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https://www.readbyqxmd.com/read/29050263/the-prognostic-value-of-osteopontin-in-limited-stage-small-cell-lung-cancer-patients-and-its-mechanism
#1
Fanglei Liu, Chunxue Bai, Zhongliang Guo
Osteopontin (OPN) is known to be overexpressed in numerous carcinomas. Although abundant OPN has been reported to be correlated with poor survival in non-small cell lung cancer (NSCLC) but their clinical and prognostic significance in SCLC remains unknown. In this study, RNA-sequencing was used to obtain gene expression data in SCLC tissue samples and OPN expression levels were then investigated using qPCR, immunohistochemical and Western blot. We found OPN was one of the most upregulated genes. Besides, the correlation of OPN with tumor clinicopathological characteristics was evaluated and we found OPN was associated with advanced tumor stages...
September 19, 2017: Oncotarget
https://www.readbyqxmd.com/read/29049475/potential-of-aqueous-humor-as-a-surrogate-tumor-biopsy-for-retinoblastoma
#2
Jesse L Berry, Liya Xu, A Linn Murphree, Subramanian Krishnan, Kevin Stachelek, Emily Zolfaghari, Kathleen McGovern, Thomas C Lee, Anders Carlsson, Peter Kuhn, Jonathan W Kim, David Cobrinik, James Hicks
Importance: Retinoblastoma (Rb) is one of the first tumors to have a known genetic etiology. However, because biopsy of this tumor is contraindicated, it has not been possible to define the effects of secondary genetic changes on the disease course. Objective: To investigate whether the aqueous humor (AH) of Rb eyes has sufficient tumor-derived DNA to perform genetic analysis of the tumor, including DNA copy number alterations. Design, Setting, and Participants: This investigation was a case series study at a tertiary care hospital (Children's Hospital Los Angeles) with a large Rb treatment center...
October 12, 2017: JAMA Ophthalmology
https://www.readbyqxmd.com/read/29048718/azido-functionalized-5-cap-analogs-for-preparation-of-translationally-active-mrnas-suitable-for-fluorescent-labeling-in-living-cells
#3
Adam Mamot, Pawel Sikorski, Marcin Warminski, Joanna Kowalska, Jacek Jemielity
The 7-methylguanosine (m7G) cap structure is a unique feature present at the 5' ends of messenger RNAs (mRNAs) that can be subjected to extensive modifications, resulting in alterations to mRNA properties (e.g. translability, susceptibility to degradation). It also can provide molecular tools to study mRNA metabolism. Here, we developed new mRNA 5' cap-based tools that enable the site-specific labeling of RNA at the 5' end using strain-promoted azide-alkyne cycloaddition (SPAAC), i.e. bioorthogonal, copper-free click chemistry, and support the mRNA's basic function in protein biosynthesis...
October 19, 2017: Angewandte Chemie
https://www.readbyqxmd.com/read/29047230/a-comprehensive-genome-wide-analysis-of-long-noncoding-rna-expression-profile-in-hepatocellular-carcinoma
#4
Hongxia Cui, Yunxing Zhang, Qiujie Zhang, Wenming Chen, Haibo Zhao, Jun Liang
Hepatocellular carcinoma (HCC) is one of the most common malignancies worldwide, especially in East Asia and China. Long noncoding RNAs (lncRNAs) are emerging as critical regulators that may be involved in the development and progression of cancers in humans. However, the contributions of lncRNAs to HCC development, metastasis, and recurrence remain largely unknown. In this study, we comprehensively investigated lncRNA expression profile in HCC and normal tissues using TCGA RNA sequencing data, one RNA sequencing dataset, and two microarray datasets from GEO...
October 18, 2017: Cancer Medicine
https://www.readbyqxmd.com/read/29047044/exosomes-for-the-enhanced-tissue-bioavailability-and-efficacy-of-curcumin
#5
Farrukh Aqil, Radha Munagala, Jeyaprakash Jeyabalan, Ashish Kumar Agrawal, Ramesh Gupta
Exosomes are extracellular microvesicles with a particle size of 30-100 nm and carry a cargo of proteins, lipids, RNA, and DNA. Their properties of shuttling in-and-out of the cells suggest that these particles can be exploited as a nano drug carrier. In this manuscript, we show that curcumin can be delivered effectively using milk-derived exosomes. Curcumin when mixed with exosomes in the presence of 10% ethanol:acetonitrile (1:1) provided a drug load of 18-24%, and the formulation stored at - 80°C was stable for 6 months as determined by particle size analysis, drug load, and antiproliferative activity...
