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https://www.readbyqxmd.com/read/28814798/genetic-polymorphisms-of-lncrna-p53-regulatory-network-genes-are-associated-with-concurrent-chemoradiotherapy-toxicities-and-efficacy-in-nasopharyngeal-carcinoma-patients
#1
Youhong Wang, Zhen Guo, Yu Zhao, Yi Jin, Liang An, Bin Wu, Zhaoqian Liu, Xiaoping Chen, Xiang Chen, Honghao Zhou, Hui Wang, Wei Zhang
The relevance of the transcription factor p53 in cancer is inarguable, and numerous lncRNAs are involved in the p53 regulatory network as either regulators or effectors, triggering a transcriptional response that causes either cell arrest or apoptosis following DNA damage in a p53-dependent manner. Despite the fact that the therapeutic response is improved in NPC, heterogeneity among people remains with regard to the susceptibility of adverse effects and the efficacy of treatments. Therefore, we analysed eight potentially functional SNPs of five genes in the lncRNA-p53 regulatory network in a discovery cohort of 505 NPC patients...
August 16, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28813897/design-and-testing-of-an-under-actuated-surface-emg-driven-hand-exoskeleton
#2
A Lince, N Celadon, A Battezzato, A Favetto, S Appendino, P Ariano, M Paleari
Stroke and other neurological pathologies are an increasing cause of hand impairment, involving expensive rehabilitative therapies. In this scenario, robotics applied to hand rehabilitation and assistance appears particularly promising in order to lower therapy costs and boost its efficacy. This work shows a recently conceived hand exoskeleton, from the design and realization to its preliminary evaluation. A control strategy based on surface electromyography (sEMG) signals is integrated: preliminary tests performed on healthy subjects show the validity of this choice...
July 2017: IEEE ... International Conference on Rehabilitation Robotics: [proceedings]
https://www.readbyqxmd.com/read/28808105/inhibitor-induced-oxidation-of-the-nucleus-and-cytosol-in-arabidopsis-thaliana-implications-for-organelle-to-nucleus-retrograde-signalling
#3
Barbara Karpinska, Sarah Owdah Alomrani, Christine H Foyer
Concepts of organelle-to-nucleus signalling pathways are largely based on genetic screens involving inhibitors of chloroplast and mitochondrial functions such as norflurazon, lincomycin (LINC), antimycin A (ANT) and salicylhydroxamic acid. These inhibitors favour enhanced cellular oxidation, but their precise effects on the cellular redox state are unknown. Using the in vivo reduction-oxidation (redox) reporter, roGFP2, inhibitor-induced changes in the glutathione redox potentials of the nuclei and cytosol were measured in Arabidopsis thaliana root, epidermal and stomatal guard cells, together with the expression of nuclear-encoded chloroplast and mitochondrial marker genes...
September 26, 2017: Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences
https://www.readbyqxmd.com/read/28801801/nuclear-envelope-a-new-frontier-in-plant-mechanosensing
#4
REVIEW
Kateryna Fal, Atef Asnacios, Marie-Edith Chabouté, Olivier Hamant
In animals, it is now well established that forces applied at the cell surface are propagated through the cytoskeleton to the nucleus, leading to deformations of the nuclear structure and, potentially, to modification of gene expression. Consistently, altered nuclear mechanics has been related to many genetic disorders, such as muscular dystrophy, cardiomyopathy and progeria. In plants, the integration of mechanical signals in cell and developmental biology has also made great progress. Yet, while the link between cell wall stresses and cytoskeleton is consolidated, such cortical mechanical cues have not been integrated with the nucleoskeleton...
August 12, 2017: Biophysical Reviews
https://www.readbyqxmd.com/read/28780240/doing-more-for-less-identifying-opportunities-to-expand-public-sector-access-to-safe-abortion-in-south-africa-through-budget-impact-analysis
#5
N Lince-Deroche, J Harries, D Constant, C Morroni, M Pleaner, T Fetters, D Grossman, K Blanchard, E Sinanovic
OBJECTIVE(S): To estimate the costs of public-sector abortion provision in South Africa and to explore the potential for expanding access at reduced cost by changing the mix of technologies used. STUDY DESIGN: We conducted a budget impact analysis using public sector abortion statistics and published cost data. We estimated the total costs to the public health service over ten years, starting in South Africa's financial year 2016/17, given four scenarios: 1) holding service provision constant, 2) expanding public sector provision, 3) changing the abortion technologies used (i...
