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https://www.readbyqxmd.com/read/27911843/impact-of-the-gut-microbiota-on-enhancer-accessibility-in-gut-intraepithelial-lymphocytes
#1
Nicholas P Semenkovich, Joseph D Planer, Philip P Ahern, Nicholas W Griffin, Charles Y Lin, Jeffrey I Gordon
The gut microbiota impacts many aspects of host biology including immune function. One hypothesis is that microbial communities induce epigenetic changes with accompanying alterations in chromatin accessibility, providing a mechanism that allows a community to have sustained host effects even in the face of its structural or functional variation. We used Assay for Transposase-Accessible Chromatin with high-throughput sequencing (ATAC-seq) to define chromatin accessibility in predicted enhancer regions of intestinal αβ(+) and γδ(+) intraepithelial lymphocytes purified from germ-free mice, their conventionally raised (CONV-R) counterparts, and mice reared germ free and then colonized with CONV-R gut microbiota at the end of the suckling-weaning transition...
December 1, 2016: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/27911464/two-successful-insertions-of-peripherally-inserted-central-catheter-in-a-super-elderly-patient-with-bilateral-pacemaker-placement
#2
Wenyan Sun, Yufen Ma, Bing Liu, Ruibing Ge, Kai Wang, Qi Song
Peripherally inserted central catheters (PICCs) have been placed through the peripheral veins, and the best location for the tip of the PICCs is the lower third of the superior vena cava (SVC) and cavo-atrial junction. PICCs are commonly used in intravenous administration, parenteral nutrition therapy, chemotherapy, as well as in critical care units. The success rates in venipuncture are enhanced when ultrasonographic guides are used by the bedside PICC teams. There have been few reports of PICCs placed in super elderly patients with permanent cardiac pacemakers...
December 2, 2016: Journal of Vascular Access
https://www.readbyqxmd.com/read/27899651/a-permissive-chromatin-state-regulated-by-zfp281-aff3-in-controlling-the-imprinted-meg3-polycistron
#3
Yan Wang, Yang Shen, Qian Dai, Qian Yang, Yue Zhang, Xin Wang, Wei Xie, Zhuojuan Luo, Chengqi Lin
Genomic imprinting is an epigenetic regulation that leads to gene expression in a parent-of-origin specific manner. AFF3, the central component of the Super Elongation Complex-like 3 (SEC-L3), is enriched at both the intergenic-differentially methylated region (IG-DMR) and the Meg3 enhancer within the imprinted Dlk1-Dio3 locus to regulate the allele-specific gene expression in this locus. The localization of AFF3 to IG-DMR requires ZFP57. However, how AFF3 functions at the Meg3 enhancer in maintaining allele-specific gene expression remains unclear...
November 28, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/27898829/gapit-version-2-an-enhanced-integrated-tool-for-genomic-association-and-prediction
#4
You Tang, Xiaolei Liu, Jiabo Wang, Meng Li, Qishan Wang, Feng Tian, Zhongbin Su, Yuchun Pan, Di Liu, Alexander E Lipka, Edward S Buckler, Zhiwu Zhang
Most human diseases and agriculturally important traits are complex. Dissecting their genetic architecture requires continued development of innovative and powerful statistical methods. Corresponding advances in computing tools are critical to efficiently use these statistical innovations and to enhance and accelerate biomedical and agricultural research and applications. The genome association and prediction integrated tool (GAPIT) was first released in 2012 and became widely used for genome-wide association studies (GWAS) and genomic prediction...
July 2016: Plant Genome
https://www.readbyqxmd.com/read/27898360/novel-oral-administrated-paclitaxel-micelles-with-enhanced-bioavailability-and-antitumor-efficacy-for-resistant-breast-cancer
#5
Ting Zhang, Jingwen Luo, Yao Fu, Hanmei Li, Rui Ding, Tao Gong, Zhirong Zhang
Paclitaxel (PTX) is a widely used antineoplastic drug in clinic. Due to poor aqueous solubility, it is administrated by intravenous infusion of cremophor EL containing formulation with serious adverse effects. The low oral bioavailability is a great challenge for oral formulation development. In addition, P-gp mediated multidrug resistance limit its clinical use in various resistant cancers. In this study, a novel super-antiresistant PTX micelle formulation for oral administration was developed. A P-gp inhibitor, bromotetrandrine (W198) was co-encapsulated in the micelle...
