keyword
MENU ▼
Read by QxMD icon Read
search

Circular rna

keyword
https://www.readbyqxmd.com/read/28211525/focus-on-pna-flexibility-and-rna-binding-using-molecular-dynamics-and-metadynamics
#1
Massimiliano Donato Verona, Vincenzo Verdolino, Ferruccio Palazzesi, Roberto Corradini
Peptide Nucleic Acids (PNAs) can efficiently target DNA or RNA acting as chemical tools for gene regulation. Their backbone modification and functionalization is often used to increase the affinity for a particular sequence improving selectivity. The understanding of the trading forces that lead the single strand PNA to bind the DNA or RNA sequence is preparatory for any further rational design, but a clear and unique description of this process is still not complete. In this paper we report further insights into this subject, by a computational investigation aiming at the characterization of the conformations of a single strand PNA and how these can be correlated to its capability in binding DNA/RNA...
February 17, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28211215/zkscan1-gene-and-its-related-circular-rna-circzkscan1-both-inhibit-hepatocellular-carcinoma-cell-growth-migration-and-invasion-but-through-different-signaling-pathways
#2
Zhicheng Yao, Jingyan Luo, Kunpeng Hu, Jizong Lin, He Huang, Qiangliang Wang, Peng Zhang, Zhiyong Xiong, Zejian Huang, Chonghua He, Bo Liu, Yang Yang
There is increasing evidence that circular RNAs (circRNAs) are involved in cancer development, but the regulation and function of human circRNAs remain largely unknown. In this study, we demonstrated that ZKSCAN1, a zinc finger family gene, is expressed in both linear and circular (circZKSCAN1) forms of RNA in human hepatocellular carcinoma (HCC) tissues and cell lines. Here, we analyzed a cohort of 102 patients and found that expression of both ZKSCAN1 mRNA and circZKSCAN1 was significantly lower (P<0.05) in the HCC samples compared with that in matched adjacent non-tumorous tissues by reverse transcription PCR (RT-PCR)...
February 16, 2017: Molecular Oncology
https://www.readbyqxmd.com/read/28210726/exploring-the-interaction-of-phenothiazinium-dyes-methylene-blue-new-methylene-blue-azure-a-and-azure-b-with-trna-phe-spectroscopic-thermodynamic-voltammetric-and-molecular-modeling-approach
#3
Puja Paul, Soumya Sundar Mati, Subhash Chandra Bhattacharya, Gopinatha Suresh Kumar
This study focuses on the understanding of the interaction of phenothiazinium dyes methylene blue (MB), new methylene blue (NMB), azure A (AZA) and azure B (AZB) with tRNA(Phe) with particular emphasis on deciphering the mode and energetics of the binding. Strong intercalative binding to tRNA(Phe) was observed for MB, NMB and AZB, bound by a partial intercalative mode. AZA has shown groove binding characteristics. From spectroscopic studies binding affinity values of the order of 10(5) M(-1) were deduced for these dyes; the trend varied as MB > NMB > AZB > AZA...
February 17, 2017: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/28210721/3-pyrene-modified-unlocked-nucleic-acids-synthesis-fluorescence-properties-and-a-surprising-stabilization-effect-on-duplexes-and-triplexes
#4
Maria Ejlersen, Niels Langkjær, Jesper Wengel
Efficient synthesis of a new 3'-O-amino-UNA monomer was developed as a scaffold for further functionalization and incorporation into oligonucleotides (ONs). Pyrene-functionalized 3'-O-amino-UNA was incorporated one, two or three times into 21-mer DNA and 2'-O-Me-RNA ONs. Duplex melting temperatures, circular dichroism (CD) spectra, steady-state fluorescence emission spectra, UV/Vis absorption spectra and triplex melting temperatures were measured for the modified duplexes. The presence of the pyrene-modified UNA monomer lead to a surprising and unprecedented thermal stabilization of especially DNA:DNA duplexes when compared to the corresponding unmodified DNA:DNA duplexes...
February 17, 2017: Organic & Biomolecular Chemistry
https://www.readbyqxmd.com/read/28210621/circular-rnas-in-cardiovascular-disease-an-overview
#5
REVIEW
Ximin Fan, Xinyu Weng, Yifan Zhao, Wei Chen, Tianyi Gan, Dachun Xu
Circular RNA (circRNA), a novel type of endogenous noncoding RNA (ncRNA), has become a research hotspot in recent years. CircRNAs are abundant and stably exist in creatures, and they are found with covalently closed loop structures in which they are quite different from linear RNAs. Nowadays, an increasing number of scientists have demonstrated that circRNAs may have played an essential role in the regulation of gene expression, especially acting as miRNA sponges, and have described the potential mechanisms of several circRNAs in diseases, hinting at their clinical therapeutic values...
