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https://www.readbyqxmd.com/read/28335314/effects-of-g-quadruplex-topology-on-electronic-transfer-integrals
#1
Wenming Sun, Daniele Varsano, Rosa Di Felice
G-quadruplex is a quadruple helical form of nucleic acids that can appear in guanine-rich parts of the genome. The basic unit is the G-tetrad, a planar assembly of four guanines connected by eight hydrogen bonds. Its rich topology and its possible relevance as a drug target for a number of diseases have stimulated several structural studies. The superior stiffness and electronic π-π overlap between consecutive G-tetrads suggest exploitation for nanotechnologies. Here we inspect the intimate link between the structure and the electronic properties, with focus on charge transfer parameters...
October 15, 2016: Nanomaterials
https://www.readbyqxmd.com/read/28334880/dna-nanostructures-constructed-with-multi-stranded-motifs
#2
Donglei Yang, Zhenyu Tan, Yongli Mi, Bryan Wei
Earlier studies in DNA self-assembly have foretold the feasibility of building addressable nanostructures with multi-stranded motifs, which is fully validated in this study. In realizing this feasibility in DNA nanotechnology, a diversified set of motifs of modified domain lengths is extended from a classic type. The length of sticky ends can be adjusted to form different dihedral angles between the matching motifs, which corresponds to different connecting patterns. Moreover, the length of rigidity core can also be tuned to result in different dihedral angles between the component helices of a certain motif therefore different numbers of component helices...
February 22, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28334818/chromosomal-dynamics-predicted-by-an-elastic-network-model-explains-genome-wide-accessibility-and-long-range-couplings
#3
Natalie Sauerwald, She Zhang, Carl Kingsford, Ivet Bahar
Understanding the three-dimensional (3D) architecture of chromatin and its relation to gene expression and regulation is fundamental to understanding how the genome functions. Advances in Hi-C technology now permit us to study 3D genome organization, but we still lack an understanding of the structural dynamics of chromosomes. The dynamic couplings between regions separated by large genomic distances (>50 Mb) have yet to be characterized. We adapted a well-established protein-modeling framework, the Gaussian Network Model (GNM), to model chromatin dynamics using Hi-C data...
March 16, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28334696/effects-of-hypergravity-on-the-angiogenic-potential-of-endothelial-cells
#4
Raquel Costa-Almeida, Daniel T O Carvalho, Miguel J S Ferreira, Guilherme Aresta, Manuela E Gomes, Jack J W A van Loon, Kim Van der Heiden, Pedro L Granja
Angiogenesis, the formation of blood vessels from pre-existing ones, is a key event in pathology, including cancer progression, but also in homeostasis and regeneration. As the phenotype of endothelial cells (ECs) is continuously regulated by local biomechanical forces, studying endothelial behaviour in altered gravity might contribute to new insights towards angiogenesis modulation. This study aimed at characterizing EC behaviour after hypergravity exposure (more than 1g), with special focus on cytoskeleton architecture and capillary-like structure formation...
November 2016: Journal of the Royal Society, Interface
https://www.readbyqxmd.com/read/28334430/radiofrequency-ablation-using-a-10-mm-target-margin-for-small-hepatocellular-carcinoma-in-patients-with-liver-cirrhosis-a-prospective-randomized-trial
#5
Mingheng Liao, Xiaofei Zhong, Jingyi Zhang, Yangyang Liu, Zexin Zhu, Hong Wu, Yong Zeng, Jiwei Huang
BACKGROUND AND OBJECTIVES: To compare 3-year clinical outcomes of radiofrequency ablation (RFA) targeting 5- or 10-mm margins for small hepatocellular carcinomas (HCCs) in cirrhotic patients. METHODS: In total, 96 cirrhotic patients with a small solitary HCC (diameter ≤3 cm) were included in this prospective trial (ChiCTRTRC-10000954). Patients were stratified by Child-Pugh class and randomly allocated into groups targeting either wide margins (≥10 mm, WM) or narrow margins (≥5 mm but <10 mm, NM)...
March 23, 2017: Journal of Surgical Oncology
https://www.readbyqxmd.com/read/28333650/validation-of-static-and-dynamic-balance-assessment-using-microsoft-kinect-for-young-and-elderly-populations
#6
Moataz Eltoukhy, Christopher Kuenze, Jeonghoon Oh, Joseph Signorile
Reduction in balance is an indicator of fall risk, and therefore, an accurate and cost effective balance assessment tool is essential for prescribing effective postural control strategies. This study established the validity of the Kinect v2 sensor in assessing center of mass (CoM) excursion and velocity during single leg balance and voluntary ankle sway tasks among young and elderly subjects. We compared balance outcome measures (anteroposterior (AP) and mediolateral (ML) CoM excursion and velocity and average sway length) to a traditional three-dimensional motion analysis system...
