DOCSLIB.ORG

A Manually-Curated Database of Experimentally

Total Page：16

File Type：pdf, Size：1020Kb

Download full-text PDF Read full-text
A Manually-Curated Database of Experimentally D118–D126 Nucleic Acids Research, 2020, Vol. 48, Database issue Published online 12 November 2019 doi: 10.1093/nar/gkz985 LncTarD: a manually-curated database of experimentally-supported functional lncRNA–target regulations in human diseases Hongying Zhao1,†,JianShi1,†, Yunpeng Zhang1,†, Aimin Xie1, Lei Yu1, Caiyu Zhang1, Junjie Lei1, Haotian Xu1, Zhijun Leng1, Tengyue Li1, Waidong Huang1, Shihua Lin1, Li Wang1,*, Yun Xiao1,* and Xia Li1,2,* 1College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, China and 2College of Bioinformatics, Hainan Medical University, Haikou 570100, China Received July 31, 2019; Revised October 12, 2019; Editorial Decision October 14, 2019; Accepted October 16, 2019 ABSTRACT standing of functions and molecular mechanisms of lncRNA deregulation in human disease, which will Long non-coding RNAs (lncRNAs) are associated help to identify novel and sensitive biomarkers and with human diseases. Although lncRNA–disease as- therapeutic targets. sociations have received significant attention, no online repository is available to collect lncRNA- mediated regulatory mechanisms, key downstream INTRODUCTION targets, and important biological functions driven > by disease-related lncRNAs in human diseases. Studies have shown that 98% of the human genome does not encode protein sequences. In particular, long non- We thus developed LncTarD (http://biocc.hrbmu. coding RNAs (lncRNAs) are a class of important non- edu.cn/LncTarD/ or http://bio-bigdata.hrbmu.edu.cn/ coding RNAs with lengths >200 nt (1). With the rapid de- LncTarD), a manually-curated database that pro- velopment of both experimental technology and compu- vides a comprehensive resource of key lncRNA– tational methods, the number of lncRNAs has increased target regulations, lncRNA-influenced functions, and drastically over the past few years. Recent advances in lncRNA-mediated regulatory mechanisms in human lncRNA-related research concerning their sequence, ex- diseases. LncTarD offers (i) 2822 key lncRNA–target pression, and function have led to the creation of several regulations involving 475 lncRNAs and 1039 tar- publicly available lncRNA resources. For example, LNCi- gets associated with 177 human diseases; (ii) 1613 pedia 5 (lncRNA sequence and annotation) (2), LNCedit- experimentally-supported functional regulations and ing (functional prediction of RNA editing in lncRNAs) (3), 1209 expression associations in human diseases; lncRNASNP2 (single nucleotide polymorphisms in lncR- NAs) (4), lncRNome (lncRNA annotation) (5), lncRNA- (iii) important biological functions driven by disease- tor (lncRNA sequence, annotation, gene expression, pro- related lncRNAs in human diseases; (iv) lncRNA– tein binding and conservation) (6) and lncRNAdb v2.0 target regulations responsible for drug resistance or (lncRNA sequence, expression data and the literature) (7) sensitivity in human diseases and (v) lncRNA mi- all focus on the basic information and functional char- croarray, lncRNA sequence data and transcriptome acteristics of lncRNAs. LncRNA2Target v2.0 (predicted data of an 11 373 pan-cancer patient cohort from lncRNA–target relationships) (8), ChIPBase v2.0 (pre- TCGA to help characterize the functional dynamics dicted TF-ncRNA regulations) (9), LncReg (experimentally of these lncRNA–target regulations. LncTarD also validated lncRNA-associated regulatory entries) (10), and provides a user-friendly interface to conveniently DIANA-LncBase v2 (experimentally verified and predicted browse, search, and download data. LncTarD will miRNA-lncRNA pairs) (11) focus on lncRNA-associated be a useful resource platform for the further under- regulatory entries without disease information. More im- portantly, the involvement of lncRNAs in numerous hu- *To whom correspondence should be addressed. Tel: +86 451 86615922; Email: [email protected] Correspondence may also be addressed to Yun Xiao. Tel: +86451 86615922; Email: [email protected] Correspondence may also be addressed to Xia Li. Tel: +86451 86615922; Email: [email protected] †The authors wish it to be known that, in their opinion, the first three authors should be regarded as Joint First Authors. C The Author(s) 2019. Published by Oxford University Press on behalf of Nucleic Acids Research. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited. Nucleic Acids Research, 2020, Vol. 48, Database issue D119 man diseases, especially in cancers, has received a great DATA COLLECTION, PROCESSING AND IMPLEMEN- deal of attention. Recently, experimentally-supported or TATION predicted lncRNA–disease associations have been stored in First, we searched the PubMed literature database using publicly available databases, such as LncRNADisease 2.0 the master keywords ‘long noncoding RNA,’ ‘lncRNA’ (experimentally-supported and predicted lncRNA–disease and ‘lincRNA,’ in combination with ‘cancer,’ ‘tumor,’ ‘dis- associations) (12) and Lnc2Cancer v2.0 (experimentally ease,’ ‘carcinoma,’ ‘dysfunction,’ ‘proliferation,’ ‘invasive- supported lncRNA-cancer associations) (13). However, im- ness,’ ‘invasion,’ ‘migration,’ ‘patient,’ ‘patients,’ ‘abnormal- portant information concerning key downstream targets, ities,’ ‘syndrome,’ ‘disorder’ and ‘human.’ PubMed arti- biological functions driven by disease-related lncRNAs, as cles were identified by searching these keywords in full well as lncRNA-dependent mechanisms of gene expression text on PubMed. We then manually screened the abstracts deregulation in human diseases still remain hidden in a large in order to extract the entries that described associations amount of dispersed literature, and have yet to be exten- between lncRNA–target regulations and human diseases sively and systematically collected. from 8866 PubMed publications (17). Next, the full text Indeed, anomalies in lncRNA-dependent gene- of these articles was double-reviewed to extract the de- regulatory mechanisms contribute to the occurrence tailed lncRNA-mediated regulatory mechanisms in hu- and progression of human diseases. For instance, the man diseases. Only the articles meeting all of the follow- lncRNA HOTAIR could be involved in the downregula- ing criteria were retained: (i) lncRNAs associated with tion of HOX loci through H3K27 trimethylation, thereby human diseases; (ii) identification of key target genes of regulating breast invasion and metastasis by binding to the lncRNA and (iii) mention of important biological polycomb repressive complex 2 (PRC2) (14). In addition functions affected by lncRNA–target regulations. Through to the epigenetic regulation of genes, several lncRNAs strict screening, 1862 articles comprised relevant informa- could act as ceRNAs by sponging miRNAs to reduce their tion that was incorporated into the database. Second, we inhibitory effect on their target protein-coding mRNAs, retrieved the lncRNA, target and disease names, direc- thus participating in post-transcriptional processing. For tion of regulation (positively-F/E or negatively-F/E), ex- example, SNHG16 promotes epithelial-to-mesenchymal perimental method for each interaction, expression pattern transition (EMT) in esophageal squamous cell carcinoma of lncRNA (upregulated or downregulated), experimental (ESCC) by competing with miR-140-5p to positively method and lncRNA microarray, lncRNA sequence data regulate its key target ZEB1 (15,16). Understanding the for lncRNA dysregulation, lncRNA coordinates, positively- precise molecular mechanisms by which lncRNA regulates or negatively-influenced biological functions emphasized downstream key mediators to affect important biological by the original reference articles, lncRNA-mediated regu- functions is necessary to help explain the roles of lncRNAs latory mechanisms (such as ceRNA or sponge, and epi- in the pathogenesis of human diseases and will be a critical genetic regulation), and a brief description of functional first step in exploring these potential new avenues in cancer lncRNA–target regulation in human diseases from the orig- therapy. However, such important information concerning inal studies and reference information. Notably, we ex- how these disease-related lncRNAs contribute to patho- tracted and recorded the cancer subtype information from genesis, which targets are the downstream key mediators, the PubMed literature. We used negatively-F (or positively- and which functions are affected has been largely ignored. F) and negatively-E (or positively-E) to represent negatively To fill this gap, we therefore developed LncTarD, a novel (or positively) affecting function and expression, respec- database that collects and integrates disease-associated tively. For