2017: BioMed Research International
https://www.readbyqxmd.com/read/28209967/optimization-of-the-production-of-knock-in-alleles-by-crispr-cas9-microinjection-into-the-mouse-zygote
#6
Aurélien Raveux, Sandrine Vandormael-Pournin, Michel Cohen-Tannoudji
Microinjection of the CRISPR/Cas9 system in zygotes is an efficient and comparatively fast method to generate genetically modified mice. So far, only few knock-in mice have been generated using this approach, and because no systematic study has been performed, parameters controlling the efficacy of CRISPR/Cas9-mediated targeted insertion are not fully established. Here, we evaluated the effect of several parameters on knock-in efficiency changing only one variable at a time. We found that knock-in efficiency was dependent on injected Cas9 mRNA and single-guide RNA concentrations and that cytoplasmic injection resulted in more genotypic complexity compared to pronuclear injection...
February 17, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28201688/simultaneous-processing-and-degradation-of-mitochondrial-rnas-revealed-by-circularized-rna-sequencing
#7
Irina Kuznetsova, Stefan J Siira, Anne-Marie J Shearwood, Judith A Ermer, Aleksandra Filipovska, Oliver Rackham
No abstract text is available yet for this article.
February 15, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28187158/role-of-the-long-non-coding-rna-pvt1-in-the-dysregulation-of-the-cerna-cerna-network-in-human-breast-cancer
#8
Federica Conte, Giulia Fiscon, Matteo Chiara, Teresa Colombo, Lorenzo Farina, Paola Paci
Recent findings have identified competing endogenous RNAs (ceRNAs) as the drivers in many disease conditions, including cancers. The ceRNAs indirectly regulate each other by reducing the amount of microRNAs (miRNAs) available to target messenger RNAs (mRNAs). The ceRNA interactions mediated by miRNAs are modulated by a titration mechanism, i.e. large changes in the ceRNA expression levels either overcome, or relieve, the miRNA repression on competing RNAs; similarly, a very large miRNA overexpression may abolish competition...
2017: PloS One
https://www.readbyqxmd.com/read/28186613/-circular-rna-in-human-disease-and-their-potential-clinic-significance
#9
Yonghua Chen, Cheng Li, Chunlu Tan, Gang Mai, Xubao Liu
Circular RNAs (circ RNAs) are a novel type of RNA that, unlike linear RNAs, form a covalently closed continuous loop and are highly represented in the eukaryotic transcriptome. They share a stable structure, high expression and often exhibit tissue/developmental-stage-specific expression. Emerging evidence indicates that circRNAs might play important roles in human disease, such as cancer, neurological disorders and atherosclerotic vascular disease risk. The huge potentials of circRNAs are recently being discovered from the laboratory to the clinic...
February 10, 2017: Zhonghua Yi Xue Yi Chuan Xue za Zhi, Zhonghua Yixue Yichuanxue Zazhi, Chinese Journal of Medical Genetics
https://www.readbyqxmd.com/read/28185365/circrnas-biogenesis-properties-roles-and-their-relationships-with-liver-diseases-running-title-circular-rnas-and-liver-diseases
#10
REVIEW
Ting Yao, Qingqing Chen, Liyun Fu, Junming Guo
Circular RNAs (circRNAs) are a class of new found RNA molecules that have a special covalent loop structure without 5' cap and 3' tail. Researchers have found that circRNAs may be generated by intron-pairing-driven or lariat-driven circularization. They are cleared up via extracellular vesicles. They have some advantages such as stable, conservation, tissue specificity and so on. By severing as sponge of microRNAs, interacting with long non-coding RNAs, mRNA, or proteins, circRNAs regulate gene expression at transcriptional and post-transcriptional levels and contribute carcinogenesis...