October 18, 2017: AAPS Journal
https://www.readbyqxmd.com/read/29040625/rise-a-database-of-rna-interactome-from-sequencing-experiments
#6
Jing Gong, Di Shao, Kui Xu, Zhipeng Lu, Zhi John Lu, Yucheng T Yang, Qiangfeng Cliff Zhang
We present RISE (http://rise.zhanglab.net), a database of RNA Interactome from Sequencing Experiments. RNA-RNA interactions (RRIs) are essential for RNA regulation and function. RISE provides a comprehensive collection of RRIs that mainly come from recent transcriptome-wide sequencing-based experiments like PARIS, SPLASH, LIGR-seq, and MARIO, as well as targeted studies like RIA-seq, RAP-RNA and CLASH. It also includes interactions aggregated from other primary databases and publications. The RISE database currently contains 328,811 RNA-RNA interactions mainly in human, mouse and yeast...
October 4, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/29039497/edaravone-protects-the-retina-against-ischemia-reperfusion%C3%A2-induced-oxidative-injury-through-the-pi3k-akt-nrf2-pathway
#7
Yi-Pin Xu, Fang Han, Jian Tan
Retinal ischemia/reperfusion (I/R) injury can occur as a result of a number of ocular diseases or ischemic events in the brain, leading to possible vision loss if not treated properly. The overproduction of reactive oxygen species is important in the process of I/R injury. Edaravone, a free radical scavenger, has been demonstrated to have a neuroprotective effect in cerebral ischemia; however, its effect against retinal I/R injury remains to be fully elucidated. Therefore, the present study investigated the effects of edaravone on the oxidative parameters, retinal inflammation and apoptosis induced by I/R injury, and treated photoreceptor‑derived 661W cells with hydrogen peroxide (H2O2) and edaravone to examine the underlying mechanism...
October 6, 2017: Molecular Medicine Reports
https://www.readbyqxmd.com/read/29039453/microrna-125a-3p-is-involved-in-early-behavioral-disorders-in-stroke-afflicted-rats-through-the-regulation-of-cadm2
#8
Yuqing Liu, Yunjun Li, Zhenxing Ren, Wenwen Si, Yiwei Li, Gang Wei, Wenguang Zhao, Jianhong Zhou, Yage Tian, Dongfeng Chen
Ischemic strokes carry a significant risk of mortality and recurrent vascular events. Recent studies suggest that changes in microRNAs (miRNAs or miRs) may affect the development of the stroke. However, few studies have investigated the role of miRNAs in behavioral disorder in early stroke. In the present study, animal models of middle cerebral artery occlusion (MCAO) are used, as well as a cell model of neurite outgrowth to further investigate the role of miRNAs in targeting synapse-associated proteins expression in early stroke...
October 10, 2017: International Journal of Molecular Medicine
https://www.readbyqxmd.com/read/29036456/role-of-free-dna-ends-and-protospacer-adjacent-motifs-for-crispr-dna-uptake-in-pyrococcus-furiosus
#9
Masami Shiimori, Sandra C Garrett, Dwain P Chambers, Claiborne V C Glover, Brenton R Graveley, Michael P Terns
To acquire CRISPR-Cas immunity against invasive mobile genetic elements, prokaryotes must first integrate fragments of foreign DNA into their genomic CRISPR arrays for use in future invader silencing. Here, we found that the hyperthermophilic archaeaon, Pyrococcus furiosus, actively incorporates DNA fragments (spacers) from both plasmid (foreign) and host genome (self) sequences into its seven CRISPR loci. The majority of new spacers were derived from DNA immediately downstream from a 5'-CCN-3' protospacer adjacent motif (PAM) that is critical for invader targeting...
September 25, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/29036314/mirnovo-genome-free-prediction-of-micrornas-from-small-rna-sequencing-data-and-single-cells-using-decision-forests
#10
Dimitrios M Vitsios, Elissavet Kentepozidou, Leonor Quintais, Elia Benito-Gutiérrez, Stijn van Dongen, Matthew P Davis, Anton J Enright
The discovery of microRNAs (miRNAs) remains an important problem, particularly given the growth of high-throughput sequencing, cell sorting and single cell biology. While a large number of miRNAs have already been annotated, there may well be large numbers of miRNAs that are expressed in very particular cell types and remain elusive. Sequencing allows us to quickly and accurately identify the expression of known miRNAs from small RNA-Seq data. The biogenesis of miRNAs leads to very specific characteristics observed in their sequences...
