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long non-coding RNAs

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https://www.readbyqxmd.com/read/28922548/lncrna-plac2-down-regulates-rpl36-expression-and-blocks-cell-cycle-progression-in-glioma-through-a-mechanism-involving-stat1
#1
Yan-Wei Hu, Chun-Min Kang, Jing-Jing Zhao, Ying Nie, Lei Zheng, Hai-Xia Li, Xin Li, Qian Wang, Yu-Rong Qiu
Current glioma therapies allow in situ delivery of cytotoxic drugs to the tumour; however, gliomas show early recurrence due to their highly proliferative character. Long non-coding (lnc)RNAs play critical roles in tumorigenesis by controlling cell proliferation and cycling. However, the mechanism of action of lncRNAs in glioma development remains unclear. Here, we report that the lncRNA PLAC2 induces cell cycle arrest by targeting ribosomal protein (RP)L36 in glioma. RPL36 promoted cell proliferation and G1/S cell cycle progression...
September 18, 2017: Journal of Cellular and Molecular Medicine
https://www.readbyqxmd.com/read/28919048/control-of-immune-cell-homeostasis-and-function-by-lncrnas
#2
REVIEW
Walter K Mowel, Jonathan J Kotzin, Sam J McCright, Vanessa D Neal, Jorge Henao-Mejia
The immune system is composed of diverse cell types that coordinate responses to infection and maintain tissue homeostasis. In each of these cells, extracellular cues determine highly specific epigenetic landscapes and transcriptional profiles to promote immunity while maintaining homeostasis. New evidence indicates that long non-coding RNAs (lncRNAs) play crucial roles in epigenetic and transcriptional regulation in mammals. Thus, lncRNAs have emerged as key regulatory molecules of immune cell gene expression programs in response to microbial and tissue-derived cues...
September 14, 2017: Trends in Immunology
https://www.readbyqxmd.com/read/28918057/one-step-piggybac-transposon-based-crispr-cas9-activation-of-multiple-genes
#3
Shenglan Li, Anqi Zhang, Haipeng Xue, Dali Li, Ying Liu
Neural cell fate is determined by a tightly controlled transcription regulatory network during development. The ability to manipulate the expression of multiple transcription factors simultaneously is required to delineate the complex picture of neural cell development. Because of the limited carrying capacity of the commonly used viral vectors, such as lentiviral or retroviral vectors, it is often challenging to perform perturbation experiments on multiple transcription factors. Here we have developed a piggyBac (PB) transposon-based CRISPR activation (CRISPRa) all-in-one system, which allows for simultaneous and stable endogenous transactivation of multiple transcription factors and long non-coding RNAs...
September 15, 2017: Molecular Therapy. Nucleic Acids
https://www.readbyqxmd.com/read/28918050/the-function-and-therapeutic-potential-of-long-non-coding-rnas-in-cardiovascular-development-and-disease
#4
REVIEW
Clarissa P C Gomes, Helen Spencer, Kerrie L Ford, Lauriane Y M Michel, Andrew H Baker, Costanza Emanueli, Jean-Luc Balligand, Yvan Devaux
The popularization of genome-wide analyses and RNA sequencing led to the discovery that a large part of the human genome, while effectively transcribed, does not encode proteins. Long non-coding RNAs have emerged as critical regulators of gene expression in both normal and disease states. Studies of long non-coding RNAs expressed in the heart, in combination with gene association studies, revealed that these molecules are regulated during cardiovascular development and disease. Some long non-coding RNAs have been functionally implicated in cardiac pathophysiology and constitute potential therapeutic targets...
September 15, 2017: Molecular Therapy. Nucleic Acids
https://www.readbyqxmd.com/read/28918043/mir-206-133b-cluster-a-weapon-against-lung-cancer
#5
REVIEW
Jing-Yu Pan, Cheng-Cao Sun, Zhuo-Yue Bi, Zhen-Long Chen, Shu-Jun Li, Qing-Qun Li, Yu-Xuan Wang, Yong-Yi Bi, De-Jia Li
Lung cancer is a deadly disease that ends numerous lives around the world. MicroRNAs (miRNAs) are a group of non-coding RNAs involved in a variety of biological processes, such as cell growth, organ development, and tumorigenesis. The miR-206/133b cluster is located on the human chromosome 6p12.2, which is essential for growth and rebuilding of skeletal muscle. The miR-206/133b cluster has been verified to be dysregulated and plays a crucial role in lung cancer. miR-206 and miR-133b participate in lung tumor cell apoptosis, proliferation, migration, invasion, angiogenesis, drug resistance, and cancer treatment...