February 10, 2017: Hepatology Research: the Official Journal of the Japan Society of Hepatology
https://www.readbyqxmd.com/read/28184940/circular-rna-and-gene-expression-profiles-in-gastric-cancer-based-on-microarray-chip-technology
#11
Weiguo Sui, Zhoufang Shi, Wen Xue, Minglin Ou, Ying Zhu, Jiejing Chen, Hua Lin, Fuhua Liu, Yong Dai
The aim of the present study was to screen gastric cancer (GC) tissue and adjacent tissue for differences in mRNA and circular (circRNA) expression, to analyze the differences in circRNA and mRNA expression, and to investigate the circRNA expression in gastric carcinoma and its mechanism. circRNA and mRNA differential expression profiles generated using Agilent microarray technology were analyzed in the GC tissues and adjacent tissues. qRT-PCR was used to verify the differential expression of circRNAs and mRNAs according to the interactions between circRNAs and miRNAs as well as the possible existence of miRNA and mRNA interactions...
March 2017: Oncology Reports
https://www.readbyqxmd.com/read/28177615/an-unusual-topological-rna-architecture-with-an-eight-stranded-helical-fragment-containing-a-g-and-u-tetrads
#12
Chao-Da Xiao, Takumi Ishizuka, Xiao-Qing Zhu, Yue Li, Hiroshi Sugiyama, Yan Xu
Human telomeric RNA performs various cellular functions such as telomere length regulation, heterochromatin formation, and chromosome end protection. Using a combination of nuclear magnetic reso-nance (NMR), circular dichroism (CD), and gel electro-phoresis, we observed an unusual topological structure formed by human telomere RNA r(GUUAGGGU). Our results showed that every set of four strands formed a parallel G-quadruplex as symmetry-related units con-taining four G-tetrads, two U-tetrads, and one A-tetrad...
February 8, 2017: Journal of the American Chemical Society
https://www.readbyqxmd.com/read/28174233/circular-rna-cirs-7-a-promising-prognostic-biomarker-and-a-potential-therapeutic-target-in-colorectal-cancer
#13
Wenhao Weng, Qing Wei, Shusuke Toden, Kazuhiro Yoshida, Takeshi Nagasaka, Toshiyoshi Fujiwara, Sanjun Cai, Huanlong Qin, Yanlei Ma, Ajay Goel
PURPOSE: Colorectal cancer (CRC) is one of the most common malignancies worldwide. Recently, a novel circular RNA, ciRS-7, was proposed to be a potential miR-7 sponge. Since miR-7 regulates the expression of several important drivers of CRC, we analyzed the clinical significance of ciRS-7 in CRC patients. EXPERIMENTAL DESIGN: Initially, we evaluated the expression levels of ciRS-7 in a training cohort comprising of 153 primary CRC tissues and 44 matched normal mucosae...
February 7, 2017: Clinical Cancer Research: An Official Journal of the American Association for Cancer Research
https://www.readbyqxmd.com/read/28157182/efficient-genome-replication-of-hepatitis-b-virus-using-adenovirus-vector-a-compact-pregenomic-rna-expression-unit
#14
Mariko Suzuki, Saki Kondo, Manabu Yamasaki, Norie Matsuda, Akio Nomoto, Tetsuro Suzuki, Izumu Saito, Yumi Kanegae
The complicated replication mechanisms of hepatitis B virus (HBV) have impeded HBV studies and anti-HBV therapy development as well. Herein we report efficient genome replication of HBV applying adenovirus vectors (AdVs) showing high transduction efficiency. Even in primary hepatocytes derived from humanized mice the transduction efficiencies using AdVs were 450-fold higher compared than those using plasmids. By using an expression unit consisting of the CMV promoter, 1.03-copy HBV genome and foreign poly(A) signal, we successfully generated an improved AdV (HBV103-AdV) that efficiently provided 58 times more pregenomic RNA than previously reported AdVs...
February 3, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28153773/human-gpn1-purified-from-bacteria-binds-guanine-nucleotides-and-hydrolyzes-gtp-as-a-protein-dimer-stabilized-by-its-c-terminal-tail
#15
Rogelio González-González, José A Guerra-Moreno, Gema R Cristóbal-Mondragón, Violeta Romero, Sonia G Peña-Gómez, Gabriela M Montero-Morán, Samuel Lara-González, Andrés Hernández-Arana, Daniel A Fernández-Velasco, Mónica R Calera, Roberto Sánchez-Olea
The essential GTPase Gpn1 mediates RNA polymerase II nuclear targeting and controls microtubule dynamics in yeast and human cells by molecular mechanisms still under investigation. Here, we purified human HisGpn1 expressed as a recombinant protein in bacteria E. coli BL-21 (DE3). Affinity purified HisGpn1 eluted from a size exclusion column as a protein dimer, a state conserved after removing the hexa-histidine tail and confirmed by separating HisGpn1 in native gels, and in dynamic light scattering experiments...
