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LncRNAs

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https://www.readbyqxmd.com/read/29165713/protein-complex-scaffolding-predicted-as-a-prevalent-function-of-long-non-coding-rnas
#1
Diogo M Ribeiro, Andreas Zanzoni, Andrea Cipriano, Riccardo Delli Ponti, Lionel Spinelli, Monica Ballarino, Irene Bozzoni, Gian Gaetano Tartaglia, Christine Brun
The human transcriptome contains thousands of long non-coding RNAs (lncRNAs). Characterizing their function is a current challenge. An emerging concept is that lncRNAs serve as protein scaffolds, forming ribonucleoproteins and bringing proteins in proximity. However, only few scaffolding lncRNAs have been characterized and the prevalence of this function is unknown. Here, we propose the first computational approach aimed at predicting scaffolding lncRNAs at large scale. We predicted the largest human lncRNA-protein interaction network to date using the catRAPID omics algorithm...
November 20, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/29165588/novel-phosphate-deficiency-responsive-long-non-coding-rnas-in-the-legume-model-plant-medicago-truncatula
#2
Tianzuo Wang, Mingui Zhao, Xiuxiu Zhang, Min Liu, Chenge Yang, Yuhui Chen, Rujin Chen, Jiangqi Wen, Kirankumar S Mysore, Wen-Hao Zhang
Emerging evidence indicates that long non-coding RNAs (lncRNAs) play important roles in the regulation of many biological processes. Inhibition of plant growth due to deficiency in soil inorganic phosphate (Pi) occurs widely across natural and agricultural ecosystems; however, we know little about the function of plant lncRNAs in response to Pi deficiency. To address this issue, we first identified 10 785 lncRNAs in the legume model species Medicago truncatula by sequencing eight strand-specific libraries. Out of these lncRNAs, 358 and 224 were responsive to Pi deficiency in the leaves and roots, respectively...
November 20, 2017: Journal of Experimental Botany
https://www.readbyqxmd.com/read/29164588/lncrna-hoxa11-as-is-involved-in-fracture-healing-through-regulating-mir-124-3p
#3
X-N Wang, L-H Zhang, X-D Cui, M-X Wang, G-Y Zhang, P-L Yu
OBJECTIVE: Long noncoding RNAs (lncRNAs) have been reported to participate in many diseases. Fracture healing is one of these ordinary diseases. This study aims to identify how lncRNA HOXA11-AS affects the progression of fracture healing. MATERIALS AND METHODS: RT-qPCR was performed to detect the level of HOXA11-AS. Moreover, function assays including cell growth assay and cell apoptosis assay were performed to explore how HOXA11-AS functions in fracture healing...
November 2017: European Review for Medical and Pharmacological Sciences
https://www.readbyqxmd.com/read/29164575/long-non-coding-rna-xloc_010235-correlates-with-poor-prognosis-and-promotes-tumorigenesis-of-hepatocellular-carcinoma
#4
F Yang, Y Jiang, L-Z Lv
OBJECTIVE: Hepatocellular carcinoma (HCC) is one of the most prevalent malignancies worldwide. Long non-coding RNAs (lncRNAs) are novel proposed non-coding RNAs, and play critical roles in tumorigenesis. However, the clinical significance, biological role and molecular mechanism of ncRNAs in HCC still remain largely elusive. The aim of this study was to uncover the clinical value and biological role of XLOC_010235 (XLOC), which has been demonstrated as an oncogene in gastric cancer, in HCC...