example, lncRNA:miRNA sponge interactions lncRNA–target regulations into a comprehensive resource are annotated as ‘negatively-F,’ which potentially means for the first time (Supplementary Table S1). The cur- that miRNA function (not expression) is negatively af- rent version of LncTarD includes 2822 disease-associated fected. In other regulations, ‘negatively-E’ would mean the lncRNA–target regulations, including 1613 experimentally- reduction of target expression. Only high-quality functional supported functional regulations and 1209 expression as- regulations with strong experimental evidence such as RNA sociations, involving 475 lncRNAs and 1039 targets
Load more

Recommended publications
  • Lncrna GAS5 Overexpression Downregulates IL-18 and Induces the Apoptosis of Fibroblast-Like Synoviocytes
    Clinical Rheumatology (2019) 38:3275–3280 https://doi.org/10.1007/s10067-019-04691-2 ORIGINAL ARTICLE LncRNA GAS5 overexpression downregulates IL-18 and induces the apoptosis of fibroblast-like synoviocytes Cuili Ma1 & Weigang Wang2 & Ping Li 1 Received: 19 March 2019 /Revised: 26 June 2019 /Accepted: 10 July 2019 /Published online: 1 August 2019 # International League of Associations for Rheumatology (ILAR) 2019 Abstract Background Long non-coding RNA (lncRNA) growth arrest specific transcript 5 (GAS5) negatively regulates interleukin-18 (IL-18) in ovarian cancer, while IL-18 contributes to the development of rheumatoid arthritis (RA). Therefore, GAS5 may also participate in RA. Methods GAS5 and IL-18 in plasma of RA patients (n = 60) and healthy controls (n = 60) were measured by RT-qPCR and ELISA, respectively. Linear regression was performed to analyze the correlations between plasma levels of IL-18 and GAS5 in both RA patients and healthy controls. Results In the present study, we found that plasma GAS5 was downregulated, while IL-18 was upregulated in RA patients than in healthy controls. A significant and inverse correlation between GAS5 and IL-18 was found in RA patients but not in healthy controls. IL-18 treatment did not significantly alter the expression of GAS5 in fibroblast-like synoviocytes, while GAS5 overexpression led to the inhibited expression of IL-18. GAS5 overexpression also resulted in the promoted apoptosis of fibroblast-like synoviocytes. Conclusions Therefore, GAS5 overexpression may improve RA by downregulating IL-18 and inducing the apoptosis of fibroblast-like synoviocytes. Key points • The present study mainly showed that overexpression of GAS5 may assist the treatment of RA.
    [Show full text]
  • Long Non-Coding RNA GAS5 and Intestinal MMP2 and MMP9 Expression: a Translational Study in Pediatric Patients with IBD
    International Journal of Molecular Sciences Article Long Non-Coding RNA GAS5 and Intestinal MMP2 and MMP9 Expression: A Translational Study in Pediatric Patients with IBD Marianna Lucafò 1 , Letizia Pugnetti 2, Matteo Bramuzzo 1 , Debora Curci 2, Alessia Di Silvestre 2, Annalisa Marcuzzi 1 , Alberta Bergamo 3, Stefano Martelossi 4, Vincenzo Villanacci 5, Anna Bozzola 5, Moris Cadei 5, Sara De Iudicibus 1, Giuliana Decorti 1,6,* and Gabriele Stocco 7 1 Institute for Maternal and Child Health—IRCCS “Burlo Garofolo”, 34137 Trieste, Italy; [email protected] (M.L.); [email protected] (M.B.); [email protected] (A.M.); [email protected] (S.D.I.) 2 PhD School in Science of Reproduction and Development, University of Trieste, 34127 Trieste, Italy; [email protected] (L.P.); [email protected] (D.C.); [email protected] (A.D.S.) 3 Callerio Foundation Onlus, 34127 Trieste, Italy; [email protected] 4 Cà Foncello Hospital, 31100 Treviso, Italy; [email protected] 5 Pathology Section, Spedali Civili, 25123 Brescia, Italy; [email protected] (V.V.); [email protected] (A.B.); [email protected] (M.C.) 6 Department of Medicine, Surgery and Health Sciences, University of Trieste, 34127 Trieste, Italy 7 Department of Life Sciences, University of Trieste, 34127 Trieste, Italy; [email protected] * Correspondence: [email protected]; Tel.: +39-04-0558-8634 !"#!$%&'(! Received: 24 September 2019; Accepted: 21 October 2019; Published: 24 October 2019 !"#$%&' Abstract: Background: The long non-coding RNA (lncRNA) growth arrest–specific transcript 5 (GAS5) seems to be involved in the regulation of mediators of tissue injury, in particular matrix metalloproteinases (MMPs), implicated in the pathogenesis of inflammatory bowel disease (IBD).
