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https://www.readbyqxmd.com/read/27911863/correlation-of-long-non-coding-rna-h19-expression-with-cisplatin-resistance-and-clinical-outcome-in-lung-adenocarcinoma
#1
Qi Wang, Ningning Cheng, Xuefei Li, Hui Pan, Chunyu Li, Shengxiang Ren, Chunxia Su, Weijing Cai, Chao Zhao, Limin Zhang, Caicun Zhou
The acquired drug resistance would influence the efficacy of cisplatin-based chemotherapy in non-small-cell lung cancer. The present study aimed to investigate the correlation of long non-coding RNA (lncRNA) H19 with cisplatin-resistance and clinical outcome in lung adenocarcinoma. In our study, the expression of H19 in cisplatin-resistant A549/DDP cells was unregulated. Knockdown of H19 restored the response of A549/DDP cells to cisplatin. H19-mediated chemosensitivity enhancement was associated with metastasis, induction of G0/G1 cell-cycle arrest, cell proliferation, and increased apoptosis...
November 29, 2016: Oncotarget
https://www.readbyqxmd.com/read/27910046/exosomes-based-gene-therapy-for-microrna-delivery
#2
Prabhu Mathiyalagan, Susmita Sahoo
Despite recent advances in scientific knowledge and clinical practice, cardiovascular disease management and treatment remain a major burden. While several treatment strategies using drugs and surgeries are being developed for cardiovascular manifestations, gene-based therapies hold significant promise. Recent findings from our laboratory unveiled a novel mechanism that exosomes, secreted nanovesicles from stem cells, mediate cardiac repair via transferring their unique repertoire of microRNAs (miRNA) to recipient cells in the heart...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/27906860/liquid-biopsy-for-early-detection-of-lung-cancer
#3
Paul Hofman
PURPOSE OF REVIEW: The possibility of complete recovery for a lung cancer patient depends on very early diagnosis, as it allows total surgical resection. Screening for this cancer in a high-risk population can be performed using a radiological approach, but this holds a certain number of limitations. Liquid biopsy could become an alternative and complementary screening approach to chest imaging for early diagnosis of lung cancer. RECENT FINDINGS: Several circulating biomarkers indicative of lung cancer can be investigated in blood, such as circulating tumor cells, circulating free nucleic acids (RNA and DNA) and proteins...
January 2017: Current Opinion in Oncology
https://www.readbyqxmd.com/read/27906459/integrative-genomic-analysis-identifies-ancestry-related-expression-quantitative-trait-loci-on-dna-polymerase-%C3%AE-and-supports-the-association-of-genetic-ancestry-with-survival-disparities-in-head-and-neck-squamous-cell-carcinoma
#4
Meganathan P Ramakodi, Karthik Devarajan, Elizabeth Blackman, Denise Gibbs, Danièle Luce, Jacqueline Deloumeaux, Suzy Duflo, Jeffrey C Liu, Ranee Mehra, Rob J Kulathinal, Camille C Ragin
BACKGROUND: African Americans with head and neck squamous cell carcinoma (HNSCC) have a lower survival rate than whites. This study investigated the functional importance of ancestry-informative single-nucleotide polymorphisms (SNPs) in HNSCC and also examined the effect of functionally important genetic elements on racial disparities in HNSCC survival. METHODS: Ancestry-informative SNPs, RNA sequencing, methylation, and copy number variation data for 316 oral cavity and laryngeal cancer patients were analyzed across 178 DNA repair genes...
December 1, 2016: Cancer
https://www.readbyqxmd.com/read/27904778/long-non-coding-rna-ccat2-promotes-gastric-cancer-proliferation-and-invasion-by-regulating-the-e-cadherin-and-lats2
#5
Yong-Jun Wang, Jian-Zhen Liu, Pei Lv, Yi Dang, Jiang-Yan Gao, Yong Wang
Dysregulation of long non-coding RNAs (lncRNAs) play important roles in tumor development and progression. The long non-coding RNA CCAT2 has been identified to be up-regulated in gastric cancer (GC). However, the detailed molecular mechanism of CCAT2 involved in GC progression is still unknown. The aim of this study was to explore the expression and role of CCAT2 in GC progression. In the study, the expression levels of CCAT2 were significantly up-regulated in 108 cases GC tissues compared with adjacent non-tumor tissues by qRT-PCR analysis...