September 15, 2017: Molecular Therapy. Nucleic Acids
https://www.readbyqxmd.com/read/28916343/the-role-of-a-new-class-of-long-noncoding-rnas-transcribed-from-ultraconserved-regions-in-cancer
#6
REVIEW
Daniela Terracciano, Sara Terreri, Filomena de Nigris, Valerio Costa, George A Calin, Amelia Cimmino
Ultraconserved regions (UCRs) represent a relatively new class of non-coding genomic sequences highly conserved between human, rat and mouse genomes. These regions can reside within exons of protein-coding genes, despite the vast majority of them localizes within introns or intergenic regions. Several studies have undoubtedly demonstrated that most of these regions are actively transcribed in normal cells/tissues, where they contribute to regulate many cellular processes. Interestingly, these non-coding RNAs exhibit aberrant expression levels in human cancer cells and their expression profiles have been used as prognostic factors in human malignancies, as well as to unambiguously distinguish among distinct cancer types...
September 12, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/28915581/up-regulation-of-linc00161-correlates-with-tumor-migration-and-invasion-and-poor-prognosis-of-patients-with-hepatocellular-carcinoma
#7
Li-Chao Xu, Quan-Ning Chen, Xi-Qiang Liu, Xiao-Ming Wang, Qi-Meng Chang, Qi Pan, Lu Wang, Yi-Lin Wang
Accumulating evidence suggested that long non-coding RNAs (lncRNAs) play essential roles in various biological processes, including tumorigenesis. Aberrant expression of LINC00161 has been reported in some cancer types, however, the association of LINC00161 and hepatocellular carcinoma (HCC) has not been evaluated. Here, we measured the expression of LINC00161 in HCC tissues and corresponding normal liver tissues using real-time PCR. The result showed that the expression level of LINC00161 was significantly higher in HCC tissues...
August 22, 2017: Oncotarget
https://www.readbyqxmd.com/read/28913654/discriminating-cirrnas-from-other-lncrnas-using-a-hierarchical-extreme-learning-machine-h-elm-algorithm-with-feature-selection
#8
Lei Chen, Yu-Hang Zhang, Guohua Huang, Xiaoyong Pan, ShaoPeng Wang, Tao Huang, Yu-Dong Cai
As non-coding RNAs, circular RNAs (cirRNAs) and long non-coding RNAs (lncRNAs) have attracted an increasing amount of attention. They have been confirmed to participate in many biological processes, including playing roles in transcriptional regulation, regulating protein-coding genes, and binding to RNA-associated proteins. Until now, the differences between these two types of non-coding RNAs have not been fully uncovered. It is still quite difficult to detect cirRNAs from other lncRNAs using simple techniques...
September 14, 2017: Molecular Genetics and Genomics: MGG
https://www.readbyqxmd.com/read/28911096/distinct-regulation-of-alternative-polyadenylation-and-gene-expression-by-nuclear-poly-a-polymerases
#9
Weimin Li, Wencheng Li, Rakesh S Laishram, Mainul Hoque, Zhe Ji, Bin Tian, Richard A Anderson
Polyadenylation of nascent RNA by poly(A) polymerase (PAP) is important for 3' end maturation of almost all eukaryotic mRNAs. Most mammalian genes harbor multiple polyadenylation sites (PASs), leading to expression of alternative polyadenylation (APA) isoforms with distinct functions. How poly(A) polymerases may regulate PAS usage and hence gene expression is poorly understood. Here, we show that the nuclear canonical (PAPα and PAPγ) and non-canonical (Star-PAP) PAPs play diverse roles in PAS selection and gene expression...
September 6, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28910376/long-non-coding-rna-set-and-mir-155-regulate-the-tnf%C3%AE-gene-allelic-expression-profile
#10
Chrysoula Stathopoulou, Manouela Kapsetaki, Kalliopi Stratigi, Charalampos Spilianakis
It is becoming increasingly appreciated that the non-coding genome may have a great impact on the regulation of chromatin structure and gene expression. The innate immune response can be mediated upon lipopolysaccharide stimulation of macrophages which leads to immediate transcriptional activation of early responsive genes including tumor necrosis factor alpha (Tnfα). The functional role of non-coding RNAs, such as lncRNAs and microRNAs, on the transcriptional activation of proinflammatory genes and the subsequent regulation of the innate immune response is still lacking mechanistic insights...