    [Show full text]
  • The Lncrna Toolkit: Databases and in Silico Tools for Lncrna Analysis
    non-coding RNA Review The lncRNA Toolkit: Databases and In Silico Tools for lncRNA Analysis Holly R. Pinkney † , Brandon M. Wright † and Sarah D. Diermeier * Department of Biochemistry, University of Otago, Dunedin 9016, New Zealand; [email protected] (H.R.P.); [email protected] (B.M.W.) * Correspondence: [email protected] † These authors contributed equally to this work. Received: 29 November 2020; Accepted: 15 December 2020; Published: 16 December 2020 Abstract: Long non-coding RNAs (lncRNAs) are a rapidly expanding field of research, with many new transcripts identified each year. However, only a small subset of lncRNAs has been characterized functionally thus far. To aid investigating the mechanisms of action by which new lncRNAs act, bioinformatic tools and databases are invaluable. Here, we review a selection of computational tools and databases for the in silico analysis of lncRNAs, including tissue-specific expression, protein coding potential, subcellular localization, structural conformation, and interaction partners. The assembled lncRNA toolkit is aimed primarily at experimental researchers as a useful starting point to guide wet-lab experiments, mainly containing multi-functional, user-friendly interfaces. With more and more new lncRNA analysis tools available, it will be essential to provide continuous updates and maintain the availability of key software in the future. Keywords: non-coding RNAs; long non-coding RNAs; databases; computational analysis; bioinformatic prediction software; RNA interactions; coding potential; RNA structure; RNA function 1. Introduction For decades, the human genome was thought to be a desert of ‘junk DNA’ with sporadic oases of transcriptionally active genes, most of them coding for proteins.
    [Show full text]
  • GAS5) Protects Ovarian Cancer Cells from Apoptosis
    Int J Clin Exp Pathol 2016;9(9):9028-9037 www.ijcep.com /ISSN:1936-2625/IJCEP0028395 Original Article Long non-coding RNA growth arrest-specific transcript 5 (GAS5) protects ovarian cancer cells from apoptosis Jiayin Gao1, Beidi Wang1, Min Mao2, Song Zhang3, Meiling Sun4, Peiling Li1 1Department of Obstetrics and Gynecology, The Second Affiliated Hospital of Harbin Medical University, Harbin, China; 2Department of Biopharmaceutical Sciences, College of Pharmacy, Harbin Medical University (Daqing), Daqing, China; 3Department of Medical Service, The First Affiliated Hospital of Harbin Medical University, Harbin, China; 4Department of Nursing, The Second Affiliated Hospital of Harbin Medical University, Harbin, China Received March 16, 2016; Accepted July 12, 2016; Epub September 1, 2016; Published September 15, 2016 Abstract: Epithelial ovarian cancer (EOC) is a main cause of death in malignant tumor of women genital system. This study aims to investigate the underlying role of growth arrest-specific transcript 5 (GAS5) in EOC. In vivo expression of GAS5 in 60 EOC specimens was evaluated by quantitative reverse transcription QRT-PCR, which used to study the differences of GAS5 expression between EOC tissues and normal ovarian epithelium. There were no significant differences of GAS5 expression between normal ovarian epithelium and benign epithelial lesions; however, GAS5 expression was lower in EOC tissues compared with normal ovarian epithelial tissues (6.44-fold), which was closely related to lymph node metastasis (P=0.025) and tumor node metastasis stage (P=0.035). Moreover, exogenous GAS5-inhibited proliferation promoted apoptosis and decreased migration and invasion in ovarian cancer cells. Finally, through Western blot analysis, overexpression of GAS5 protein could decrease the expression of Cyclin A, Cyclin D, Cyclin E, and PCNA.