November 21, 2016: Colloids and Surfaces. B, Biointerfaces
https://www.readbyqxmd.com/read/27897135/improved-dielectric-constant-and-breakdown-strength-of-%C3%AE-phase-dominant-super-toughened-polyvinylidene-fluoride-tio2-nanocomposite-film-an-excellent-material-for-energy-storage-applications-and-piezoelectric-throughput
#6
Md Mehebub Alam, Sujoy Kumar Ghosh, Debabrata Sarkar, Shrabanee Sen, Dipankar Mandal
Titanium dioxide (TiO2) nanoparticles (NPs) embedded γ-phase containing polyvinylidene fluoride (PVDF) nanocomposite (PNC) film turns to an excellent material for energy storage application due to an increased dielectric constant (32 at 1 kHz), enhanced electric breakdown strength (400 MV m(-1)). It also exhibits a high energy density of 4 J cm(-3) which is 25 times higher than that of virgin PVDF. 98% of the electroactive γ-phase has been acheived by the incorporation of TiO2 NPs and the resulting PNC behaves like a super-toughened material due to a dramatic improvement (more than 80%) in the tensile strength...
November 29, 2016: Nanotechnology
https://www.readbyqxmd.com/read/27895109/enhancers-and-super-enhancers-have-an-equivalent-regulatory-role-in-embryonic-stem-cells-through-regulation-of-single-or-multiple-genes
#7
Sakthi D Moorthy, Scott Davidson, Virlana M Shchuka, Gurdeep Singh, Nakisa Malek-Gilani, Lida Langroudi, Alexandre Martchenko, Vincent So, Neil N Macpherson, Jennifer A Mitchell
Transcriptional enhancers are critical for maintaining cell type-specific gene expression and driving cell fate changes during development. Highly transcribed genes are often associated with a cluster of individual enhancers such as those found in locus control regions. Recently these have been termed stretch enhancers or super-enhancers, which have been predicted to regulate critical cell identity genes. We employed a CRISPR/Cas9-mediated deletion approach to study the function of several enhancer clusters (ECs) and isolated enhancers in mouse embryonic stem (ES) cells...
November 28, 2016: Genome Research
https://www.readbyqxmd.com/read/27894050/successful-application-of-a-neutral-organic-base-1-8-bis-tetramethylguanidino-naphthalene-tmgn-for-the-radiosynthesis-of-11-c-raclopride
#8
Jihye Lee, Il-Koo Cheong, Sang-Yoon Lee
[(11)C]Raclopride is one of the most popular PET tracers used in Parkinson's disease studies. We previously prepared [(11)C]raclopride with reasonable yields using NaOH as an inorganic base, but the reaction patterns fluctuated. In this study, we describe the successful application of a commercially available 'super basic' proton sponge, TMGN, as a base for the [(11)C]methylation step using [(11)C]CH3OTf. This novel TMGN method produced better radiochemical yields, as well as enhanced reproducibility and a reduction in side products...
October 11, 2016: Applied Radiation and Isotopes
https://www.readbyqxmd.com/read/27893666/four-weeks-of-paritaprevir-ritonavir-ombitasvir-plus-dasabuvir-encountering-dengue-fever-resulted-in-sustained-virological-response-in-an-hcv-patient-a-case-report
#9
Chung-Feng Huang, Tyng-Yuan Jang, Po-Liang Lu, Ming-Lung Yu
BACKGROUND: Direct antiviral agent (DAA) has been the standard of care for patients with hepatitis C virus (HCV) infection. Twelve weeks of paritaprevir/ritonavir/ombitasvir plus dasabuvir (PROD) with or without ribavirin has shown to have a sustained virological response at post-treatment 12 weeks (SVR12) rate of >90% in HCV genotype 1 (HCV-1) patients. METHODS: We report a HCV-1b patient who received only 25 days of PROD treatment. RESULTS: The patient early terminated treatment due to dengue fever but eventually achieved SVR12...
November 2016: Medicine (Baltimore)
https://www.readbyqxmd.com/read/27890922/progress-in-imaging-methods-insights-gained-into-plasmodium-biology
#10
Mariana De Niz, Paul-Christian Burda, Gesine Kaiser, Hernando A Del Portillo, Tobias Spielmann, Freddy Frischknecht, Volker T Heussler
Over the past decade, major advances in imaging techniques have enhanced our understanding of Plasmodium spp. parasites and their interplay with mammalian hosts and mosquito vectors. Cryoelectron tomography, cryo-X-ray tomography and super-resolution microscopy have shifted paradigms of sporozoite and gametocyte structure, the process of erythrocyte invasion by merozoites, and the architecture of Maurer's clefts. Intravital time-lapse imaging has been revolutionary for our understanding of pre-erythrocytic stages of rodent Plasmodium parasites...