September 25, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/29033956/transcriptome-and-differential-expression-profiling-analysis-of-the-mechanism-of-ca-2-regulation-in-peanut-arachis-hypogaea-pod-development
#11
Sha Yang, Lin Li, Jialei Zhang, Yun Geng, Feng Guo, Jianguo Wang, Jingjing Meng, Na Sui, Shubo Wan, Xinguo Li
Calcium not only serves as a necessary nutrient for plant growth but also acts as a ubiquitous central hub in a large number of signaling pathways. Free Ca(2+) deficiency in the soil may cause early embryo abortion, which eventually led to abnormal development of peanut pod during the harvest season. To understand the mechanisms of Ca(2+) regulation in pod development, transcriptome analysis of peanut gynophores and pods was performed by comparing the treatments between free Ca(2+) sufficiency and free Ca(2+) deficiency using Illumina HiSeq™ 2000...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/29032677/ultrasensitive-ratiometric-homogeneous-electrochemical-microrna-biosensing-via-target-triggered-ru-iii-release-and-redox-recycling
#12
Panpan Gai, Chengcheng Gu, Haiyin Li, Xinzhi Sun, Feng Li
A new label-free and enzyme-free ratiometric homogeneous electrochemical microRNA biosensing platform was constructed via target-triggered Ru(III) release and redox recycling. To design the effective ratiometric dual-signal strategy, [Ru(NH3)6](3+) (Ru(III)) as one of electroactive probe was ingeniously entrapped in the pores of positively charged mesoporous silica nanoparticle (PMSN), as well as another electroactive probe [Fe(CN)6](3-) (Fe(III)) was selected to facilitate Ru(III) redox reclycling due to their distinctly separated reduction potential and different redox properties...
October 16, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/29030319/coordination-of-different-complexes-to-copper-ii-and-cobalt-iii-metal-centers-enhances-zika-virus-and-dengue-virus-loads-in-both-arthropod-cells-and-human-keratinocytes
#13
Shovan Dutta, Michael J Celestine, Supreet Khanal, Alexis Huddleston, Colin Simms, Jessa Faye Arca, Amlan Mitra, Loree Heller, Piotr J Kraj, Michel Ledizet, John F Anderson, Girish Neelakanta, Alvin A Holder, Hameeda Sultana
Trace elements such as copper and cobalt have been associated with virus-host interactions. However, studies to show the effect of conjugation of copper(II) or cobalt(III) metal centers to thiosemicarbazone ligand(s) derived from either food additives or mosquito repellent such as 2-acetylethiazole or citral, respectively, on Zika virus (ZIKV) or dengue virus (serotype 2; DENV2) infections have not been explored. In this study, we show that four compounds comprising of thiosemicarbazone ligand derived from 2-acetylethiazole viz...
October 10, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/29029523/systematic-review-and-meta-analysis-of-the-utility-of-long-non-coding-rna-gas5-as-a-diagnostic-and-prognostic-cancer-biomarker
#14
Wei Li, Na Li, Ke Shi, Qiong Chen
The growth arrest-specific 5 transcript (GAS5) is a long non-coding RNA (lncRNA) involved in the control of cell cycle progression and apoptosis in a wide variety of cells. To determine the clinical value of GAS5 expression in cancer patients, we performed a systematic review and meta-analysis exploring its association with the diagnosis, prognosis, and clinicopathological characteristics of cancer. Ten articles on prognosis, 15 on clinicopathology, and 5 on diagnosis were analyzed. Overall results showed that decreased GAS5 expression associated with unfavorable overall survival (OS) (HR = 2...
September 12, 2017: Oncotarget
https://www.readbyqxmd.com/read/29029451/transcriptome-analysis-reveals-a-role-for-the-endothelial-anp-gc-a-signaling-in-interfering-with-pre-metastatic-niche-formation-by-solid-cancers
#15
Takashi Nojiri, Miki Arai, Yutaka Suzuki, Motofumi Kumazoe, Takeshi Tokudome, Koichi Miura, Jun Hino, Hiroshi Hosoda, Mikiya Miyazato, Meinoshin Okumura, Shinpei Kawaoka, Kenji Kangawa
Cancer establishes a microenvironment called the pre-metastatic niche in distant organs where disseminated cancer cells can efficiently metastasize. Pre-metastatic niche formation requires various genetic factors. Previous studies suggest that inhibiting a single niche-factor is insufficient to completely block pre-metastatic niche formation especially in human patients. Here we show that the atrial natriuretic peptide (ANP), an endogenous hormone produced by the heart, inhibits pre-metastatic niche formation and metastasis of murine solid cancer models when pharmacologically supplied in vivo...