August 3, 2017: Contraception
https://www.readbyqxmd.com/read/28769090/discovery-of-novel-therapeutic-properties-of-drugs-from-transcriptional-responses-based-on-multi-label-classification
#6
Lingwei Xie, Song He, Yuqi Wen, Xiaochen Bo, Zhongnan Zhang
Drug repositioning strategies have improved substantially in recent years. At present, two advances are poised to facilitate new strategies. First, the LINCS project can provide rich transcriptome data that reflect the responses of cells upon exposure to various drugs. Second, machine learning algorithms have been applied successfully in biomedical research. In this paper, we developed a systematic method to discover novel indications for existing drugs by approaching drug repositioning as a multi-label classification task and used a Softmax regression model to predict previously unrecognized therapeutic properties of drugs based on LINCS transcriptome data...
August 2, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28750623/l1kdeconv-an-r-package-for-peak-calling-analysis-with-lincs-l1000-data
#7
Zhao Li, Jin Li, Peng Yu
BACKGROUND: LINCS L1000 is a high-throughput technology that allows gene expression measurement in a large number of assays. However, to fit the measurements of ~1000 genes in the ~500 color channels of LINCS L1000, every two landmark genes are designed to share a single channel. Thus, a deconvolution step is required to infer the expression values of each gene. Any errors in this step can be propagated adversely to the downstream analyses. RESULTS: We presented a LINCS L1000 data peak calling R package l1kdeconv based on a new outlier detection method and an aggregate Gaussian mixture model (AGMM)...
July 27, 2017: BMC Bioinformatics
https://www.readbyqxmd.com/read/28747499/effects-of-the-inner-nuclear-membrane-proteins-sun1-unc-84a-and-sun2-unc-84b-on-the-early-steps-of-hiv-1-infection
#8
Torsten Schaller, Lorenzo Bulli, Darja Pollpeter, Gilberto Betancor, Juliane Kutzner, Luis Apolonia, Nikolas Herold, Robin Burk, Michael H Malim
Human immunodeficiency virus type 1 (HIV-1) infection of dividing and non-dividing cells involves regulatory interactions with the nuclear pore complex (NPC), followed by translocation to the nucleus and preferential integration into genomic areas in proximity to the inner nuclear membrane (INM). To identify host proteins that may contribute to these processes, we performed an overexpression screen of known membrane-associated NE proteins. We found that the integral transmembrane proteins SUN1/UNC84A and SUN2/UNC84B are potent or modest inhibitors of HIV-1 infection, respectively, and that suppression corresponds to defects in the accumulation of viral cDNA in the nucleus...
July 26, 2017: Journal of Virology
https://www.readbyqxmd.com/read/28724767/integrity-of-the-linker-of-nucleoskeleton-and-cytoskeleton-is-required-for-efficient-herpesvirus-nuclear-egress
#9
Barbara G Klupp, Teresa Hellberg, Harald Granzow, Kati Franzke, Beatriz Dominguez Gonzalez, Rose Goodchild, Thomas C Mettenleiter
Herpesvirus capsids assemble in the nucleus while final virion maturation proceeds in the cytoplasm. This requires that newly formed nucleocapsids cross the nuclear envelope (NE), which occurs by budding at the inner nuclear membrane (INM), release of the primary enveloped virion into the perinuclear space (PNS), and subsequent rapid fusion with the outer nuclear membrane (ONM). During this process the NE remains intact, even at late stages of infection. In addition, the spacing between the INM and ONM is maintained, as is that between the primary virion envelope and nuclear membranes...
July 19, 2017: Journal of Virology
https://www.readbyqxmd.com/read/28716842/outer-nuclear-membrane-protein-kuduk-modulates-the-linc-complex-and-nuclear-envelope-architecture
#10
Zhao-Ying Ding, Ying-Hsuan Wang, Yu-Cheng Huang, Myong-Chol Lee, Min-Jen Tseng, Ya-Hui Chi, Min-Lang Huang
Linker of nucleoskeleton and cytoskeleton (LINC) complexes spanning the nuclear envelope (NE) contribute to nucleocytoskeletal force transduction. A few NE proteins have been found to regulate the LINC complex. In this study, we identify one, Kuduk (Kud), which can reside at the outer nuclear membrane and is required for the development of Drosophila melanogaster ovarian follicles and NE morphology of myonuclei. Kud associates with LINC complex components in an evolutionarily conserved manner. Loss of Kud increases the level but impairs functioning of the LINC complex...