2017: PloS One
https://www.readbyqxmd.com/read/28904641/histone-code-and-long-non-coding-rnas-lncrnas-aberrations-in-lung-cancer-implications-in-the-therapy-response
#11
REVIEW
Abril Marcela Herrera-Solorio, Leonel Armas-López, Oscar Arrieta, Joaquín Zúñiga, Patricia Piña-Sánchez, Federico Ávila-Moreno
Respiratory diseases hold several genome, epigenome, and transcriptional aberrations as a cause of the accumulated damage promoted by, among others, environmental risk factors. Such aberrations can also come about as an adaptive response when faced with therapeutic oncological drugs. In epigenetic terms, aberrations in DNA methylation patterns, histone code marks balance, and/or chromatin-remodeling complexes recruitment, among Polycomb Repressive Complex-2 (PRC2) versus Trithorax (TRX) Activator Complex, have been proposed to be affected by several previously characterized functional long non-coding RNAs (lncRNAs)...
2017: Clinical Epigenetics
https://www.readbyqxmd.com/read/28903050/changes-in-the-coding-and-non-coding-transcriptome-and-dna-methylome-that-define-the-schwann-cell-repair-phenotype-after-nerve-injury
#12
Peter J Arthur-Farraj, Claire C Morgan, Martyna Adamowicz, Jose A Gomez-Sanchez, Shaline V Fazal, Anthony Beucher, Bonnie Razzaghi, Rhona Mirsky, Kristjan R Jessen, Timothy J Aitman
Repair Schwann cells play a critical role in orchestrating nerve repair after injury, but the cellular and molecular processes that generate them are poorly understood. Here, we perform a combined whole-genome, coding and non-coding RNA and CpG methylation study following nerve injury. We show that genes involved in the epithelial-mesenchymal transition are enriched in repair cells, and we identify several long non-coding RNAs in Schwann cells. We demonstrate that the AP-1 transcription factor C-JUN regulates the expression of certain micro RNAs in repair Schwann cells, in particular miR-21 and miR-34...
September 12, 2017: Cell Reports
https://www.readbyqxmd.com/read/28901436/taurine%C3%A2-upregulated-gene-1-a-vital-long-non%C3%A2-coding-rna-associated-with-cancer-in-humans-review
#13
Wen-Yu Wang, Yan-Fen Wang, Pei Ma, Tong-Peng Xu, Yong-Qian Shu
It is widely reported that long non‑coding RNAs (lncRNAs) are involved in regulating cell differentiation, proliferation, apoptosis and other biological processes. Certain lncRNAs have been found to be crucial in various types of tumor. Taurine‑upregulated gene 1 (TUG1) has been shown to be expressed in a tissue‑specific pattern and exert oncogenic or tumor suppressive functions in different types of cancer in humans. According to previous studies, TUG1 is predominantly located in the nucleus and may regulate gene expression at the transcriptional level...
September 12, 2017: Molecular Medicine Reports
https://www.readbyqxmd.com/read/28901433/expression-of-long-non%C3%A2-coding-rnas-in-human-bone-marrow-mesenchymal-stem-cells-co%C3%A2-cultured-with-human-amnion%C3%A2-derived-mesenchymal-stem-cells
#14
Jingjing Wang, Jing Miao, Xin Meng, Ning Chen, Yuli Wang
Long non‑coding RNAs (lncRNAs) serve a critical role in various biological processes including cell growth, transcriptional regulation and differentiation. Previous studies have demonstrated that human amnion‑derived mesenchymal stem cells (HAMSCs) possess the potential to promote proliferation and osteogenic differentiation of human bone marrow mesenchymal stem cells (HBMSCs). However, little is known about the roles of lncRNAs in these mechanisms. The present study investigated the expression of lncRNAs in HBMSCs co‑cultured with HAMSCs to study their involvement in the mechanism of osteogenic differentiation...
September 12, 2017: Molecular Medicine Reports
https://www.readbyqxmd.com/read/28900683/microrna-in-immune-regulation
#15
Cheng-Jang Wu, Li-Fan Lu
The immune system protects us from enormously diverse microbial pathogens but needs to be tightly regulated to avoid deleterious immune-mediated inflammation and tissue damage. A wide range of molecular determinants and cellular components work in concert to control the magnitude and duration of a given immune response. In the past decade, microRNAs (miRNAs), a major class of small non-coding RNA species, have been extensively studied as key molecular players in immune regulation. In this chapter, we will discuss how miRNAs function as negative regulators to restrict innate and adaptive immune responses...
