RNA 319 (linc00319) in the proliferation and invasion of lung cancer cells. We found that, compared with normal lung cell line HBE, linc00319 was increased in low metastatic lung cancer cell lines PAa and AgiY-83a, and further increased in high metastatic lung cancer cell lines A549 and Anip-973. Then, different concentrations of pcDNA-linc00319 expression vector and different concentrations of linc00319 siRNA were respectively transfected into A549 lung cancer cells...
August 11, 2017: Oncology Research
https://www.readbyqxmd.com/read/28800786/knockdown-of-long-noncoding-rna-linc0000125-suppresses-cellular-proliferation-and-invasion-in-glioma-cells-by-regulating-mir-4775
#10
Zhankun Zhu, Jinhua Dai, Yufeng Liao, Jianbo Ma, Wei Zhou
Long noncoding RNAs (lncRNAs) play an important role in various biological properties of glioma cells. Herein, we aimedto elucidate the function and the possible molecular mechanisms of long intergenic non-coding RNA 152 (LINC00152) in glioma cells. Relative expressions of LINC00152, miR-4775 and CDK6 in U-118 MG cells were regulated by transfections. Thereafter, cell viability, migration, invasion and apoptosis were analyzed by CCK8, Transwell and flow cytometry assays. Dual-luciferase reporter assay was conducted to validate the target genes of LINC00152 and miR-4775...
August 11, 2017: Oncology Research
https://www.readbyqxmd.com/read/28799568/association-of-long-non-coding-rna-h19-and-microrna-21-expression-with-the-biological-features-and-prognosis-of-non-small-cell-lung-cancer
#11
Y Zhou, B Sheng, Q Xia, X Guan, Y Zhang
In recent years, long non-coding RNAs (lncRNAs) and microRNAs (miRNAs) have been shown to play important roles in tumor biological function. The aim of this study was to investigate the diagnostic and prognostic value of lncRNA H19 and miR-21 expression in non-small-cell lung cancer (NSCLC). H19 and miR-21 expression was measured in tumor tissues and corresponding non-tumor lung tissues from 200 patients by quantitative reverse transcription polymerase chain reaction. Moreover, the in vitro and in vivo effects of H19 knock out in A549 cells were investigated...
August 11, 2017: Cancer Gene Therapy
https://www.readbyqxmd.com/read/28797301/sialotranscriptomics-of-rhipicephalus-zambeziensis-reveals-intricate-expression-profiles-of-secretory-proteins-and-suggests-tight-temporal-transcriptional-regulation-during-blood-feeding
#12
Minique Hilda de Castro, Daniel de Klerk, Ronel Pienaar, D Jasper G Rees, Ben J Mans
BACKGROUND: Ticks secrete a diverse mixture of secretory proteins into the host to evade its immune response and facilitate blood-feeding, making secretory proteins attractive targets for the production of recombinant anti-tick vaccines. The largely neglected tick species, Rhipicephalus zambeziensis, is an efficient vector of Theileria parva in southern Africa but its available sequence information is limited. Next generation sequencing has advanced sequence availability for ticks in recent years and has assisted the characterisation of secretory proteins...
August 10, 2017: Parasites & Vectors
https://www.readbyqxmd.com/read/28796922/long-non-coding-rnas-and-prostate-cancer
#13
REVIEW
Aya Misawa, Ken-Ichi Takayama, Satoshi Inoue
Long non-coding RNAs (lncRNAs) are RNA transcripts larger than 200 nucleotides that do not code for proteins whose aberrant expression has been documented in various types of cancer, including prostate cancer. The lack of appropriate sensitive and specific biomarkers for prostate cancer has led to over-diagnosis and overtreatment, making lncRNAs promising novel biomarkers as well as therapeutic targets for the disease. This review attempts to summarize the current knowledge of lncRNA expression patterns and mechanisms in prostate cancer, which contribute to carcinogenesis...
August 10, 2017: Cancer Science
https://www.readbyqxmd.com/read/28796262/long-noncoding-rna-crnde-promotes-colorectal-cancer-cell-proliferation-via-epigenetically-silencing-dusp5-cdkn1a-expression
#14
Jie Ding, Juan Li, HaiYan Wang, Yun Tian, Min Xie, XueZhi He, Hao Ji, Zhonghua Ma, Bingqing Hui, Keming Wang, Guozhong Ji
Evidence indicates that long non-coding RNAs (lncRNAs) play a critical role in the regulation of tumor cellular processes, such as proliferation, apoptosis, and metastasis. LncRNA CRNDE (Colorectal Neoplasia Differentially Expressed) is located at human chromosome 16 and has been found overexpressed in a variety of cancers including colorectal cancer (CRC). In this paper, we report that lncRNA CRNDE expression was remarkably upregulated in CRC tissues and that lncRNA CRNDE overexpression was positively correlated with advanced pathological stages and larger tumor sizes...