November 28, 2016: Nature Reviews. Microbiology
https://www.readbyqxmd.com/read/27890323/ventromedial-prefrontal-cortex-generates-pre-stimulus-theta-coherence-desynchronization-a-schema-instantiation-hypothesis
#11
Asaf Gilboa, Morris Moscovitch
The ventral medial prefrontal cortex (vmPFC) has long been implicated in monitoring of memory veracity, and more recently also in memory schema functions. In our model of strategic retrieval the two are related. We have proposed that the vmPFC has two schema-dependent functions: (i) to establish context-relevant templates against which the output of memory systems can be compared; (ii) to mediate automatic decision monitoring processes to ensure that only those responses that meet the criterion are enacted...
October 31, 2016: Cortex; a Journal Devoted to the Study of the Nervous System and Behavior
https://www.readbyqxmd.com/read/27886174/5-hydroxymethylcytosine-localizes-to-enhancer-elements-and-is-associated-with-survival-in-glioblastoma-patients
#12
Kevin C Johnson, E Andres Houseman, Jessica E King, Katharine M von Herrmann, Camilo E Fadul, Brock C Christensen
Glioblastomas exhibit widespread molecular alterations including a highly distorted epigenome. Here, we resolve genome-wide 5-methylcytosine and 5-hydroxymethylcytosine in glioblastoma through parallel processing of DNA with bisulfite and oxidative bisulfite treatments. We apply a statistical algorithm to estimate 5-methylcytosine, 5-hydroxymethylcytosine and unmethylated proportions from methylation array data. We show that 5-hydroxymethylcytosine is depleted in glioblastoma compared with prefrontal cortex tissue...
November 25, 2016: Nature Communications
https://www.readbyqxmd.com/read/27884774/esponsive-multifunctional-drug-delivery-nanoparticles-for-elastic-matrix-regenerative-repair
#13
Balakrishnan Sivaraman, Ganesh Swaminathan, Lee Moore, Jonathan Fox, Dhruv Seshadri, Shataakshi Dahal, Ivan Stoilov, Maciej Zborowski, Robert Mecham, Anand Ramamurthi
: Arresting or regressing growth of abdominal aortic aneurysms (AAAs), localized expansions of the abdominal aorta are contingent on inhibiting chronically overexpressed matrix metalloproteases (MMPs)-2 and -9 that disrupt elastic matrix within the aortic wall, concurrent with providing a stimulus to augmenting inherently poor auto-regeneration of these matrix structures. In a recent study we demonstrated that localized, controlled and sustained delivery of doxycycline (DOX; a tetracycline-based antibiotic) from poly(lactic-co-glycolic acid) nanoparticles (PLGA NPs), enhances elastic matrix deposition and MMP-inhibition at a fraction of the therapeutically effective oral dose...
November 21, 2016: Acta Biomaterialia
https://www.readbyqxmd.com/read/27884082/enhanced-conformational-flexibility-of-the-histone-like-hu-protein-from-mycoplasma-gallisepticum
#14
Dmitry A Altukhov, Anna A Talyzina, Yulia K Agapova, Anna V Vlaskina, Dmitry A Korzhenevskiy, Eduard V Bocharov, Tatiana V Rakitina, Vladimir I Timofeev, Vladimir O Popov
The histone-like (HU) protein is one of the major nucleoid-associated proteins involved in DNA supercoiling and compaction into bacterial nucleoid as well as in all DNA-dependent transactions. This small positively charged dimeric protein binds DNA in a non-sequence specific manner promoting DNA super-structures. The majority of HU proteins are highly conserved among bacteria; however, HU protein from Mycoplasma gallisepticum (HUMgal) has multiple amino acid substitutions in the most conserved regions, which are believed to contribute to its specificity to DNA targets unusual for canonical HU proteins...
November 24, 2016: Journal of Biomolecular Structure & Dynamics
https://www.readbyqxmd.com/read/27883139/clustered-localization-of-egfrviii-in-glioblastoma-cells-as-detected-by-high-precision-localization-microscopy
#15
Philip S Boyd, Nina Struve, Margund Bach, Jan Philipp Eberle, Martin Gote, Florian Schock, Christoph Cremer, Malte Kriegs, Michael Hausmann
For receptor tyrosine kinases supramolecular organization on the cell membrane is critical for their function. Super-resolution fluorescence microscopy techniques have offered new opportunities for the analysis of single receptor localization. Here, we analysed the cluster formation of the epidermal growth factor receptor variant III (EGFRvIII), a deletion variant which is expressed in glioblastoma. The constitutively activated variant EGFRvIII is expressed in cells with an egfr gene amplification and is thought to enhance the tumorigenic potential especially of glioblastoma cells...
