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https://www.readbyqxmd.com/read/29042600/dynamic-and-modularized-microrna-regulation-and-its-implication-in-human-cancers
#1
Jiang Shu, Bruno Vieira Resende E Silva, Tian Gao, Zheng Xu, Juan Cui
MicroRNA is responsible for the fine-tuning of fundamental cellular activities and human disease development. The altered availability of microRNAs, target mRNAs, and other types of endogenous RNAs competing for microRNA interactions reflects the dynamic and conditional property of microRNA-mediated gene regulation that remains under-investigated. Here we propose a new integrative method to study this dynamic process by considering both competing and cooperative mechanisms and identifying functional modules where different microRNAs co-regulate the same functional process...
October 17, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29039552/prospective-lncrna-mirna-mrna-regulatory-network-of-long-non-coding-rna-linc00968-in-non-small-cell-lung-cancer-a549-cells-a-mirna-microarray-and-bioinformatics-investigation
#2
Dong-Yao Li, Wen-Jie Chen, Lei Luo, Yong-Kun Wang, Jun Shang, Yu Zhang, Gang Chen, Shi-Kang Li
Accumulating evidence suggests that the dysregulation of long non-coding RNAs (lncRNAs) serves vital roles in the incidence and progression of lung cancer. However, the molecular mechanisms of LINC00968, a recently identified lncRNA, remain unknown. The objective of present study was to investigate the role of a prospective lncRNA-miRNA‑mRNA network regulated by LINC00968 in non-small cell lung cancer cells. Following the transfection of lentiviruses carrying LINC00968 into A549 cells, the microRNA (miRNA) expression profile of the cells in response to the overexpression of LINC00968 was detected using an miRNA microarray...
October 12, 2017: International Journal of Molecular Medicine
https://www.readbyqxmd.com/read/29039473/altered-expression-profiles-of-circular-rna-in-colorectal-cancer-tissues-from-patients-with-lung-metastasis
#3
Yujian Zeng, Yu Xu, Ruo Shu, Liang Sun, Yan Tian, Chengmin Shi, Zhibin Zheng, Kunhua Wang, Huayou Luo
The lung is the most common extra-abdominal site of metastasis in colorectal cancer (CRC), in which circular RNA (circRNA) may have a crucial role. Therefore, the present study detected circRNA expression to identify novel targets to further study lung metastasis in CRC. In the present study, total RNA was extracted from CRC tissues of patients with and without lung metastasis to perform high-throughput microarray assay in order to detect differentially expressed circRNA. Following this, gene ontology (GO) and pathway analyses of the genes producing differentially expressed circRNA were performed to predict the function of circRNA using standard enrichment computational methods...
October 16, 2017: International Journal of Molecular Medicine
https://www.readbyqxmd.com/read/29038531/trpa1-fgfr2-binding-event-is-a-regulatory-oncogenic-driver-modulated-by-mirna-142-3p
#4
Jonathan Berrout, Eleni Kyriakopoulou, Lavanya Moparthi, Alexandra S Hogea, Liza Berrout, Cristina Ivan, Mihaela Lorger, John Boyle, Chris Peers, Stephen Muench, Jacobo Elies Gomez, Xin Hu, Carolyn Hurst, Thomas Hall, Sujanitha Umamaheswaran, Laura Wesley, Mihai Gagea, Michael Shires, Iain Manfield, Margaret A Knowles, Simon Davies, Klaus Suhling, Yurema Teijeiro Gonzalez, Neil Carragher, Kenneth Macleod, N Joan Abbott, George A Calin, Nikita Gamper, Peter M Zygmunt, Zahra Timsah
Recent evidence suggests that the ion channel TRPA1 is implicated in lung adenocarcinoma (LUAD), where its role and mechanism of action remain unknown. We have previously established that the membrane receptor FGFR2 drives LUAD progression through aberrant protein-protein interactions mediated via its C-terminal proline-rich motif. Here we report that the N-terminal ankyrin repeats of TRPA1 directly bind to the C-terminal proline-rich motif of FGFR2 inducing the constitutive activation of the receptor, thereby prompting LUAD progression and metastasis...