January 30, 2017: Protein Expression and Purification
https://www.readbyqxmd.com/read/28150734/mitochondrial-genome-diversity-in-dagger-and-needle-nematodes-nematoda-longidoridae
#16
J E Palomares-Rius, C Cantalapiedra-Navarrete, A Archidona-Yuste, V C Blok, P Castillo
Dagger and needle nematodes included in the family Longidoridae (viz. Longidorus, Paralongidorus, and Xiphinema) are highly polyphagous plant-parasitic nematodes in wild and cultivated plants and some of them are plant-virus vectors (nepovirus). The mitochondrial (mt) genomes of the dagger and needle nematodes, Xiphinema rivesi, Xiphinema pachtaicum, Longidorus vineacola and Paralongidorus litoralis were sequenced in this study. The four circular mt genomes have an estimated size of 12.6, 12.5, 13.5 and 12...
February 2, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28143578/circular-rnas-in-human-cancer
#17
REVIEW
Yumin Wang, Yongzhen Mo, Zhaojian Gong, Xiang Yang, Mo Yang, Shanshan Zhang, Fang Xiong, Bo Xiang, Ming Zhou, Qianjin Liao, Wenling Zhang, Xiayu Li, Xiaoling Li, Yong Li, Guiyuan Li, Zhaoyang Zeng, Wei Xiong
CircRNAs are a novel type of RNAs. With the newly developed technology of next-generation sequencing (NGS), especially RNA-seq technology, over 30,000 circRNAs have already been found. Owing to their unique structure, they are more stable than linear RNAs. CircRNAs play important roles in the carcinogenesis of cancer. The expression of circRNAs is correlated with patients' clinical characteristics, and circRNAs play a vital role in many aspects of malignant phenotypes, including cell cycle, apoptosis, vascularization, and invasion; metastasis as a RNA sponge, binding to RBP; or translation...
January 31, 2017: Molecular Cancer
https://www.readbyqxmd.com/read/28134598/circular-rnas-an-emerging-type-of-rna-in-cancer
#18
Li-Dan Hou, Jing Zhang
Circular RNAs (circRNAs), a novel type of widespread and diverse endogenous non-coding RNAs (ncRNAs), which are different from the linear RNAs, form a covalently closed continuous loop without 5' or 3' polarities. The majority of circRNAs are abundant, conserved and stable across different species, and exhibit tissue/developmental-stage-specific characteristics. They are generated primarily through a type of alternative RNA splicing called "back-splicing," in which a downstream splice donor is joined to an upstream splice acceptor through splice skipping or direct splice...
January 1, 2017: International Journal of Immunopathology and Pharmacology
https://www.readbyqxmd.com/read/28130830/rna-in-extracellular-vesicles
#19
REVIEW
Kyoung Mi Kim, Kotb Abdelmohsen, Maja Mustapic, Dimitrios Kapogiannis, Myriam Gorospe
Cells release a range of membrane-enclosed extracellular vesicles (EVs) into the environment. Among them, exosomes and microvesicles (collectively measuring 40-1000 nm in diameter) carry proteins, signaling lipids, and nucleic acids from donor cells to recipient cells, and thus have been proposed to serve as intercellular mediators of communication. EVs transport cellular materials in many physiologic processes, including differentiation, stem cell homeostasis, immune responses, and neuronal signaling. EVs are also increasingly recognized as having a direct role in pathologies such as cancer and neurodegeneration...
January 28, 2017: Wiley Interdisciplinary Reviews. RNA
https://www.readbyqxmd.com/read/28130019/using-circular-rna-hsa_circ_0000190-as-a-new-biomarker-in-the-diagnosis-of-gastric-cancer
#20
Shijun Chen, Tianwen Li, Qianfu Zhao, Bingxiu Xiao, Junming Guo
BACKGROUND: Circular RNAs (circRNA) are an abundant class of non-coding RNAs in mammalian cells. However, their value in the diagnosis of cancers remains unknown. In this study, we focused on hsa_circ_0000190, which was found to be down-regulated in gastric cancer tissues in our previous microarray screening. PATIENTS AND METHODS: The hsa_circ_0000190 levels in 104 paired gastric cancer tissues and adjacent non-tumor tissues, 104 plasma samples from patients with gastric cancer and 104 plasma samples from health controls were detected by quantitative reverse transcription-polymerase chain reaction (qRT-PCR)...
January 24, 2017: Clinica Chimica Acta; International Journal of Clinical Chemistry
keyword
keyword
25473
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"