    [Show full text]
  • A Report on Box C/D Small Nucleolar RNA Editing in Human Cells
    ORIGINAL RESEARCH published: 04 November 2019 doi: 10.3389/fphar.2019.01246 Are Small Nucleolar RNAs “CRISPRable”? A Report on Box C/D Small Nucleolar RNA Editing in Human Cells Julia A. Filippova 1†, Anastasiya M. Matveeva 1,2†, Evgenii S. Zhuravlev 1, Evgenia A. Balakhonova 1, Daria V. Prokhorova 1,2, Sergey J. Malanin 3, Raihan Shah Mahmud 3, Tatiana V. Grigoryeva 3, Ksenia S. Anufrieva 4,5, Dmitry V. Semenov 1, Valentin V. Vlassov 1 and Grigory A. Stepanov 1,2* Edited by: Hector A. Cabrera-Fuentes, 1 Institute of Chemical Biology and Fundamental Medicine, Siberian Branch of the Russian Academy of Sciences, Novosibirsk, University of Giessen, Germany Russia, 2 Department of Natural Sciences, Novosibirsk State University, Novosibirsk, Russia, 3 Institute of Fundamental Reviewed by: Medicine and Biology, Kazan Federal University, Kazan, Russia, 4 Department of Biological and Medical Physics, Moscow Stephanie Kehr, Institute of Physics and Technology (State University), Moscow, Russia, 5 Laboratory of Cell Biology, Federal Research and University Hospital Leipzig, Clinical Center of Physical-Chemical Medicine, Federal Medical Biological Agency, Moscow, Russia Germany Christopher Holley, Duke University, United States CRISPR technologies are nowadays widely used for targeted knockout of numerous *Correspondence: protein-coding genes and for the study of various processes and metabolic pathways in Grigory A. Stepanov human cells. Most attention in the genome editing field is now focused on the cleavage [email protected] of protein-coding genes or genes encoding long non-coding RNAs (lncRNAs), while †These authors have contributed the studies on targeted knockout of intron-encoded regulatory RNAs are sparse.
    [Show full text]
  • Regulation of Apoptosis by Long Non-Coding RNA GAS5 in Breast Cancer Cells: 1 2 Implications for Chemotherapy 3 4 5 6 7 8 9 Mark R
    View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by ChesterRep Regulation of apoptosis by long non-coding RNA GAS5 in breast cancer cells: 1 2 implications for chemotherapy 3 4 5 6 7 8 9 Mark R. Pickard* & Gwyn T. Williams* 10 11 12 Apoptosis Research Group, Institute of Science and Technology in Medicine, Huxley 13 14 15 Building, School of Life Sciences, Keele University, Keele ST5 5BG, United Kingdom. 16 17 18 19 20 21 22 23 24 25 *Corresponding authors: 26 27 28 M.R.Pickard: E-mail: [email protected]; Tel: 0044 (0)1782 733671; Fax: 0044 29 30 (0)1782 733516 31 32 33 34 G.T. Williams: E-mail: [email protected]; Tel: 0044 (0)1782 733032; Fax: 0044 35 36 (0)1782 733516 37 38 39 40 41 42 43 Running title: GAS5 and breast cancer 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 1 63 64 65 1 2 Abstract 3 4 5 Purpose: The putative tumour suppressor and apoptosis-promoting gene, growth arrest- 6 7 8 specific 5 (GAS5), encodes lncRNA and snoRNAs. Its expression is down-regulated in breast 9 10 cancer, which adversely impacts patient prognosis. In this preclinical study, the consequences 11 12 13 of decreased GAS5 expression for breast cancer cell survival following treatment with 14 15 chemotherapeutic agents are addressed. In addition, functional responses of triple-negative 16 17 18 breast cancer cells to GAS5 lncRNA are examined, and mTOR inhibition as a strategy to 19 20 enhance cellular GAS5 levels is investigated.