October 16, 2017: Nature Communications
https://www.readbyqxmd.com/read/29038090/variation-in-dna-damage-responses-to-an-inhalational-carcinogen-1-3-butadiene-in-relation-to-strain-specific-differences-in-chromatin-accessibility-and-gene-transcription-profiles-in-c57bl-6j-and-cast-eij-mice
#5
Grace A Chappell, Jennifer W Israel, Jeremy M Simon, Sebastian Pott, Alexias Safi, Karl Eklund, Kenneth G Sexton, Wanda Bodnar, Jason D Lieb, Gregory E Crawford, Ivan Rusyn, Terrence S Furey
BACKGROUND: The damaging effects of exposure to environmental toxicants differentially affect genetically distinct individuals, but the mechanisms contributing to these differences are poorly understood. Genetic variation affects the establishment of the gene regulatory landscape and thus gene expression, and we hypothesized that this contributes to the observed heterogeneity in individual responses to exogenous cellular insults. OBJECTIVES: We performed an in vivo study of how genetic variation and chromatin organization may dictate susceptibility to DNA damage, and influence the cellular response to such damage, caused by an environmental toxicant...
October 16, 2017: Environmental Health Perspectives
https://www.readbyqxmd.com/read/29036190/clusternomics-integrative-context-dependent-clustering-for-heterogeneous-datasets
#6
Evelina Gabasova, John Reid, Lorenz Wernisch
Integrative clustering is used to identify groups of samples by jointly analysing multiple datasets describing the same set of biological samples, such as gene expression, copy number, methylation etc. Most existing algorithms for integrative clustering assume that there is a shared consistent set of clusters across all datasets, and most of the data samples follow this structure. However in practice, the structure across heterogeneous datasets can be more varied, with clusters being joined in some datasets and separated in others...
October 16, 2017: PLoS Computational Biology
https://www.readbyqxmd.com/read/29035829/mir-129-inhibits-cell-proliferation-and-metastasis-by-targeting-ets1-via-pi3k-akt-mtor-pathway-in-prostate-cancer
#7
Song Xu, Jingping Ge, Zhengyu Zhang, Wenquan Zhou
New evidence suggests that microRNAs (miRNAs) play an important role in regulating the development and progression of prostate cancer. However, their specific functions and mechanisms remained to be further explored. MiR-129 has been reported in gastric cancers, colon cancer and lung cancer. In this study, we disclosed a new tumor suppresser function of miR-129 in prostate cancer. The purpose of our study is to clarify the effects of miR-129 in cellular processes correlated with cancer development and progression of prostate cancer cell by regulating ETS1...
October 13, 2017: Biomedicine & Pharmacotherapy, Biomédecine & Pharmacothérapie
https://www.readbyqxmd.com/read/29032169/survival-advantage-of-both-human-hepatocyte-xenografts-and-genome-edited-hepatocytes-for-treatment-of-%C3%AE-1-antitrypsin-deficiency
#8
Florie Borel, Qiushi Tang, Gwladys Gernoux, Cynthia Greer, Ziqiong Wang, Adi Barzel, Mark A Kay, Leonard D Shultz, Dale L Greiner, Terence R Flotte, Michael A Brehm, Christian Mueller
Hepatocytes represent an important target for gene therapy and editing of single-gene disorders. In α-1 antitrypsin (AAT) deficiency, one missense mutation results in impaired secretion of AAT. In most patients, lung damage occurs due to a lack of AAT-mediated protection of lung elastin from neutrophil elastase. In some patients, accumulation of misfolded PiZ mutant AAT protein triggers hepatocyte injury, leading to inflammation and cirrhosis. We hypothesized that correcting the Z mutant defect in hepatocytes would confer a selective advantage for repopulation of hepatocytes within an intact liver...
