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https://www.readbyqxmd.com/read/28436883/a-bipartite-network-and-resource-transfer-based-approach-to-infer-lncrna-environmental-factor-associations
#1
Jie Zhou, Yuan-Yuan Shi
Phenotypes and diseases are often determined by the complex interactions between genetic factors and environmental factors (EFs). However, compared with protein-coding genes and microRNAs, there is a paucity of computational methods for understanding the associations between long non-coding RNAs (lncRNAs) and EFs. In this study, we focused on the associations between lncRNA and EFs. By using the common miRNA partners of any pair of lncRNA and EF, based on the competing endogenous RNA (ceRNA) hypothesis and the technique of resources transfer within the experimentally-supported lncRNA-miRNA and miRNA-EF association bipartite networks, we propose an algorithm for predicting new lncRNA-EF associations...
April 18, 2017: IEEE/ACM Transactions on Computational Biology and Bioinformatics
https://www.readbyqxmd.com/read/28424426/circular-rna-hsa-circ-0016347-promotes-proliferation-invasion-and-metastasis-of-osteosarcoma-cells
#2
Hao Jin, Xin Jin, Hong Zhang, Wenbo Wang
Circular RNAs (circRNAs) are a novel class of non-coding RNA which have recently shown huge capabilities in the regulation of gene expression at the post-transcriptional level. Growing evidence has indicated that circRNAs could serve as competing endogenous RNAs (ceRNAs) to bind with microRNAs (miRNAs) and to inhibit the activity and function of the targeted miRNAs. Here, we demonstrated that circ-0016347 acted as a positive regulator in osteosarcoma cells proliferation and invasion. Moreover, circ-0016347 was identified as a sponge of miR-214 that upregulated the expression of caspase-1, which is the functional target of miR-214...
March 10, 2017: Oncotarget
https://www.readbyqxmd.com/read/28423738/lncrna-snhg1-a-non-degradable-sponge-for-mir-338-promotes-expression-of-proto-oncogene-cst3-in-primary-esophageal-cancer-cells
#3
Yan Yan, Qingxia Fan, Liping Wang, Yue Zhou, Jianhua Li, Kun Zhou
Competing endogenous RNA (ceRNA) is a newly proposed mechanism that describes a crosstalk among lncRNAs, mRNAs and their shared miRNAs. In this study, the role of miR-338-3p (miR-338) in the progression of esophageal cancer and its involve in the ceRNA regulatory circuit lncRNA-Snhg1/CST3 were explored. MiR-338 displayed a 30% decreased expression in esophageal squamous cell carcinoma tissues compared with the adjacent. Then, proto-oncogene CST3 was predicted and validated as a target gene of miR-338. Gain-and-loss-function experiments indicated that miR-338 suppressed expression of CST3 protein (also Cystatin C, CysC), promoted expression of apoptotic proteins caspase-8/3, attenuated esophageal carcinoma cell growth and induced its apoptosis...
March 14, 2017: Oncotarget
https://www.readbyqxmd.com/read/28415684/the-long-noncoding-rna-linc-ned125-controls-the-expression-of-medulloblastoma-driver-genes-by-microrna-sponge-activity
#4
Pietro Laneve, Agnese Po, Annarita Favia, Ivano Legnini, Vincenzo Alfano, Jessica Rea, Valerio Di Carlo, Valeria Bevilacqua, Evelina Miele, Angela Mastronuzzi, Andrea Carai, Franco Locatelli, Irene Bozzoni, Elisabetta Ferretti, Elisa Caffarelli
Long noncoding RNAs (lncRNAs) are major regulators of physiological and disease-related gene expression, particularly in the central nervous system. Dysregulated lncRNA expression has been documented in several human cancers, and their tissue-specificity makes them attractive candidates as diagnostic/prognostic biomarkers and/or therapeutic agents. Here we show that linc-NeD125, which we previously characterized as a neuronal-induced lncRNA, is significantly overexpressed in Group 4 medulloblastomas (G4 MBs), the largest and least well characterized molecular MB subgroup...