July 17, 2017: Journal of Cell Biology
https://www.readbyqxmd.com/read/28703793/linc-dync2h1-4-promotes-emt-and-csc-phenotypes-by-acting-as-a-sponge-of-mir-145-in-pancreatic-cancer-cells
#11
Yuran Gao, Zhicheng Zhang, Kai Li, Liying Gong, Qingzhu Yang, Xuemei Huang, Chengcheng Hong, Mingfeng Ding, Huanjie Yang
The acquisition of epithelial-mesenchymal transition (EMT) and/or existence of a sub-population of cancer stem-like cells (CSC) are associated with malignant behavior and chemoresistance. To identify which factor could promote EMT and CSC formation and uncover the mechanistic role of such factor is important for novel and targeted therapies. In the present study, we found that the long intergenic non-coding RNA linc-DYNC2H1-4 was upregulated in pancreatic cancer cell line BxPC-3-Gem with acquired gemcitabine resistance...
July 13, 2017: Cell Death & Disease
https://www.readbyqxmd.com/read/28695750/-i-did-not-see-a-need-to-get-tested-before-everything-was-going-well-with-my-health-a-qualitative-study-of-hiv-testing-decision-making-in-kwazulu-natal-south-africa
#12
Shema Tariq, Susie Hoffman, Gita Ramjee, Joanne E Mantell, Jessica L Phillip, Kelly Blanchard, Naomi Lince-Deroche, Theresa M Exner
Few studies have examined HIV-testing decision-making since the South African national HIV counseling and testing campaign in 2010-2011 and subsequent expansion in antiretroviral therapy (ART) eligibility in 2012. We describe HIV-testing decision-making and pathways to testing among participants in Pathways to Care, a cohort study of newly-diagnosed HIV-positive adults in KwaZulu-Natal. Our analysis is embedded within a theoretical framework informed by Arthur Kleinman's work on pluralistic healthcare systems, and the concept of diagnostic itineraries (i...
July 11, 2017: AIDS Care
https://www.readbyqxmd.com/read/28686599/flux-balance-analysis-predicts-warburg-like-effects-of-mouse-hepatocyte-deficient-in-mir-122a
#13
Hua-Qing Wu, Mei-Ling Cheng, Jin-Mei Lai, Hsuan-Hui Wu, Meng-Chun Chen, Wen-Huan Liu, Wu-Hsiung Wu, Peter Mu-Hsin Chang, Chi-Ying F Huang, Ann-Ping Tsou, Ming-Shi Shiao, Feng-Sheng Wang
The liver is a vital organ involving in various major metabolic functions in human body. MicroRNA-122 (miR-122) plays an important role in the regulation of liver metabolism, but its intrinsic physiological functions require further clarification. This study integrated the genome-scale metabolic model of hepatocytes and mouse experimental data with germline deletion of Mir122a (Mir122a-/-) to infer Warburg-like effects. Elevated expression of MiR-122a target genes in Mir122a-/-mice, especially those encoding for metabolic enzymes, was applied to analyze the flux distributions of the genome-scale metabolic model in normal and deficient states...
July 2017: PLoS Computational Biology
https://www.readbyqxmd.com/read/28685460/measurement-of-po2-in-a-pre-clinical-model-of-rabbit-tumor-using-oxychip-a-paramagnetic-oxygen-sensor
#14
H Hou, N Khan, P Kuppusamy
The objective of this work was to establish a novel and robust technology, based on electron paramagnetic resonance (EPR) oximetry, as a practical tool for measurement of tumor oxygen. Previously, we have reported on the development of oxygen-sensing paramagnetic crystals (LiNc-BuO) encapsulated in a biocompatible polymer, called OxyChip. In this report we present our recent data on the use of OxyChip for pO2 measurements in the tumor of a pre-clinical, large-animal rabbit model. The results establish that OxyChip is capable of noninvasive and repeated measurement of pO2 in a large animal model...
2017: Advances in Experimental Medicine and Biology
https://www.readbyqxmd.com/read/28680141/the-lincrna-ror-mir-145-axis-promotes-invasion-and-metastasis-in-hepatocellular-carcinoma-via-induction-of-epithelial-mesenchymal-transition-by-targeting-zeb2
#15
Chen Li, Lu Lu, Bing Feng, Kai Zhang, Siqi Han, Daorong Hou, Longbang Chen, Xiaoyuan Chu, Rui Wang
Emerging evidence show that long noncoding RNAs (lncRNAs) play critical roles in tumor development. LincRNA-ROR (linc-ROR) is known to promote tumor progress in several human cancers, including hepatocellular carcinoma (HCC). Nevertheless, the roles of linc-ROR in HCC metastasis and its underlying mechanisms remain fully unclear. In the present study, we showed that linc-ROR was upregulated in HCC tissues and high linc-ROR expression level predicted poor prognosis. Functionally, linc-ROR significantly induced epithelial-mesenchymal transition (EMT), and increased in vitro invasion and in vivo metastasis of HCC cells...