September 25, 2017: Molecular Therapy: the Journal of the American Society of Gene Therapy
https://www.readbyqxmd.com/read/29029488/integrated-analysis-of-competing-endogenous-rna-network-revealing-lncrnas-as-potential-prognostic-biomarkers-in-human-lung-squamous-cell-carcinoma
#9
Jing Sui, Si-Yi Xu, Jiali Han, Song-Ru Yang, Cheng-Yun Li, Li-Hong Yin, Yue-Pu Pu, Ge-Yu Liang
Accumulating evidence shows the important role of long non-coding RNAs (lncRNAs) in competing endogenous RNA (ceRNA) networks for predicting survival in tumor patients. However, prognostic biomarkers for lung squamous cell carcinoma (LUSC) are still lacking. The objective of this study is to identify a lncRNA signature for evaluation of overall survival (OS) in 474 LUSC patients from The Cancer Genome Atlas (TCGA) database. A total of 474 RNA sequencing profiles in LUSC patients with clinical data were obtained, providing a large sample of RNA sequencing data, and 83 LUSC-specific lncRNAs, 26 miRNAs, and 85 mRNAs were identified to construct the ceRNA network (fold change>2, P<0...
September 12, 2017: Oncotarget
https://www.readbyqxmd.com/read/29028088/antitumor-effect-of-mir-27b-3p-on-lung-cancer-cells-via-targeting-fzd7
#10
Y Sun, T Xu, Y-W Cao, X-Q Ding
OBJECTIVE:   Lung cancer is the most common malignancy with the highest mortality rate among cancers. microRNAs (miRNAs) have been confirmed to be closely related to the physiological disorder, especially the tumor process. This study aimed to investigate the effect of miR-27b-3p on lung tumor cells. MATERIALS AND METHODS: The expressions of miR-27b-3p in lung tumors and adjacent non-tumors lung tissues were compared. We test the bonding effect of miR-27b-3p on the Fzd7 promoter, and miR-27b-3p effects on the Fzd7 expression in both NCI-H446 and A549 cells...
September 2017: European Review for Medical and Pharmacological Sciences
https://www.readbyqxmd.com/read/29025589/potential-circulating-mirna-signature-for-early-detection-of-nsclc
#11
Ayda Arab, Morteza Karimipoor, Shiva Irani, Arda Kiani, Sirous Zeinali, Elham Tafsiri, Kambiz Sheikhy
Circulating microRNAs (c-miRNAs) are promising biomarkers for screening, early detection and prognosis of cancer. The purpose of this investigation was to identify a panel of c-miRNAs in plasma that could contribute to early detection of non-small cell lung cancer (NSCLC). We profiled the expression of 44 unique plasma miRNAs in training set of 34 NSCLC patients and 20 matched healthy individuals by miRCURY LNA™ Universal RT microRNA PCR Panel and calculated dysregulation fold changes using the 2-ΔΔCt equation...
October 2017: Cancer Genetics
https://www.readbyqxmd.com/read/29025258/microrna-373-inhibits-cell-proliferation-and-invasion-via-targeting-brf2-in-human-non-small-cell-lung-cancer-a549-cell-line
#12
Lei Wang, Junfeng Qu, Li Zhou, Fei Liao, Ju Wang
Purpose: The purpose of this study was to investigate the biological role and mechanism of miR-373 targeting of TFIIB-related factor 2 (BRF2) in the regulation of non-small cell lung cancer (NSCLC) cells. Methods: miRNA microarray chip analysis of four paired NSCLC and adjacent non-tumor tissues was performed. Quantitative real-time polymerase chain reaction (qRT-PCR) and western blotting were used to detect the expression levels of miR-373 and BRF2 in NSCLC tissues and cell lines...