March 9, 2017: Oncotarget
https://www.readbyqxmd.com/read/28409554/lncrna-ccat1-upregulates-proliferation-and-invasion-in-melanoma-cells-via-suppressing-mir-33a
#5
Li Lv, Jian-Qin Jia, Jin Chen
It is increasingly evident that various long non-coding RNAs (lncRNAs) participate in the tumorigenesis of multiple tumors, including melanoma. LncRNA has been validated as oncogenic factor in multifarious tumor, however, the potential regulatory mechanism of CCAT1 in melanoma is still unclear. The purpose of this study is to investigate the regulation of CCAT1 on melanoma genesis. The expression of CCAT1 in melanoma tissue and cell lines was measured using qRT-PCR. Interference oligonucleotide or mimics sequences were applied to up- or down-regulate RNA expression...
April 12, 2017: Oncology Research
https://www.readbyqxmd.com/read/28406715/competitive-endogenous-rna-network-potential-implication-for-systemic-lupus-erythematosus
#6
Lian-Ju Li, Wei Zhao, Sha-Sha Tao, Rui-Xue Leng, Yin-Guang Fan, Hai-Feng Pan, Dong-Qing Ye
Competitive endogenous RNA (ceRNA) hypothesis proposes that RNA transcripts, both coding and non-coding, crosstalk with and coregulate each other using microRNA response elements (MREs). CeRNA analysis tremendously expands functional information of coding and non-coding RNAs. Mounting evidence have shown that various types of RNAs, including pseudogenes, long non-coding RNAs, circular RNAs, and messenger RNAs, can function as ceRNAs in distinct physiological and pathophysiological states. Many validated ceRNA pairs participate in the initiation and progression of cancers, and systemic ceRNA network analyses revealing potential of ceRNAs in diagnosis, therapy, and prognosis of cancers have also been performed...
April 23, 2017: Expert Opinion on Therapeutic Targets
https://www.readbyqxmd.com/read/28404936/systematic-identification-and-comparison-of-expressed-profiles-of-lncrnas-and-circrnas-with-associated-co-expression-and-cerna-networks-in-mouse-germline-stem-cells
#7
Xiaoyong Li, Junping Ao, Ji Wu
Accumulating evidence indicates that long noncoding RNAs (lncRNAs) and circular RNAs (circRNAs) involve in germ cell development. However, little is known about the functions and mechanisms of lncRNAs and circRNAs in self-renewal and differentiation of germline stem cells. Therefore, we explored the expression profiles of mRNAs, lncRNAs, and circRNAs in male and female mouse germline stem cells by high-throughput sequencing. We identified 18573 novel lncRNAs and 18822 circRNAs in the germline stem cells and further confirmed the existence of these lncRNAs and circRNAs by RT-PCR...
February 25, 2017: Oncotarget
https://www.readbyqxmd.com/read/28400279/snhg1-lncrna-negatively-regulates-mir-199a-3p-to-enhance-cdk7-expression-and-promote-cell-proliferation-in-prostate-cancer
#8
Jianping Li, Zhipeng Zhang, Li Xiong, Chuan Guo, Tao Jiang, Lilan Zeng, Ge Li, Juan Wang
Long noncoding RNAs (lncRNAs) have been reported to play vital roles in the development of human cancers, but our understandings of most lncRNAs in cancers are still limited. Recently, accumlating evidences have showed that many RNA transcripts could function as competing endogenous RNAs (ceRNAs) by competitively binding common microRNAs. In this study, we demonstrated that a lncRNA, Small Nucleolar RNA Host Gene 1 (SNHG1), as a ceRNA for miR-199a-3p, played a critical role in prostate cancer cell proliferation...
May 20, 2017: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/28393969/-evaluation-of-an-instrument-assessing-the-satisfaction-of-ophthalmological-emergency-service-users-in-chile
#9
Fabiola Werlinger C, Francisco Andrighetti C, Nicolás Salazar S, Ignacio Cerna S, Miguel Campos G, Patricio Bustamante V
BACKGROUND: Ocular trauma is a distressing condition feared by the general public. AIM: To evaluate the construct validity and internal consistency of an instrument to measure the level of user satisfaction in patients treated at an Ocular Trauma and Ophthalmological Emergency Unit. MATERIAL AND METHODS: A survey to measure user satisfaction was applied to patients consulting at the Ocular Trauma Unit in a public hospital on April 2014. Internal consistency and construct validity from the estimated Cronbach alpha coefficient and factor analysis were assessed...