July 5, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28678660/the-functionally-elusive-rabi-chromosome-configuration-directly-regulates-nuclear-membrane-remodeling-at-mitotic-onset
#16
Alfonso Fernández-Álvarez, Julia Promisel Cooper
Despite its ubiquity in interphase eukaryotic nuclei, the functional significance of the RabI configuration, in which interphase centromeres are clustered at the nuclear envelope (NE) near the centrosome and telomeres localize at the opposite end of the nucleus, has remained mysterious. In a broad variety of organisms, including Schizosaccharomyces pombe, the RabI configuration is maintained throughout mitotic interphase. The fission yeast linker of nucleoskeleton and cytoskeleton (LINC) complex mediates this centromere association...
August 3, 2017: Cell Cycle
https://www.readbyqxmd.com/read/28666168/full-cycle-rapid-scan-epr-deconvolution-algorithm
#17
Mark Tseytlin
Rapid scan electron paramagnetic resonance (RS EPR) is a continuous-wave (CW) method that combines narrowband excitation and broadband detection. Sinusoidal magnetic field scans that span the entire EPR spectrum cause electron spin excitations twice during the scan period. Periodic transient RS signals are digitized and time-averaged. Deconvolution of absorption spectrum from the measured full-cycle signal is an ill-posed problem that does not have a stable solution because the magnetic field passes the same EPR line twice per sinusoidal scan during up- and down-field passages...
June 11, 2017: Journal of Magnetic Resonance
https://www.readbyqxmd.com/read/28656228/glioma-cells-enhance-angiogenesis-and-inhibit-endothelial-cell-apoptosis-through-the-release-of-exosomes-that-contain-long-non-coding-rna-ccat2
#18
Hai-Li Lang, Guo-Wen Hu, Bo Zhang, Wei Kuang, Yong Chen, Lei Wu, Guo-Hai Xu
Angiogenesis is a key event in the progression of gliomas. Exosomes, as signaling extracellular organelles, modulate the tumor microenvironment and promote angiogenesis and tumor progression. We previously demonstrated that long intergenic non-coding RNA CCAT2 (linc-CCAT2) was overexpressed in glioma tissues and functioned to promote glioma progression. Therefore, this study aimed to explore an underlying mechanism of glioma cell-affected angiogenesis. First, qRT-PCR was used to determine the expression level of linc-CCAT2 in 4 glioma cell lines and 293T cells, and the results revealed that the U87-MG cells exhibited the highest expression level...
August 2017: Oncology Reports
https://www.readbyqxmd.com/read/28640691/the-nesprin-cytoskeleton-interface-probed-directly-on-single-nuclei-is-a-mechanically-rich-system
#19
Daniel A Balikov, Sonia K Brady, Ung Hyun Ko, Jennifer H Shin, Jose M de Pereda, Arnoud Sonnenberg, Hak-Joon Sung, Matthew J Lang
The cytoskeleton provides structure and plays an important role in cellular function such as migration, resisting compression forces, and transport. The cytoskeleton also reacts to physical cues such as fluid shear stress or extracellular matrix remodeling by reorganizing filament associations, most commonly focal adhesions and cell-cell cadherin junctions. These mechanical stimuli can result in genome-level changes, and the physical connection of the cytoskeleton to the nucleus provides an optimal conduit for signal transduction by interfacing with nuclear envelope proteins, called nesprins, within the LINC (linker of the nucleus to the cytoskeleton) complex...
June 22, 2017: Nucleus
https://www.readbyqxmd.com/read/28628199/measuring-cancer-drug-sensitivity-and-resistance-in-cultured-cells
#20
Mario Niepel, Marc Hafner, Mirra Chung, Peter K Sorger
Measuring the potencies of small-molecule drugs in cell lines is a critical aspect of preclinical pharmacology. Such experiments are also prototypical of high-throughput experiments in multi-well plates. The procedure is simple in principle, but many unrecognized factors can affect the results, potentially making data unreliable. The procedures for measuring drug response described here were developed by the NIH LINCS program to improve reproducibility. Key features include maximizing uniform cell growth during the assay period, accounting for the effects of cell density on response, and correcting sensitivity measures for differences in proliferation rates...
June 19, 2017: Current Protocols in Chemical Biology
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