November 2017: European Review for Medical and Pharmacological Sciences
https://www.readbyqxmd.com/read/29163801/long-non-coding-rna-ccat1-modulates-neuropathic-pain-progression-through-sponging-mir-155
#5
Lidong Dou, Hongqi Lin, Kaiwei Wang, Guosong Zhu, Xuli Zou, Enqiang Chang, Yongfeng Zhu
Neuropathic pain is caused by dysfunction or primary injury of the somatosensory nervous system. Long noncoding RNAs (lncRNAs) play important roles in the development of neuropathic pain. However, the effects of lncRNA colon cancer associated transcript-1 (CCAT1) in neuropathic pain have not been reported. The model of bilateral sciatic nerve chronic constriction injuries (bCCI) is regarded as long-lasting mechanical hypersensitivity and cold allodynia, which is the representative symptom in the human subjects suffering from the neuropathic pain...
October 27, 2017: Oncotarget
https://www.readbyqxmd.com/read/29163367/a-testis-specific-long-non-coding-rna-lncrna-tcam1-regulates-immune-related-genes-in-mouse-male-germ-cells
#6
Misuzu Kurihara, Kai Otsuka, Shin Matsubara, Akira Shiraishi, Honoo Satake, Atsushi P Kimura
Spermatogenesis is precisely controlled by hormones from the hypothalamus-pituitary-gonadal axis and testis-specific genes, but the regulatory mechanism is not fully understood. Recently, a large number of long non-coding RNAs (lncRNAs) are found to be transcribed at each stage of meiosis of male germ cells, and their functions in spermatogenesis have yet to be fully investigated. lncRNA-testicular cell adhesion molecule 1 (lncRNA-Tcam1) is a nuclear lncRNA which is specifically expressed in mouse male germ cells and presumed to play a role in gene regulation during meiosis...
2017: Frontiers in Endocrinology
https://www.readbyqxmd.com/read/29160413/long-non-coding-rna-chchd4p4-promotes-epithelial-mesenchymal-transition-and-inhibits-cell-proliferation-in-calcium-oxalate-induced-kidney-damage
#7
C Zhang, J Yuan, H Hu, W Chen, M Liu, J Zhang, S Sun, Z Guo
Kidney stone disease is a major cause of chronic renal insufficiency. The role of long non-coding RNAs (lncRNAs) in calcium oxalate-induced kidney damage is unclear. Therefore, we aimed to explore the roles of lncRNAs in glyoxylate-exposed and healthy mouse kidneys using microarray technology and bioinformatics analyses. A total 376 mouse lncRNAs were differentially expressed between the two groups. Using BLAST, 15 lncRNA homologs, including AU015836 and CHCHD4P4, were identified in mice and humans. The AU015836 expression in mice exposed to glyoxylate and the CHCHD4P4 expression in human proximal tubular epithelial (HK-2) cells exposed to calcium oxalate monohydrate were analyzed, and both lncRNAs were found to be upregulated in response to calcium oxalate...
November 13, 2017: Brazilian Journal of Medical and Biological Research, Revista Brasileira de Pesquisas Médicas e Biológicas
https://www.readbyqxmd.com/read/29159834/linc00473-antagonizes-the-tumour-suppressor-mir-195-to-mediate-the-pathogenesis-of-wilms-tumour-via-ikk%C3%AE
#8
Shibo Zhu, Wen Fu, Liyu Zhang, Kai Fu, Jinhua Hu, Wei Jia, Guochang Liu
OBJECTIVES: Although dramatic improvements of overall survival has achieved in patients with favourable histology Wilms tumour, disease recurrence is still the main cause of cancer-related death in childhood. Long non-coding RNAs (lncRNAs) as oncogenes or tumour suppressors are dysregulated during carcinogenesis. However, the role of lncRNAs in the pathogenesis of Wilms tumour is unknown. Here, an lncRNA LINC00473 signature that functioned as oncogene was identified in Wilms tumour. METHODS: Wilms tumour (n = 15) and relative normal tissues were collected...