2016: American Journal of Cancer Research
https://www.readbyqxmd.com/read/27902702/selective-inhibitor-of-nuclear-export-sine-compounds-alter-new-world-alphavirus-capsid-localization-and-reduce-viral-replication-in-mammalian-cells
#6
Lindsay Lundberg, Chelsea Pinkham, Cynthia de la Fuente, Ashwini Brahms, Nazly Shafagati, Kylie M Wagstaff, David A Jans, Sharon Tamir, Kylene Kehn-Hall
The capsid structural protein of the New World alphavirus, Venezuelan equine encephalitis virus (VEEV), interacts with the host nuclear transport proteins importin α/β1 and CRM1. Novel selective inhibitor of nuclear export (SINE) compounds, KPT-185, KPT-335 (verdinexor), and KPT-350, target the host's primary nuclear export protein, CRM1, in a manner similar to the archetypical inhibitor Leptomycin B. One major limitation of Leptomycin B is its irreversible binding to CRM1; which SINE compounds alleviate because they are slowly reversible...
November 2016: PLoS Neglected Tropical Diseases
https://www.readbyqxmd.com/read/27902466/long-non-coding-rna-urothelial-carcinoma-associated-1-uca1-mediates-radiation-response-in-prostate-cancer
#7
Alireza Fotouhi Ghiam, Samira Taeb, Xiaoyong Huang, Vincent Huang, Jessica Ray, Seville Scarcello, Christianne Hoey, Sahar Jahangiri, Emmanouil Fokas, Andrew Loblaw, Robert G Bristow, Danny Vesprini, Paul Boutros, Stanley K Liu
Radioresistance remains a significant obstacle in the treatment of Prostate Cancer (PCa). To simulate the clinical scenario of irradiation resistance (IRR), we created DU145-IRR PCa cell lines by treatment with 2 Gy daily IR for 59 fractions. DU145-IRR cells acquired an aggressive phenotype as evidenced by increased clonogenic survival, tumorigenic potential and invasiveness. We performed transcriptome profiling to discover dysregulated genes in DU145-IRR cells and identified the long non-coding RNA (lncRNA), Urothelial carcinoma-associated 1 (UCA1)...
November 24, 2016: Oncotarget
https://www.readbyqxmd.com/read/27895787/runx2-expression-a-mesenchymal-stem-marker-for-cancer
#8
Maria Teresa Valenti, Paola Serafini, Giulio Innamorati, Anna Gili, Samuele Cheri, Claudio Bassi, Luca Dalle Carbonare
The transcription factor runt-related transcription factor 2 (Runx2) is a master gene implicated in the osteogenic differentiation of mesenchymal stem cells, and thus serves a determinant function in bone remodelling and skeletal integrity. Various signalling pathways regulate Runx2 abundance, which requires a number of molecules to finely modulate its expression. Furthermore, this gene may be ectopically-expressed in cancer cells. Recent studies have reported the involvement of Runx2 in cell proliferation, epithelial-mesenchymal transition, apoptosis and metastatic processes, suggesting it may represent a useful therapeutic target in cancer treatment...
November 2016: Oncology Letters
https://www.readbyqxmd.com/read/27893832/evolutionary-algorithm-for-rna-secondary-structure-prediction-based-on-simulated-shape-data
#9
Soheila Montaseri, Mohammad Ganjtabesh, Fatemeh Zare-Mirakabad
BACKGROUND: Non-coding RNAs perform a wide range of functions inside the living cells that are related to their structures. Several algorithms have been proposed to predict RNA secondary structure based on minimum free energy. Low prediction accuracy of these algorithms indicates that free energy alone is not sufficient to predict the functional secondary structure. Recently, the obtained information from the SHAPE experiment greatly improves the accuracy of RNA secondary structure prediction by adding this information to the thermodynamic free energy as pseudo-free energy...
2016: PloS One
https://www.readbyqxmd.com/read/27891121/hypovirulence-of-sclerotium-rolfsii-caused-by-associated-rna-mycovirus
#10
Jie Zhong, Dan Chen, Hong J Zhu, Bi D Gao, Qian Zhou
Mycoviruses associated with hypovirulence are potential biological control agents and could be useful to study the pathogenesis of fungal host pathogens. Sclerotium rolfsii, a pathogenic fungus, causes southern blight in a wide variety of crops. In this study, we isolated a series of dsRNAs from a debilitated S. rolfsii strain, BLH-1, which had pronounced phenotypic aberrations including reduced pathogenicity, mycelial growth and deficient sclerotia production. Virus-curing and horizontal transmission experiments that eliminated or transmitted, respectively, all dsRNA elements showed that the dsRNAs were involved in the hypovirulent traits of BLH-1...