November 24, 2016: Nanoscale
https://www.readbyqxmd.com/read/27882622/black-phosphorus-nanosheet-based-drug-delivery-system-for-synergistic-photodynamic-photothermal-chemotherapy-of-cancer
#16
Wansong Chen, Jiang Ouyang, Hong Liu, Min Chen, Ke Zeng, Jianping Sheng, Zhenjun Liu, Yajing Han, Liqiang Wang, Juan Li, Liu Deng, You-Nian Liu, Shaojun Guo
A black phosphorus (BP)-based drug delivery system for synergistic photodynamic/photothermal/chemotherapy of cancer is constructed. As a 2D nanosheet, BP shows super high drug loading capacity and pH-/photoresponsive drug release. The intrinsic photothermal and photodynamic effects of BP enhance the antitumor activities. The synergistic photodynamic/photothermal/chemotherapy makes BP-based drug delivery system a multifunctional nanomedicine platform.
November 24, 2016: Advanced Materials
https://www.readbyqxmd.com/read/27881663/periodic-actin-structures-in-neuronal-axons-are-required-to-maintain-microtubules
#17
Yue Qu, Ines Hahn, Stephen Webb, Simon P Pearce, Andreas Prokop
Axons are the cable-like neuronal processes wiring the nervous system. They contain parallel bundles of microtubules as structural backbones, surrounded by regularly-spaced actin rings termed the periodic membrane skeleton (PMS). Despite being an evolutionarily-conserved, ubiquitous, highly-ordered feature of axons, the function of PMS is unknown. Here we studied PMS abundance, organisation and function, combining versatile Drosophila genetics with super-resolution microscopy and various functional readouts...
November 23, 2016: Molecular Biology of the Cell
https://www.readbyqxmd.com/read/27874059/super-enhancement-of-1-54%C3%A2-%C3%AE-m-emission-from-erbium-codoped-with-oxygen-in-silicon-on-insulator
#18
M A Lourenço, M M Milošević, A Gorin, R M Gwilliam, K P Homewood
We report on the super enhancement of the 1.54 μm Er emission in erbium doped silicon-on-insulator when codoped with oxygen at a ratio of 1:1. This is attributed to a more favourable crystal field splitting in the substitutional tetrahedral site favoured for the singly coordinated case. The results on these carefully matched implant profiles show that optical response is highly determined by the amount and ratio of erbium and oxygen present in the sample and ratios of O:Er greater than unity are severely detrimental to the Er emission...
November 22, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27869826/pan-cancer-analysis-of-somatic-copy-number-alterations-implicates-irs4-and-igf2-in-enhancer-hijacking
#19
Joachim Weischenfeldt, Taronish Dubash, Alexandros P Drainas, Balca R Mardin, Yuanyuan Chen, Adrian M Stütz, Sebastian M Waszak, Graziella Bosco, Ann Rita Halvorsen, Benjamin Raeder, Theocharis Efthymiopoulos, Serap Erkek, Christine Siegl, Hermann Brenner, Odd Terje Brustugun, Sebastian M Dieter, Paul A Northcott, Iver Petersen, Stefan M Pfister, Martin Schneider, Steinar K Solberg, Erik Thunissen, Wilko Weichert, Thomas Zichner, Roman Thomas, Martin Peifer, Aslaug Helland, Claudia R Ball, Martin Jechlinger, Rocio Sotillo, Hanno Glimm, Jan O Korbel
Extensive prior research focused on somatic copy-number alterations (SCNAs) affecting cancer genes, yet the extent to which recurrent SCNAs exert their influence through rearrangement of cis-regulatory elements (CREs) remains unclear. Here we present a framework for inferring cancer-related gene overexpression resulting from CRE reorganization (e.g., enhancer hijacking) by integrating SCNAs, gene expression data and information on topologically associating domains (TADs). Analysis of 7,416 cancer genomes uncovered several pan-cancer candidate genes, including IRS4, SMARCA1 and TERT...
November 21, 2016: Nature Genetics
https://www.readbyqxmd.com/read/27869154/nuclear-organization-nup-tial-binding-to-super-enhancers
#20
Kim Baumann
No abstract text is available yet for this article.
November 21, 2016: Nature Reviews. Molecular Cell Biology
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