November 20, 2017: Cell Proliferation
https://www.readbyqxmd.com/read/29158793/long-non-coding-rnas-in-colorectal-cancer-progression-and-future-directions
#9
Yongzhi Yang, Peng Junjie, Cai Sanjun, Yanlei Ma
Identification of the colorectal adenoma-carcinoma sequence with its corresponding genetic and epigenetic alterations has significantly increased our knowledge of the etiopathogenesis of colorectal cancer (CRC). However, the molecular mechanisms of colorectal carcinogenesis and metastasis haven't been clearly elucidated. Long non-coding ribonucleic acids (lncRNAs) are key participants of gene regulations rather than "noises". Accumulative studies have implicated that the aberrant expressions of lncRNAs are tightly corelated to CRC screening, diagnosis, prognosis and therapeutic outcomes...
2017: Journal of Cancer
https://www.readbyqxmd.com/read/29158595/genome-wide-identification-of-long-non-coding-rna-genes-and-their-association-with-insecticide-resistance-and-metamorphosis-in-diamondback-moth-plutella-xylostella
#10
Feiling Liu, Dianhao Guo, Zhuting Yuan, Chen Chen, Huamei Xiao
Long non-coding RNA (lncRNA) is a class of noncoding RNA >200 bp in length that has essential roles in regulating a variety of biological processes. Here, we constructed a computational pipeline to identify lncRNA genes in the diamondback moth (Plutella xylostella), a major insect pest of cruciferous vegetables. In total, 3,324 lncRNAs corresponding to 2,475 loci were identified from 13 RNA-Seq datasets, including samples from parasitized, insecticide-resistant strains and different developmental stages...
November 20, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29156779/selecting-lncrnas-in-gastric-cancer-cells-for-directed-therapy-with-bioactive-peptides-and-chemotherapy-drugs
#11
Wenyan Han, Rui Xiao, Chuanling Zhang, Qimuge Suyila, Xian Li, Xiulan Su
Selecting lncRNAs for directed therapy with bioactive peptides and chemotherapy drugs may be an effective approach to treating gastric cancer (GC). We show genome-scale identification and characterization of differentially expressed lncRNAs in GC cells treated with a novel anti-cancer bioactive peptide (ACBP) and the chemotherapy drug oxaliplatin (ASLB). A total of 17,897 lncRNAs were identified through pairwise comparison, including 2,074 novel lncRNAs. Of those, 1,386 lncRNAs were differentially expressed (over 1...
October 17, 2017: Oncotarget
https://www.readbyqxmd.com/read/29156758/development-of-novel-long-noncoding-rna-malat1-near-infrared-optical-probes-for-in-vivo-tumour-imaging
#12
Meng-Jie Dong, Cai-Qin Wang, Guo-Lin Wang, Yue-Hong Wang, Zhen-Feng Liu
With the advent of next-generation sequencing technology, there is rapidly increasing interest in long noncoding RNAs (lncRNAs). The objectives of this study were to develop a novel lncRNA MALAT1 near-infrared optical probe, to evaluate the characteristics of this optical imaging probe in vitro and to determine whether it can be used for imaging MALAT1 expression in malignant tumours in vivo. Conjugation of Cy5.5 to MALAT1 ASO was accomplished using standard NHS (N-hydroxysuccinimide) ester procedures, and the labelled MALAT1 ASO was purified with a Glen-Pak DNA Purification Cartridge and reversed-phase high performance liquid chromatography (HPLC)...
October 17, 2017: Oncotarget
https://www.readbyqxmd.com/read/29156733/an-integrated-lncrna-microrna-and-mrna-signature-to-improve-prognosis-prediction-of-colorectal-cancer
#13
Yongfu Xiong, Rong Wang, Linglong Peng, Wenxian You, Jinlai Wei, Shouru Zhang, Xingye Wu, Jinbao Guo, Jun Xu, Zhenbing Lv, Zhongxue Fu
Although the outcome of patients with colorectal cancer (CRC) has improved significantly, prognosis evaluation still presents challenges due to the disease heterogeneity. Increasing evidences revealed the close correlation between aberrant expression of certain RNAs and the prognosis. We envisioned that combined multiple types of RNAs into a single classifier could improve postoperative risk classification and add prognostic value to the current stage system. Firstly, differentially expressed RNAs including mRNAs, miRNAs and lncRNAs were identified by two different algorithms...