2016: Frontiers in Microbiology
https://www.readbyqxmd.com/read/27890026/electrostatic-capture-following-laser-microdissection-for-the-preparation-of-homogeneous-biological-specimens
#11
Dingrong Yi, Linghua Kong, Ranjith K Kankala, Zi Wang
There is an unmet need for researchers in life sciences and clinical pathology to obtain untainted target cells with very high accuracy, which are suitable for subsequent genome and protein analysis. In this paper, an electrostatic capture laser microdissection technology (ECM) is proposed and explained. Following microscopic identification and separation of target cells from the surrounding tissues using laser cutting, the ECM uses electrostatic forces to capture target cells. Validation experiments indicate that ECM can capture a wide assortment of contamination-free homogeneous samples, ranging from very tiny pieces of a few micrometers in diameter to large pieces with a surface area of over 40,000 µm2...
November 28, 2016: Microscopy and Microanalysis
https://www.readbyqxmd.com/read/27888420/endocan-as-a-prognostic-biomarker-of-triple-negative-breast-cancer
#12
Atsunobu Sagara, Katsuhide Igarashi, Maky Otsuka, Akihiro Kodama, Mutsumi Yamashita, Rei Sugiura, Takeshi Karasawa, Kazuhiko Arakawa, Michiko Narita, Naoko Kuzumaki, Minoru Narita, Yoshinori Kato
PURPOSE: Triple-negative breast cancer (TNBC) has aggressive characteristics and fewer treatment options than other subtypes. The purpose of this study was to explore prognostic biomarkers for TNBC that can be easily detected from the blood samples. METHODS: MDA-MB-231 and MDA-MB-231BR, a brain metastatic variant of the human TNBC cell line MDA-MB-231, were used as less and more aggressive models of TNBC, respectively. The extent to which the candidate gene/protein identified by RNA sequencing correlated well with aggressiveness of TNBC and how much protein was detected from the blood of tumor-bearing mice were evaluated...
November 25, 2016: Breast Cancer Research and Treatment
https://www.readbyqxmd.com/read/27886256/structural-insights-into-the-interaction-of-the-ribosomal-p-stalk-protein-p2-with-a-type-ii-ribosome-inactivating-protein-ricin
#13
Xiaojiao Fan, Yuwei Zhu, Chongyuan Wang, Liwen Niu, Maikun Teng, Xu Li
Ricin is a type II ribosome-inactivating protein (RIP) that depurinates A(4324) at the sarcin-ricin loop of 28 S ribosomal RNA (rRNA), thus inactivating the ribosome by preventing elongation factors from binding to the GTPase activation centre. Recent studies have disclosed that the conserved C-terminal domain (CTD) of eukaryotic ribosomal P stalk proteins is involved in the process that RIPs target ribosome. However, the details of the molecular interaction between ricin and P stalk proteins remain unknown...
November 25, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27882350/plasma-vesicle-mirnas-for-therapy-response-monitoring-in-hodgkin-lymphoma-patients
#14
Monique A J van Eijndhoven, Josée M Zijlstra, Nils J Groenewegen, Esther E E Drees, Stuart van Niele, S Rubina Baglio, Danijela Koppers-Lalic, Hans van der Voorn, Sten F W M Libregts, Marca H M Wauben, Renee X de Menezes, Jan R T van Weering, Rienk Nieuwland, Lydia Visser, Anke van den Berg, Daphne de Jong, D Michiel Pegtel
BACKGROUND. Cell-free circulating nucleic acids, including 22-nt microRNAs (miRNAs), represent noninvasive biomarkers for treatment response monitoring of cancer patients. While the majority of plasma miRNA is bound to proteins, a smaller, less well-characterized pool is associated with extracellular vesicles (EVs). Here, we addressed whether EV-associated miRNAs reflect metabolic disease in classical Hodgkin lymphoma (cHL) patients. METHODS. With standardized size-exclusion chromatography (SEC), we isolated EV-associated extracellular RNA (exRNA) fractions and protein-bound miRNA from plasma of cHL patients and healthy subjects...
November 17, 2016: JCI Insight
https://www.readbyqxmd.com/read/27878359/long-noncoding-rna-gas5-inhibits-malignant-proliferation-and-chemotherapy-resistance-to-doxorubicin-in-bladder-transitional-cell-carcinoma
#15
Hui Zhang, Yan Guo, Yongsheng Song, Chao Shang
PURPOSE: Bladder cancer is the most general malignant cancer in genitourinary system, more than 90% of BCs are bladder transitional cell carcinomas (BTCC). This study aimed to investigate the clinical significance of growth arrest-specific 5 (GAS5) gene and its regulatory effects of malignant proliferation and chemotherapy resistance to doxorubicin in BTCC cells. METHODS: The expression of GAS5 was detected by quantitative real-time PCR. Statistical analysis was used to determine the relationship between GAS5 expression and clinical features and the prognostic value of GAS5 for disease free survival...