October 12, 2017: Cancer Research and Treatment: Official Journal of Korean Cancer Association
https://www.readbyqxmd.com/read/28993685/microrna-profiling-in-lung-tissue-and-bronchoalveolar-lavage-of-cigarette-smoke-exposed-mice-and-in-copd-patients-a-translational-approach
#13
Griet Conickx, Francisco Avila Cobos, Maarten van den Berge, Alen Faiz, Wim Timens, Pieter S Hiemstra, Guy F Joos, Guy G Brusselle, Pieter Mestdagh, Ken R Bracke
Chronic obstructive pulmonary disease (COPD) is characterized by a progressive airflow limitation and is associated with a chronic inflammatory response in both airways and lungs. microRNAs (miRNAs) are often highly conserved between species and have an intricate role within homeostatic conditions and immune responses. Also, miRNAs are dysregulated in smoking-associated diseases. We investigated the miRNA profile of 523 miRNAs by stem-loop RT-qPCR in lung tissue and cell-free bronchoalveolar lavage (BAL) supernatant of mice exposed to air or cigarette smoke (CS) for 4 or 24 weeks...
October 9, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28990243/micrornas-a-novel-potential-biomarker-for-diagnosis-and-therapy-in-patients-with-non-small-cell-lung-cancer
#14
REVIEW
Qun Zhou, Shao-Xin Huang, Feng Zhang, Shu-Jun Li, Cong Liu, Yong-Yong Xi, Liang Wang, Xin Wang, Qi-Qiang He, Cheng-Cao Sun, De-Jia Li
BACKGROUND: Lung cancer is still one of the most serious causes of cancer-related deaths all over the world. MicroRNAs (miRNAs) are defined as small non-coding RNAs which could play a pivotal role in post-transcriptional regulation of gene expression. Increasing evidence demonstrated dysregulation of miRNA expression associates with the development and progression of NSCLC. AIMS: To emphasize a variety of tissue-specific miRNAs, circulating miRNAs and miRNA-derived exosomes could be used as potential diagnostic and therapeutic biomarkers in NSCLC patients...
October 8, 2017: Cell Proliferation
https://www.readbyqxmd.com/read/28984197/circular-rna-expression-profiles-and-features-in-human-tissues-a-study-using-rna-seq-data
#15
Tianyi Xu, Jing Wu, Ping Han, Zhongming Zhao, Xiaofeng Song
BACKGROUND: Circular RNA (circRNA) is one type of noncoding RNA that forms a covalently closed continuous loop. Similar to long noncoding RNA (lncRNA), circRNA can act as microRNA (miRNA) 'sponges' to regulate gene expression, and its abnormal expression is related to diseases such as atherosclerosis, nervous system disorders and cancer. So far, there have been no systematic studies on circRNA abundance and expression profiles in human adult and fetal tissues. RESULTS: We explored circRNA expression profiles using RNA-seq data for six adult and fetal normal tissues (colon, heart, kidney, liver, lung, and stomach) and four gland normal tissues (adrenal gland, mammary gland, pancreas, and thyroid gland)...
October 3, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28982084/mir-484-promotes-non-small-cell-lung-cancer-nsclc-progression-through-inhibiting-apaf-1-associated-with-the-suppression-of-apoptosis
#16
Tao Li, Zong-Li Ding, Yu-Long Zheng, Wei Wang
Increasing studies have indicated that the dysregulated microRNAs (miRNAs) are associated with tumorigenesis, development and even the poor prognosis of a variety of tumors, including the non-small-cell lung cancer (NSCLC). Here in our study, we found that miRNA-484 was expressed highly in NSCLC clinical tumor samples in comparison to the matched adjacent tissues. In addition, high and low expression of miRNA-484 was observed in NSCLC cell lines and lung normal cells, respectively. Furthermore, the capability of migration and proliferation changed accompanied with the altered expression of miR-484 in NSCLC...