    [Show full text]
  • Long Non‑Coding RNA Growth Arrest‑Specific Transcript 5 in Tumor Biology
    ONCOLOGY LETTERS 10: 1953-1958, 2015 Long non‑coding RNA growth arrest‑specific transcript 5 in tumor biology (Review) XIN YU1,2* and ZHENG LI1* 1Department of Orthopaedic Surgery, Peking Union Medical College Hospital, Peking Union Medical College, Beijing 100730; 2State Key Laboratory of Cardiovascular Disease, Fuwai Hospital, National Center for Cardiovascular Diseases, Chinese Academy of Medical Sciences and Peking Union Medical College, Xicheng, Beijing 100037, P.R. China Received August 5, 2014; Accepted May 14, 2015 DOI: 10.3892/ol.2015.3553 Abstract. The recognition of the biological relevance of long 1. Introduction non-coding RNA (lncRNA) molecules has only recently been recognized as one of the most significant advances in A tumor suppressor gene is defined as a gene whose product contemporary molecular biology. A growing body of evidence normally inhibits tumor development (1,2). Tumor suppressor indicates that lncRNAs act not only as the intermediary gene mutation may predispose animals to cancer, which plays between DNA and protein but also as significant protago- a critical role in tumorigenesis (3). Previously, protein-coding nists of cellular functions. The dysregulation of lncRNAs genes were considered to be the main compartment of tumor has increasingly been linked to numerous human diseases, suppressors (4). However, more recent studies have revealed particularly cancers. Recent studies have demonstrated that that non-coding RNAs, including microRNA and long the lncRNA growth arrest-specific transcript 5 (GAS5) was non-coding RNA (lncRNA) may also play a significant role in pervasively downexpressed in most human cancers compared tumor suppression (5,6). with non-cancerous adjacent tissues including gastric, breast, LncRNA is defined as a non-protein-coding RNA molecule lung and prostate cancer.
    [Show full text]
  • The Growth-Arrest-Specific
    non-coding RNA Review The Growth-Arrest-Specific (GAS)-5 Long Non-Coding RNA: A Fascinating lncRNA Widely Expressed in Cancers Anton Scott Goustin 1,* , Pattaraporn Thepsuwan 1, Mary Ann Kosir 2 and Leonard Lipovich 1 1 Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, Detroit, MI 48201, USA 2 Karmanos Cancer Institute, Detroit, MI 48201, USA * Correspondence: [email protected] Received: 28 July 2019; Accepted: 10 September 2019; Published: 17 September 2019 Abstract: Long non-coding RNA (lncRNA) genes encode non-messenger RNAs that lack open reading frames (ORFs) longer than 300 nucleotides, lack evolutionary conservation in their shorter ORFs, and do not belong to any classical non-coding RNA category. LncRNA genes equal, or exceed in number, protein-coding genes in mammalian genomes. Most mammalian genomes harbor ~20,000 protein-coding genes that give rise to conventional messenger RNA (mRNA) transcripts. These coding genes exhibit sweeping evolutionary conservation in their ORFs. LncRNAs function via different mechanisms, including but not limited to: (1) serving as “enhancer” RNAs regulating nearby coding genes in cis; (2) functioning as scaffolds to create ribonucleoprotein (RNP) complexes; (3) serving as sponges for microRNAs; (4) acting as ribo-mimics of consensus transcription factor binding sites in genomic DNA; (5) hybridizing to other nucleic acids (mRNAs and genomic DNA); and, rarely, (6) as templates encoding small open reading frames (smORFs) that may encode short proteins. Any given lncRNA may have more than one of these functions. This review focuses on one fascinating case—the growth-arrest-specific (GAS)-5 gene, encoding a complicated repertoire of alternatively-spliced lncRNA isoforms.