November 22, 2016: Cancer Chemotherapy and Pharmacology
https://www.readbyqxmd.com/read/27878295/silencing-of-the-long-non-coding-rna-neat1-suppresses-glioma-stem-like-properties-through-modulation-of-the-mir-107-cdk6-pathway
#16
Xiaoli Yang, Zheng Xiao, Xiaowei Du, Lina Huang, Ganqin Du
Developing novel strategies against glioma remains a significant challenge. Long non-coding RNA nuclear paraspeckle assembly transcript 1 (NEAT1) significantly contributes to the progression of many human cancers, while glioma stem cells (GSCs) are believed to be responsible for tumor progression. However, whether NEAT1 alters the stem-like properties of GSC cells remains unknown. Using microbeads, CD133+ cells were isolated and were found to possess glioma stem cell properties. Using siRNA, NEAT1 was knocked down in the sorted CD133+ U87 glioma cells...
November 22, 2016: Oncology Reports
https://www.readbyqxmd.com/read/27877879/a-stem-less-probe-using-spontaneous-pairing-between-cy3-and-quencher-for-rna-detection
#17
Hiromu Kashida, Kazuhiro Morimoto, Hiroyuki Asanuma
We herein report a stem-less probe for the detection of RNA that depends on pairing between Cy3 and nitro methyl red. In our design, two Cy3 residues and two nitro methyl red residues were introduced into an oligonucleotide. In the absence of the target, these dyes formed a complex, and emission of Cy3 was efficiently quenched. Hybridization with the target RNA disrupted this interaction and resulted in Cy3 emission. Under optimized conditions, the signal to background ratio was as high as 180. We demonstrated specific detection of target RNA in cells using a wash-free FISH protocol...
2016: Science and Technology of Advanced Materials
https://www.readbyqxmd.com/read/27873270/analysis-of-ebv-transcription-using-high-throughput-rna-sequencing
#18
Tina O'Grady, Melody Baddoo, Erik K Flemington
High-throughput sequencing of RNA is used to analyze the transcriptomes of viruses and cells, providing information about transcript structure and abundance. A wide array of programs and pipelines has been created to manage and interpret the abundance of data generated from high-throughput RNA sequencing experiments. This protocol details the use of free and open-source programs to align RNA-Seq reads to a reference genome, visualize read coverage and splice junctions, estimate transcript abundance, and evaluate differential expression of transcripts in different conditions...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/27866197/rs56288038-c-g-in-3-utr-of-irf-1-regulated-by-mir-502-5p-promotes-gastric-cancer-development
#19
Bo Wang, Huan Yang, Liqin Shen, Ji Wang, Wangyang Pu, Zhigang Chen, Xudong Shen, Jinxiang Fu, Zhixiang Zhuang
BACKGROUND/AIMS: Interferon regulatory factor 1 (IRF-1) has been shown to function as a transcriptional activator or repressor of a variety of target genes. However, its upstream, non-coding RNA-related regulatory capacity remains unknown. In this study, we focus on the miRNA-associated single nucleotide polymorphisms (SNPs) in the 3'untranslated region (UTR) of IRF-1 to further investigate the functional relationship and potential diagnostic value of the SNPs and miRNAs among Chinese gastric cancer (GC) patients...
2016: Cellular Physiology and Biochemistry
https://www.readbyqxmd.com/read/27858985/analysis-of-ribosomal-inter-subunit-sites-as-targets-for-complementary-oligonucleotides
#20
Sapna G Thoduka, Paul A Zaleski, Zofia Dąbrowska, Marcin Równicki, Joanna Stróżecka, Anna Górska, Mikołaj Olejniczak, Joanna Trylska
The bacterial ribosome has many functional ribosomal RNA (rRNA) sites. We have computationally analyzed the rRNA regions involved in the interactions between the 30S and 50S subunits. Various properties of rRNA such as solvent accessibility, opening energy, hydrogen bonding pattern, van der Waals energy, thermodynamic stability were determined. Based on these properties we selected rRNA targets for hybridization with complementary 2'-O-methyl oligoribonucleotides (2'-OMe RNAs). Further, the inhibition efficiencies of the designed ribosome-interfering 2'-OMe RNAs were tested using a β-galactosidase assay in a translation system based on the E...
November 17, 2016: Biopolymers
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