October 17, 2017: Oncotarget
https://www.readbyqxmd.com/read/29156724/lncrna-pvt1-and-its-splicing-variant-function-as-competing-endogenous-rna-to-regulate-clear-cell-renal-cell-carcinoma-progression
#14
Tao Yang, Hui Zhou, Peijun Liu, Libin Yan, Weimin Yao, Ke Chen, Jin Zeng, Heng Li, Junhui Hu, Hua Xu, Zhangqun Ye
Long non-coding RNAs (lncRNAs) exert critical regulatory roles in the development and progression of several cancers. Plasmacytoma variant translocation 1 (PVT1), an lncRNA, was shown to be upregulated in clear cell renal cell carcinoma (ccRCC) in our study, while Kaplan-Meier curve and Cox regression analysis showed that high expression of PVT1 was associated with poor overall survival (OS) and disease free survival (DFS) in ccRCC patients. In vitro experiments revealed that PVT1 promoted renal cancer cell proliferation, migration, and invasion, while in vivo studies confirmed its oncogenic roles in ccRCC...
October 17, 2017: Oncotarget
https://www.readbyqxmd.com/read/29156700/linc00152-suppresses-apoptosis-and-promotes-migration-by-sponging-mir-4767-in-vascular-endothelial-cells
#15
Wei Teng, Chunguang Qiu, Zhaohui He, Guoliang Wang, Yongliang Xue, Xuezhi Hui
Dysfunction of vascular endothelial cells (VECs), such as increased apoptosis and diminished migration, is closely connected with most cardiovascular diseases and angiogenesis-related events. LncRNAs have been involved in regulation of many pathological processes, but their roles in vascular endothelial function are hardly underreported. Here, we explore the role of a intergenic lncRNA named linc00152 in the apoptosis and migration of VECs. We found that linc00152 was downregulated in human umbilical vein VECs (HUVECs) in a dose- and time-dependent manner following treatment with oxLDL, which is a typical proinflammatory factor in the initiation and progression of vascular endothelial dysfunction...
October 17, 2017: Oncotarget
https://www.readbyqxmd.com/read/29156520/long-noncoding-rna-linc00961-inhibits-cell-invasion-and-metastasis-in-human-non-small-cell-lung-cancer
#16
Bin Jiang, Jing Liu, Yu-Hong Zhang, Dong Shen, Shaoping Liu, Feng Lin, Jun Su, Qing-Feng Lin, Shuai Yan, Yong Li, Wei-Dong Mao, Zhi-Li Liu
Long noncoding RNAs (LncRNAs) expression has been found to be misregulated in multiple human cancers, and a growing number of studies have revealed that lncRNAs can function as important oncogenes or tumor suppressors. In this study, we identified a lncRNA-LINC00961, which was significantly down-regulated in human non-small cell lung cancer tissues. Decreased LINC00961 was associated with NSCLC patients advanced clinical stage, lymph node metastasis, and shorter survival time. Further experiments demonstrated that LSD1 could directly bind to LINC00961 promoter regions and epigenetically repress its transcription in NSCLC cells...