October 2, 2017: Biomedicine & Pharmacotherapy, Biomédecine & Pharmacothérapie
https://www.readbyqxmd.com/read/28979809/mirna-107-enhances-chemosensitivity-to-paclitaxel-by-targeting-antiapoptotic-factor-bcl-w-in-non-small-cell-lung-cancer
#17
Chaojing Lu, Zhibing Xie, Qingzhen Peng
The aim of this study is to elucidate whether and how miR-107 participates in the modulation of paclitaxel sensitivity in non small cell lung cancer (NSCLC). By qRT-PCR, we found that miR-107 is significantly down-regulated in paclitaxel-resistant A549/Taxol cells compared with corresponding paclitaxel-sensitive counterparts. Overexpression of miR-107 suppresses paclitaxel resistance of A549/Taxol cells through directly inhibiting Bcl-w. Overexpression of miR-107 promotes apoptosis and inhibits proliferation and mobility of A549/Taxol cells under treatment with paclitaxel in vitro...
2017: American Journal of Cancer Research
https://www.readbyqxmd.com/read/28979681/mir-139-acts-as-a-tumor-suppressor-in-t-cell-acute-lymphoblastic-leukemia-by-targeting-cx-chemokine-receptor-4
#18
Ling Qin, Hui-Yang Deng, Sheng-Jiang Chen, Wei Wei, Yi-Ting Zhang
MicroRNAs (miRNAs) act as tumor regulators in T-cell acute lymphoblastic leukemia (T-ALL). However, the molecular mechanisms by which miRNA-139 (miR-139) regulates T-ALL remain unclear. In this study, we found that miR-139 was lowly expressed whereas C-X-C chemokine receptor type 4 (CXCR4) was highly expressed in T-ALL cell lines and patient samples. The T-ALL patients simultaneously with high levels of CXCR4 and low expression of miR-139 possessed poor prognosis. Moreover, the introduction of miR-139 inhibited T-ALL cell proliferation and invasion in vitro and suppressed tumor growth and lung metastasis in vivo...
2017: American Journal of Translational Research
https://www.readbyqxmd.com/read/28977880/knockdown-of-malat1-expression-inhibits-huvec-proliferation-by-upregulation-of-mir-320a-and-downregulation-of-foxm1-expression
#19
Jian-Yong Sun, Zheng-Wei Zhao, Wei-Miao Li, Guang Yang, Peng-Yu Jing, Pei Li, Hai-Zhou Dang, Zhao Chen, Yong-An Zhou, Xiao-Fei Li
Regulation of cancer angiogenesis could be a useful strategy in cancer therapy. Metastasis-associated lung adenocarcinoma transcript 1 (MALAT1) is a long non-coding RNA (lncRNA), and can induce cancer cell proliferation, while lncRNAs, generally are able to act as microRNA (miRNA) sponges. The latter is a type of competitive endogenous RNA (ceRNA) that regulates expression of the targeting miRNAs and protein-coding genes. This study investigated the proliferative role of MALAT1 in human umbilical vein endothelial cells (HUVECs) and the underlying molecular events...
September 22, 2017: Oncotarget
https://www.readbyqxmd.com/read/28977416/imota-an-interactive-multi-omics-tissue-atlas-for-the-analysis-of-human-mirna-target-interactions
#20
Valeria Palmieri, Christina Backes, Nicole Ludwig, Tobias Fehlmann, Fabian Kern, Eckart Meese, Andreas Keller
Web repositories for almost all 'omics' types have been generated-detailing the repertoire of representatives across different tissues or cell types. A logical next step is the combination of these valuable sources. With IMOTA (interactive multi omics tissue atlas), we developed a database that includes 23 725 relations between miRNAs and 23 tissues, 310 932 relations between mRNAs and the same tissues as well as 63 043 relations between proteins and the 23 tissues in Homo sapiens. IMOTA also contains data on tissue-specific interactions, e...
August 11, 2017: Nucleic Acids Research
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