January 2017: Revista Médica de Chile
https://www.readbyqxmd.com/read/28380516/integrated-analysis-of-non-coding-rna-and-mrna-expression-profiles-of-2-pig-breeds-differing-in-muscle-traits
#10
J Sun, M Xie, Z Huang, H Li, T Chen, R Sun, J Wang, Qianyun Xi, T Wu, Y Zhang
Production of high-quality meat is important to satisfy the consumer and allow the pork industry to be competitive. It is evident that different muscle fiber types in different breeds greatly influence the pork quality, but the underlying molecular mechanism remains unclear. We used Ribo-Zero RNA-Seq and miRNA-Seq to examine global expressions of protein-coding transcripts and non-coding RNAs including miRNA, lncRNA, and circRNA in the longissimus dorsi of Landrace and Lantang pigs. Of the 22,469 identified coding transcripts, only 547 candidates were differentially expressed, including 461 upregulated and 86 downregulated transcripts in the Lantang pigs compared with Landrace...
March 2017: Journal of Animal Science
https://www.readbyqxmd.com/read/28379612/the-long-non-coding-rna-tp73-as1-interacted-with-mir-142-to-modulate-brain-glioma-growth-through-hmgb1-rage-pathway
#11
Rong Zhang, Hekun Jin, Fan Lou
P73 antisense RNA 1T (non-protein coding), also known as TP73-AS1 or PDAM, is a long non-coding RNA which may regulate apoptosis via regulation of p53-dependent anti-apoptotic genes. An abnormal change of TP73-AS1 expression was noticed in cancers. The effects of TP73-AS1 in brain glioma growth and the underlying mechanism remain unclear so far. In the present study, TP73-AS1 was specifically upregulated in brain glioma tissues and cell lines and was associated with poorer prognosis in patients with glioma...
April 5, 2017: Journal of Cellular Biochemistry
https://www.readbyqxmd.com/read/28338650/risk-factors-associated-to-hospital-mortality-in-patients-with-acute-kidney-injury-on-hemodialysis
#12
Mariela Alejandra Linares-Linares, Jorge Arturo Figueroa-Tarrillo, Renato Cerna Viacava, Nilton Yhuri Carreazo, Renzo P Valdivia-Vega
INTRODUCTION: The worldwide incidence of acute kidney injury is 18% and the overall hospital mortality can rise above 50%. In Peru, there are few series about mortality of acute kidney injury in hemodialysis patients. OBJECTIVES: To identify risk factors associated to hospital mortality of acute kidney injury in hemodialysis patients. METHODS: This is a retrospective cohort of patients with acute kidney injury in hemodialysis of Hospital Nacional Edgardo Rebagliati Martins gathered between January 2013 and December 2015...
March 6, 2017: Medwave
https://www.readbyqxmd.com/read/28337266/long-non-coding-rna-uca1-promotes-cell-progression-by-acting-as-a-competing-endogenous-rna-of-atf2-in-prostate-cancer
#13
Shilong Zhang, Xinxin Dong, Tongyu Ji, Guoxiao Chen, Lei Shan
Prostate cancer (PCa) is a leading cause of cancer-related deaths in elder men. This disease has limited therapeutic options and poor prognosis as the underlying molecular mechanisms are not clearly understood. LncRNA UCA1 functions as an oncogene in many types of cancers. However, the role of UCA1 in PCa remains unclear. In the present study, we showed that UCA1 was significantly up-regulated in PCa cell lines and tissue samples. High UCA1 expression was positively associated with high gleason score, advanced TNM stage and shorter overall survival of PCa patients...
2017: American Journal of Translational Research
https://www.readbyqxmd.com/read/28333080/a-review-epigenetic-mechanism-in-ochratoxin-a-toxicity-studies
#14
REVIEW
Liye Zhu, Boyang Zhang, Yaqi Dai, Hongyu Li, Wentao Xu
Ochratoxin A (OTA) is a natural contaminant that has displayed nephrotoxicity and hepatotoxicity in mammals. It contaminates a great variety of foodstuffs and threatens people's lives. The molecular mechanism of OTA-induced toxicity has been studied since 1965. Moreover, epigenetic mechanisms are also studied in OTA-induced toxicity. Additionally, the mode of OTA epigenetic research has been advanced in research hotspots. However, there is still no epigenetic study of OTA-induced toxicity. In this review, we discuss the relationship between these epigenetic mechanisms and OTA-induced toxicity...