November 14, 2017: Biomedicine & Pharmacotherapy, Biomédecine & Pharmacothérapie
https://www.readbyqxmd.com/read/29154475/identification-and-analysis-of-a-key-long-non-coding-rnas-lncrnas-associated-module-reveal-functional-lncrnas-in-cardiac-hypertrophy
#17
Jian Zhang, Chenchen Feng, Chao Song, Bo Ai, Xuefeng Bai, Yuejuan Liu, Xuecang Li, Jianmei Zhao, Shengshu Shi, Xin Chen, Xiaojie Su, Chunquan Li
Cardiac hypertrophy (CH) is a common disease that originates from long-term heart pressure overload and finally leads to heart failure. Recently, long non-coding RNAs (lncRNAs) have attracted attention because they have broad and crucial functions in regulating complex biological processes. Some studies had found that lncRNAs play vital roles in complex cardiovascular diseases. However, the function and mechanism of lncRNAs in CH have not been elucidated. In our study, to investigate the potential roles of lncRNAs in CH, the Cardiac Hypertrophy-associated LncRNAs-Protein coding genes Network (CHLPN) was constructed by integrating gene microarray re-annotation and subpathway enrichment analyses...
November 20, 2017: Journal of Cellular and Molecular Medicine
https://www.readbyqxmd.com/read/29152741/neat1-acts-as-an-inducer-of-cancer-stem-cell-like-phenotypes-in-nsclc-by-inhibiting-egcg-upregulated-ctr1
#18
Pan Jiang, Aochang Chen, Xiaoyue Wu, Ming Zhou, Ijaz Ul Haq, Zahula Mariyam, Qing Feng
Long non-coding RNAs (lncRNAs) play significant roles in the pathogenesis of various cancers, including lung cancer. In this study, we aimed to investigate the biological function of lncRNA nuclear enriched abundant transcript 1 (NEAT1) in cancer stem cells (CSCs). CSCs have been suggested as the main cause of tumor metastasis, tumor recurrence and chemotherapy resistance. The copper transporter 1 (CTR1) has been the focus of many recent studies because of its correlation with cisplatin (CDDP) resistance. So far, the mechanism of how NEAT1 regulates CSCs in NSCLC remains unknown...
November 19, 2017: Journal of Cellular Physiology
https://www.readbyqxmd.com/read/29152671/comparative-transcriptome-analysis-provides-insights-into-differentially-expressed-genes-and-long-non-coding-rnas-between-ovary-and-testis-of-the-mud-crab-scylla-paramamosain
#19
Xiaolong Yang, Mhd Ikhwanuddin, Xincang Li, Fan Lin, Qingyang Wu, Yueling Zhang, Cuihong You, Wenhua Liu, Yinwei Cheng, Xi Shi, Shuqi Wang, Hongyu Ma
The molecular mechanism underlying sex determination and gonadal differentiation of the mud crab (Scylla paramamosain) has received considerable attention, due to the remarkably biological and economic differences between sexes. However, sex-biased genes, especially non-coding genes, which account for these differences, remain elusive in this crustacean species. In this study, the first de novo gonad transcriptome sequencing was performed to identify both differentially expressed genes and long non-coding RNAs (lncRNAs) between male and female S...
November 20, 2017: Marine Biotechnology
https://www.readbyqxmd.com/read/29152149/the-long-non-coding-rna-crnde-acts-as-a-cerna-and-promotes-glioma-malignancy-by-preventing-mir-136-5p-mediated-downregulation-of-bcl-2-and-wnt2
#20
Dong-Xue Li, Xiao-Rui Fei, Yong-Fei Dong, Chuan-Dong Cheng, Yang Yang, Xue-Fei Deng, Hai-Liang Huang, Wan-Xiang Niu, Chen-Xu Zhou, Cheng-Yu Xia, Chao-Shi Niu
The colorectal neoplasia differentially expressed (CRNDE) gene encodes a long non-coding RNA (lncRNA) that is the most unregulated among 129 lncRNAs differentially expressed in gliomas. In this study, we confirmed high CRNDE expression in clinical glioma specimens and observed through experiments in human glioma cell lines a novel molecular mechanism by which CRNDE may contribute to glioma pathogenesis. By inducing or silencing CRNDE expression, we detected a positive correlation between CRNDE levels and the proliferative, migratory, and invasive capacities of glioma cells, which were concomitant with a decreased apoptosis rate...
October 20, 2017: Oncotarget
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