August 10, 2017: Cell Death & Disease
https://www.readbyqxmd.com/read/28794691/biological-role-of-long-non-coding-rna-in-head-and-neck-cancers
#15
REVIEW
Tomasz Kolenda, Kacper Guglas, Marcel Ryś, Marta Bogaczyńska, Anna Teresiak, Renata Bliźniak, Izabela Łasińska, Jacek Mackiewicz, Katarzyna M Lamperska
Head and neck squamous cell carcinoma (HNSCC) are one of the worst prognosis cancers with high mortality of patients. The treatment strategy is primarily based on surgery and radiotherapy but chemotherapy is also used. Every year the knowledge concerning HNSCC biology is updated with new elements such as the recent discovered molecules - long non-coding RNAs. Long non-coding RNAs are involved in regulatory processes in the cells. It has been revealed that the expression levels of lncRNAs are disturbed in tumor cells what results in the acquisition of their specific phenotype...
September 2017: Reports of Practical Oncology and Radiotherapy
https://www.readbyqxmd.com/read/28794490/a-transcriptome-atlas-of-rabbit-revealed-by-pacbio-single-molecule-long-read-sequencing
#16
Shi-Yi Chen, Feilong Deng, Xianbo Jia, Cao Li, Song-Jia Lai
It is widely acknowledged that transcriptional diversity largely contributes to biological regulation in eukaryotes. Since the advent of second-generation sequencing technologies, a large number of RNA sequencing studies have considerably improved our understanding of transcriptome complexity. However, it still remains a huge challenge for obtaining full-length transcripts because of difficulties in the short read-based assembly. In the present study we employ PacBio single-molecule long-read sequencing technology for whole-transcriptome profiling in rabbit (Oryctolagus cuniculus)...
August 9, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28794406/the-non-coding-rna-landscape-of-human-hematopoiesis-and-leukemia
#17
Adrian Schwarzer, Stephan Emmrich, Franziska Schmidt, Dominik Beck, Michelle Ng, Christina Reimer, Felix Ferdinand Adams, Sarah Grasedieck, Damian Witte, Sebastian Käbler, Jason W H Wong, Anushi Shah, Yizhou Huang, Razan Jammal, Aliaksandra Maroz, Mojca Jongen-Lavrencic, Axel Schambach, Florian Kuchenbauer, John E Pimanda, Dirk Reinhardt, Dirk Heckl, Jan-Henning Klusmann
Non-coding RNAs have emerged as crucial regulators of gene expression and cell fate decisions. However, their expression patterns and regulatory functions during normal and malignant human hematopoiesis are incompletely understood. Here we present a comprehensive resource defining the non-coding RNA landscape of the human hematopoietic system. Based on highly specific non-coding RNA expression portraits per blood cell population, we identify unique fingerprint non-coding RNAs-such as LINC00173 in granulocytes-and assign these to critical regulatory circuits involved in blood homeostasis...
August 9, 2017: Nature Communications
https://www.readbyqxmd.com/read/28793054/revealing-potential-long-non-coding-rna-biomarkers-in-lung-adenocarcinoma-using-long-non-coding-rna-mediated-competitive-endogenous-rna-network
#18
T-G Zhu, X Xiao, Q Wei, M Yue, L-X Zhang
In our study, we aimed to reveal potential long non-coding RNAs (lncRNA) biomarkers in lung adenocarcinoma (LAD) using lncRNA-mediated competing endogenous RNAs (ceRNAs) network (LMCN). Competing lncRNA-mRNA interactions were identified using the hypergeometric test. Co-expression analysis for the competing lncRNA-mRNA interactions was implemented, and relying on the weight value >0.8, a highly competitive LMCN was further constructed. Degree distribution, betweenness and closeness for LMCN were carried out to analyze the network structure...
August 7, 2017: Brazilian Journal of Medical and Biological Research, Revista Brasileira de Pesquisas Médicas e Biológicas
https://www.readbyqxmd.com/read/28791407/long-non-coding-rna-meg3-inhibits-cell-growth-of-gliomas-by-targeting-mir-93-and-inactivating-pi3k-akt-pathway
#19
Ling Zhang, Xin Liang, Yuxiong Li
Gliomas are the most common cancers in the brain, accompanied with high morbility, occurrence, disability and mortality. Long non-coding RNAs (lncRNAs) have been proposed as promoter or inhibitor in many cancer processes. Previous findings have indicated that lncRNA-maternally expressed gene 3 (MEG3) is involved in tumorigenesis of several cancers, including glioma. However, the underlying mechanism of MEG3 in glioma remains elusive. In our study, MEG3 was found downregulated in glioma tissues compared with normal brain tissues...
August 3, 2017: Oncology Reports
https://www.readbyqxmd.com/read/28791380/knockdown-of-lncrna-hnf1a-as1-inhibits-oncogenic-phenotypes-in-colorectal-carcinoma
#20
Wenyi Zhu, Peipei Zhuang, Wen Song, Shiyu Duan, Qiong Xu, Man Peng, Jun Zhou
Long non-coding RNAs (lncRNAs) have been demonstrated to serve important roles in the development and progression of cancer. Recently HNF1A antisense RNA 1 (HNF1A‑AS1), a lncRNA, has been reported as exhibiting a potential oncogenic role in the development of many types of cancer. However, the expression and the role of HNF1A‑AS1 in colorectal carcinoma (CRC) remains unclear. In the present study, the role of HNF1A‑AS1 in CRC was examined for the first time and its correlation with CRC cell biological behaviors was analyzed...
August 4, 2017: Molecular Medicine Reports
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