September 12, 2017: Oncotarget
https://www.readbyqxmd.com/read/29028101/topbp1-promotes-malignant-progression-and-correlates-with-poor-prognosis-in-osteosarcoma
#16
D-P Wu, X-B Yan, L-G Liu, C Tian, K Han, H Zhang, D-L Min
OBJECTIVE: Topoisomerase IIβ binding protein 1 (TopBP1) is involved in DNA damage and replication checkpoint and has been shown to be related to tumorigenesis in many cancer types. This study aimed to evaluate the biological role and clinicopathological significance of TopBP1 in OS. PATIENTS AND METHODS: TopBP1 expression in sarcoma patients was determined through the Oncomine database, and the prognostic role of TopBP1 expression was assessed in a retrospective cohort study...
September 2017: European Review for Medical and Pharmacological Sciences
https://www.readbyqxmd.com/read/29028092/long-non-coding-rna-ror-is-a-novel-prognosis-factor-associated-with-non-small-cell-lung-cancer-progression
#17
C-H Qu, Q-Y Sun, F-M Zhang, Y-M Jia
OBJECTIVE: The aim of the present study was to determine the expression levels of long intergenic non-protein coding RNA, regulator of reprogramming (linc-ROR) in non-small-cell lung cancer (NSCLC) patients and to further explore the prognostic value of this lncRNA. PATIENTS AND METHODS: In our investigation, we determined the expression of linc-ROR in human NSCLC tissues and matched normal lung tissues by quantitative Real-time-PCR analysis. Also, correlations between linc-ROR expression and the clinicopathological features were evaluated...
September 2017: European Review for Medical and Pharmacological Sciences
https://www.readbyqxmd.com/read/29027346/application-of-stable-isotope-labelling-techniques-for-the-detection-of-active-diazotrophs
#18
Roey Angel, Christopher Panhölzl, Raphael Gabriel, Craig Herbold, Wolfgang Wanek, Andreas Richter, Stephanie A Eichorst, Dagmar Woebken
Investigating active participants in the fixation of dinitrogen gas is vital as N is often a limiting factor for primary production. Biological nitrogen fixation (BNF) is performed by a diverse guild of bacteria and archaea (diazotrophs), which can be free-living or symbionts. Free-living diazotrophs are widely distributed in the environment, yet our knowledge about their identity and ecophysiology is still limited. A major challenge in investigating this guild is inferring activity from genetic data as this process is highly regulated...
October 13, 2017: Environmental Microbiology
https://www.readbyqxmd.com/read/29026462/murine-hepatocellular-carcinoma-derived-stem-cells-reveal-epithelial-to-mesenchymal-plasticity
#19
Aparna Jayachandran, Ritu Shrestha, Bijay Dhungel, I-Tao Huang, Marianna Yumi Kawashima Vasconcelos, Brian J Morrison, Charmaine A Ramlogan-Steel, Jason C Steel
AIM: To establish a model to enrich and characterize stem-like cells from murine normal liver and hepatocellular carcinoma (HCC) cell lines and to further investigate stem-like cell association with epithelial-to-mesenchymal transition (EMT). METHODS: In this study, we utilized a stem cell conditioned serum-free medium to enrich stem-like cells from mouse HCC and normal liver cell lines, Hepa 1-6 and AML12, respectively. We isolated the 3-dimensional spheres and assessed their stemness characteristics by evaluating the RNA levels of stemness genes and a cell surface stem cell marker by quantitative reverse transcriptase-PCR (qRT-PCR)...
September 26, 2017: World Journal of Stem Cells
https://www.readbyqxmd.com/read/29026317/high-expression-of-sam68-in-sacral-chordomas-is-associated-with-worse-clinical-outcomes
#20
Hai Wen, Pengzhi Li, Hong Ma, Jiaoyun Zheng, Yipin Yu, Guohua Lv
Src-associated in mitosis of 68 kDa (Sam68), also known as KHDRBS1 (KH domain-containing, RNA-binding, signal transduction-associated 1), is a member of the signal transduction and activation of RNA family. Previous studies have demonstrated that the aberrant expression of Sam68 is associated with the progression and prognosis of a variety of cancers, but little is known about its expression and role in chordomas, which are rare and aggressive bone neoplasms. In this study, we analyzed 40 tumor tissues and 20 distant normal tissues obtained from 40 patients with sacral chordoma using immunohistochemistry, and observed the expression of Sam68 was significantly upregulated in sacral chordomas compared with normal tissues (P=0...
2017: OncoTargets and Therapy
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