September 13, 2017: Current Topics in Microbiology and Immunology
https://www.readbyqxmd.com/read/28900495/differentially-expressed-lncrnas-in-gastric-cancer-patients-a-potential-biomarker-for-gastric-cancer-prognosis
#16
Xianglong Tian, Xiaoqiang Zhu, Tingting Yan, Chenyang Yu, Chaoqin Shen, Jie Hong, Haoyan Chen, Jing-Yuan Fang
Current studies indicate that long non-coding RNAs (lncRNAs) are frequently aberrantly expressed in cancers and implicated with prognosis in gastric cancer (GC). We intended to generate a multi-lncRNA signature to improve prognostic prediction of GC. By analyzing ten paired GC and adjacent normal mucosa tissues, 339 differentially expressed lncRNAs were identified as the candidate prognostic biomarkers in GC. Then we used LASSO Cox regression method to build a 12-lncRNA signature and validated it in another independent GEO dataset...
2017: Journal of Cancer
https://www.readbyqxmd.com/read/28900427/catalog-of-differentially-expressed-long-non-coding-rna-following-activation-of-human-and-mouse-innate-immune-response
#17
Benoit T Roux, James A Heward, Louise E Donnelly, Simon W Jones, Mark A Lindsay
Despite increasing evidence to indicate that long non-coding RNAs (lncRNAs) are novel regulators of immunity, there has been no systematic attempt to identify and characterize the lncRNAs whose expression is changed following the induction of the innate immune response. To address this issue, we have employed next-generation sequencing data to determine the changes in the lncRNA profile in four human (monocytes, macrophages, epithelium, and chondrocytes) and four mouse cell types (RAW 264.7 macrophages, bone marrow-derived macrophages, peritoneal macrophages, and splenic dendritic cells) following exposure to the pro-inflammatory mediators, lipopolysaccharides (LPS), or interleukin-1β...
2017: Frontiers in Immunology
https://www.readbyqxmd.com/read/28899458/long-noncoding-rna-malat1-functions-as-a-sponge-of-mir-200c-in-ovarian-cancer
#18
Meili Pa, Gulimire Naizaer, Ayinuer Seyiti, Gulina Kuerbang
Previous researches have revealed that alteration of non-coding RNAs expression level in malignancies can significantlymodify the course of diseases. Current study was aimed to investigate the biological functions of lncRNA MALAT1 and miR-200c, as well as the interaction between them. Quantitative real-time polymerase chain reaction (qRT-PCR) showed that lncRNA MALAT1 was overexpressed in ovarian cancer tissues and cell lines in compare to adjacent normal tissue and normal human ovarian surface epithelial cells (HOSEPiCs)...
September 11, 2017: Oncology Research
https://www.readbyqxmd.com/read/28899360/biological-networks-in-parkinson-s-disease-an-insight-into-the-epigenetic-mechanisms-associated-with-this-disease
#19
Paulami Chatterjee, Debjani Roy, Malay Bhattacharyya, Sanghamitra Bandyopadhyay
BACKGROUND: Parkinson's disease (PD) is the second most prevalent neurodegenerative disorders in the world. Studying PD from systems biology perspective involving genes and their regulators might provide deeper insights into the complex molecular interactions associated with this disease. RESULT: We have studied gene co-expression network obtained from a PD-specific microarray data. The co-expression network identified 11 hub genes, of which eight genes are not previously known to be associated with PD...
September 12, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28894972/gene-regulation-of-mammalian-long-non-coding-rna
#20
REVIEW
Heeyoun Bunch
RNA polymerase II (Pol II) transcribes two classes of RNAs, protein-coding and non-protein-coding (ncRNA) genes. ncRNAs are also synthesized by RNA polymerases I and III (Pol I and III). In humans, the number of ncRNA genes exceeds more than twice that of protein-coding genes. However, the history of studying Pol II-synthesized ncRNA is relatively short. Since early 2000s, important biological and pathological functions of these ncRNA genes have begun to be discovered and intensively studied. And transcription mechanisms of long non-coding RNA (lncRNA) have been recently reported...
September 11, 2017: Molecular Genetics and Genomics: MGG
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