March 23, 2017: Toxins
https://www.readbyqxmd.com/read/28322996/assessing-the-mirna-sponge-potential-of-runx1t1-in-t-8-21-acute-myeloid-leukemia
#15
Alexander Junge, Roza Zandi, Jakob Hull Havgaard, Jan Gorodkin, Jack Bernard Cowland
t(8;21) acute myeloid leukemia (AML) is characterized by a translocation between chromosomes 8 and 21 and formation of a distinctive RUNX1-RUNX1T1 fusion transcript. This translocation places RUNX1T1 under control of the RUNX1 promoter leading to a pronounced upregulation of RUNX1T1 transcripts in t(8;21) AML, compared to normal hematopoietic cells. We investigated the role of highly-upregulated RUNX1T1 under the hypothesis that it acts as competing endogenous RNA (ceRNA) titrating microRNAs (miRNAs) away from their target transcripts and thus contributes to AML formation...
June 5, 2017: Gene
https://www.readbyqxmd.com/read/28321591/naked-in-the-old-and-the-new-world-differences-and-analogies-in-descriptions-of-european-and-american-herbae-nudae-in-the-sixteenth-century
#16
Lucie Čermáková, Jana Černá
The sixteenth century could be understand as a period of renaissance of interest in nature and as a period of development of natural history as a discipline. The spreading of the printing press was connected to the preparation of new editions of Classical texts and to the act of correcting and commenting on these texts. This forced scholars to confront texts with living nature and to subject it to more careful investigation. The discovery of America uncovered new horizons and brought new natural products, which were exotic and unknown to Classical tradition...
March 20, 2017: Journal of the History of Biology
https://www.readbyqxmd.com/read/28318703/duodenal-gangliocytic-paraganglioma-treatment-through-endoscopic-resection
#17
B D Palomino-Martínez, H Espino-Cortés, J Cerna-Cardona, L E Godínez-Martínez, M A Chávez-García
No abstract text is available yet for this article.
March 16, 2017: Revista de Gastroenterología de México
https://www.readbyqxmd.com/read/28316060/hotair-functions-as-a-competing-endogenous-rna-to-regulate-pten-expression-by-inhibiting-mir-19-in-cardiac-hypertrophy
#18
Yanjun Lai, Shuai He, Liming Ma, Hong Lin, Biyun Ren, Jing Ma, Xinyu Zhu, Shifang Zhuang
Sustained cardiac hypertrophy (CH) is related to a variety of physiological as well as pathological stimuli and eventually increases the risk of heart failure. HOTAIR has been identified as a competing endogenous RNA in multiple human biological processes. Whether lncRNA-HOTAIR is involved in the progress of CH and how it works still remain unknown. Herein, we found that HOTAIR was down-regulated, while miR-19 was up-regulated in both heart tissues from TAC-operated mice in vivo and cultural cardiomyocytes treated with Ang-II in vitro by real-time PCR...
March 18, 2017: Molecular and Cellular Biochemistry
https://www.readbyqxmd.com/read/28302487/tug1-mediates-methotrexate-resistance-in-colorectal-cancer-via-mir-186-cpeb2-axis
#19
Changfeng Li, Yongjian Gao, Yongchao Li, Dayong Ding
Colorectal cancer (CRC) is a common malignancy, most of which remain unresponsive to chemotherapy. Methotrexate (MTX) is one of the earliest cytotoxic drugs and serves as an anti-metabolite and anti-folate chemotherapy for various types of cancer. However, MTX resistance prevents its clinical application in cancer therapy. Thereby, overcoming the drug resistance is an alternative strategy to maximize the efficacy of MTX therapies in clinics. Long non-coding RNAs (lncRNAs) have gained widespread attention in recent years...
March 13, 2017: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/28292523/exercise-qtc-is-associated-with-diffuse-interstitial-fibrosis-reflected-by-lower-approximated-t1-relaxation-time-in-hypertrophic-cardiomyopathy-patients
#20
Celia P Corona-Villalobos, Sudip Saha, Iraklis Pozios, David Hurtado-de-Mendoza Paz, Lars Sorensen, Jorge Gonzalez Cordoba, Ketty Dolores-Cerna, Ihab R Kamel, Wilfredo Mormontoy Laurel, David A Bluemke, Theodore P Abraham, Stefan L Zimmerman, M Roselle Abraham
No abstract text is available yet for this article.
February 12, 2017: Journal of Electrocardiology
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