    [Show full text]
  • Lncrna GAS5 Inhibits Cellular Proliferation by Targeting P27kip1
    Published OnlineFirst April 10, 2017; DOI: 10.1158/1541-7786.MCR-16-0331 Cell Cycle and Senescence Molecular Cancer Research LncRNA GAS5 Inhibits Cellular Proliferation by Targeting P27Kip1 Gang Luo1,2, Dong Liu1, Chao Huang1, Miao Wang1, Xingyuan Xiao1, Fuqing Zeng1, Liang Wang1, and Guosong Jiang1 Abstract Recent studies have demonstrated that long noncoding RNAs regulator of cell cycle, was positively regulated by GAS5 and (lncRNA) have important roles in cancer biology, and that the upregulation of GAS5 increased its promoter activity. E2F1, an downregulation of lncRNA growth arrest–specifictranscript5 important transcription factor, was shown to bind directly to (GAS5) has been reported in a variety of human cancers. and activate the P27Kip1 promoter. In addition, GAS5 interacted However, its role in prostate cancer is largely unknown. This with E2F1 and enhanced the binding of E2F1 to the P27Kip1 study aims to investigate the biological role and underlying promoter. Collectively, these findings determine that GAS5 mechanism of GAS5 on proliferation in prostate cancer. The functions as a tumor suppressor in prostate cancer develop- results demonstrate that GAS5 expression is significantly ment and progression via targeting P27Kip1. decreased in prostate cancer cells compared with prostate epithelial cells. Ectopic expression of GAS5 inhibited cell pro- Implications: This study reveals a molecular pathway involving Kip1 liferation and induced a cell-cycle arrest in G0–G1 phase, lncRNA GAS5/E2F1/P27 which regulates cell proliferation whereas GAS5 knockdown promoted the G1–S phase transi- and could be a potential therapeutic target in prostate cancer. tion. Subsequent analysis demonstrated that P27Kip1,aknown Mol Cancer Res; 15(7); 789–99.
    [Show full text]
  • The Essential Role of Long Non-Coding RNA GAS5 in Glioma
    Journal of Cancer 2021, Vol. 12 224 Ivyspring International Publisher Journal of Cancer 2021; 12(1): 224-231. doi: 10.7150/jca.49203 Review The essential role of long non-coding RNA GAS5 in glioma: interaction with microRNAs, chemosensitivity and potential as a biomarker Xuewen Tan1#, Haifeng Jiang1#, Yilong Fang1, Dafei Han1, Yawei Guo1, Xinming Wang2, Xun Gong1, Wenming Hong2, Jiajie Tu1 and Wei Wei1 1. Institute of Clinical Pharmacology, Anhui Medical University, Key Laboratory of Anti-Inflammatory and Immune Medicine, Ministry of Education, Anhui Collaborative Innovation Center of Anti-Inflammatory and Immune Medicine, Hefei, China. 2. The First Affiliated Hospital of Anhui Medical University. #These authors equally contributed to this paper. Corresponding authors: Jiajie Tu, E-mail: [email protected]; Tel: +86055165161207; Address: 81# Meishan Road, Shushan District, Hefei City, Anhui Province, China. Wei Wei, E-mail: [email protected]; Tel: +86055165161209; Address: 81# Meishan Road, Shushan District, Hefei City, Anhui Province, China. © The author(s). This is an open access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/). See http://ivyspring.com/terms for full terms and conditions. Received: 2020.06.07; Accepted: 2020.09.28; Published: 2021.01.01 Abstract Glioma is a malignant brain tumor with a generally poor prognosis. Dysregulation of a long non-coding RNA, GAS5, has been detected in numerous cancers, including glioma. Previous studies have suggested that GAS5 plays a significant functional role in glioma, affecting proliferation, metastasis, invasion, and apoptosis. In this review, we describe the roles and mechanisms of GAS5 in glioma.
    [Show full text]
  • Research Article Association Between Lncrna GAS5, MEG3, and PCAT-1 Polymorphisms and Cancer Risk: a Meta-Analysis
    Hindawi Disease Markers Volume 2020, Article ID 6723487, 13 pages https://doi.org/10.1155/2020/6723487 Research Article Association between lncRNA GAS5, MEG3, and PCAT-1 Polymorphisms and Cancer Risk: A Meta-Analysis Xiaoyan Dong ,1 Wenyan Gao,2 Xiaoling LV ,3 Yazhen Wang ,3 Qing Wu ,3 Zhouxin Yang ,3 Genxiang Mao ,3 and Wenmin Xing 3 1Department of Pharmacy and Medicine Pharmacy, Jiang Su College of Nursing, Huian, 223003, China 2Institute of Materia Medica, Zhejiang Academy of Medical Sciences, Hangzhou 310013, China 3Zhejiang Provincial Key Lab of Geriatrics, Department of Geriatrics, Zhejiang Hospital, Hangzhou 310013, China Correspondence should be addressed to Genxiang Mao; [email protected] and Wenmin Xing; [email protected] Received 27 June 2019; Revised 15 October 2019; Accepted 28 November 2019; Published 28 March 2020 Guest Editor: Ioannis Kosmas Copyright © 2020 Xiaoyan Dong et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Purpose. Long noncoding RNAs (lncRNAs) have been widely studied, and single nucleotide polymorphisms (SNPs) in lncRNAs are considered to be genetic factors that influence cancer susceptibility. The lncRNA GAS5, MEG3, and PCAT-1 polymorphisms are shown to be possibly associated with cancer risk. The aim of this meta-analysis was to systematically evaluate this association. Methods. Studies were selected from PubMed, Web of Science, Embase, Google Scholar, Cochrane Library, the Chinese National Knowledge Infrastructure (CNKI), and the Chinese Biomedical Literature Database (CBM) through inclusion and exclusion criteria. Odds ratios (ORs) and 95% confidence intervals (CIs) were calculated using the random-effects model or fixed-effects model to assess the association between lncRNA polymorphisms and cancer susceptibility.
    [Show full text]
  • The Growth Arrest-Specific Transcript 5 (GAS5) and Nuclear Receptor Subfamily 3 Group C Member 1 (NR3C1): Novel Markers Involved in Multiple Sclerosis
    ArchiveIJMC Mof SID Original Article Spring 2018, Vol 7, No 2 DOI: 10.22088/IJMCM.BUMS.7.2.102 The Growth Arrest-Specific Transcript 5 (GAS5) and Nuclear Receptor Subfamily 3 Group C Member 1 (NR3C1): Novel Markers Involved in Multiple Sclerosis Jalal Gharesouran1&, Mohammad Taheri1, 2&, Arezou Sayad1, Soudeh Ghafouri-Fard1, Mehrdokht Mazdeh3, Mir Davood Omrani1, 2∗ 1. Department of Medical Genetics, Shahid Beheshti University of Medical Sciences, Tehran, Iran. 2. Urogenital Stem Cell Research Center, Shahid Beheshti University of Medical Sciences, Tehran, Iran. 3. Neurophysiology Research Center, Hamadan University of Medical Sciences, Hamadan, Iran. Submitted 24 February 2018; Accepted 12 March 2018; Published 7 May 2018 Recent studies have revealed that long noncoding RNAs (lncRNAs) are connected with pathogenesis of neurodegenerative diseases. Additionally, glucocorticoids have fundamental regulatory roles on the immune system, and act as potent therapeutic compounds for autoimmune and inflammatory diseases. The long noncoding RNA growth arrest-specific 5 (GAS5) which accumulates inside the cells in response to cellular starvation/growth arrest, acts as a potent repressor of the glucocorticoid receptor (GR) through its glucocorticoid response element (GRE). The aim of the present study was to investigate the role of lncRNA GAS5 and its downstream target Nuclear Receptor Subfamily 3 Group C Member 1(NR3C1) in the pathogenesis of multiple sclerosis (MS), and to define the role of GAS5 in the regulation of NR3C1 expression. Quantitative polymerase chain reaction was performed for investigating the expression of GAS5 and NR3C1 in MS patients and healthy subjects. We found that GAS5 levels were up-regulated in the MS patients, blood compared with healthy subjects in correlation with NR3C1 expression.
    [Show full text]