March 22, 2017: IEEE Journal of Biomedical and Health Informatics
https://www.readbyqxmd.com/read/28333638/a-comparative-study-for-identifying-the-chromosome-wide-spatial-clusters-from-high-throughput-chromatin-conformation-capture-data
#7
Xiangtao Li, Ka-Chun Wong
In the past years, the high-throughput sequencing technologies have enabled massive insights into genomic annotations. In contrast, the full-scale three-dimensional arrangements of genomic regions are relatively unknown. Thanks to the recent breakthroughs in High-throughput Chromosome Conformation Capture (Hi-C) techniques, non-negative matrix factorization (NMF) has been adopted to identify local spatial clusters of genomic regions from Hi-C data. However, such non-negative matrix factorization entails a high-dimensional non-convex objective function to be optimized with non-negative constraints...
March 20, 2017: IEEE/ACM Transactions on Computational Biology and Bioinformatics
https://www.readbyqxmd.com/read/28333452/mixed-lanthanide-porous-coordination-polymers-showing-range-tunable-ratiometric-luminescence-for-o2-sensing
#8
Jia-Wen Ye, Jiao-Min Lin, Zong-Wen Mo, Chun-Ting He, Hao-Long Zhou, Jie-Peng Zhang, Xiao-Ming Chen
Luminescent porous coordination polymers (PCPs) are emerging as attractive oxygen-sensing materials, but they are mostly based on single-wavelength luminometry. Here, we report a special mixed-lanthanide strategy for self-referenced ratiometric oxygen sensing. A series of isostructural, pure-lanthanide, or mixed-lanthanide PCPs, MCF-53(Tb/Eux), were synthesized by solvothermal reactions. Single-crystal X-ray diffraction revealed that MCF-53(Tb/Eux) is composed of complicated two-dimensional coordination networks, which interdigitate to form a three-dimensional supramolecular structure retaining one-dimensional ultra-micropores...
March 23, 2017: Inorganic Chemistry
https://www.readbyqxmd.com/read/28333438/nuclear-membrane-targeted-gold-nanoparticles-inhibit-cancer-cell-migration-and-invasion
#9
Moustafa R K Ali, Yue Wu, Deepraj Ghosh, Brian H Do, Kuangcai Chen, Michelle R Dawson, Ning Fang, Todd A Sulchek, Mostafa A El-Sayed
Most cancer patients die from metastasis. Recent studies have shown that gold nanoparticles (AuNPs) can slow down the migration/invasion speed of cancer cells and suppress metastasis. Since nuclear stiffness of the cell largely decreases cell migration, our hypothesis is that targeting AuNPs to the cell nucleus region could enhance nuclear stiffness, and therefore inhibit cell migration and invasion. Our results showed that upon nuclear targeting of AuNPs, the ovarian cancer cell motilities decrease significantly, compared with non-targeted AuNPs...
March 23, 2017: ACS Nano
https://www.readbyqxmd.com/read/28333290/evolution-of-the-genome-3d-organization-comparison-of-fused-and-segregated-globin-gene-clusters
#10
Anastasia P Kovina, Natalia V Petrova, Ekaterina S Gushchanskaya, Konstantin V Dolgushin, Evgeny S Gerasimov, Aleksandra A Galitsyna, Alexey A Penin, Ilya M Flyamer, Elena S Ioudinkova, Alexey A Gavrilov, Yegor S Vassetzky, Sergey V Ulianov, Olga V Iarovaia, Sergey V Razin
The genomes are folded in a complex three-dimensional (3D) structure. Some features of this organization are common for all eukaryotes, but little is known about its evolution. Here we have studied the 3D organization and regulation of zebrafish globin domain and compared its organization and regulation with those of other vertebrate species. In birds and mammals, the alpha- and beta-globin genes are segregated into separate clusters located on different chromosomes and organized into chromatin domains of different types, whereas in cold-blooded vertebrates, including Danio rerio, alpha- and beta-globin genes are organized into common clusters...
March 7, 2017: Molecular Biology and Evolution
https://www.readbyqxmd.com/read/28333087/magnetically-bioprinted-human-myometrial-3d-cell-rings-as-a-model-for-uterine-contractility
#11
Glauco R Souza, Hubert Tseng, Jacob A Gage, Arunmani Mani, Pujan Desai, Fransisca Leonard, Angela Liao, Monica Longo, Jerrie S Refuerzo, Biana Godin
Deregulation in uterine contractility can cause common pathological disorders of the female reproductive system, including preterm labor, infertility, inappropriate implantation, and irregular menstrual cycle. A better understanding of human myometrium contractility is essential to designing and testing interventions for these important clinical problems. Robust studies on the physiology of human uterine contractions require in vitro models, utilizing a human source. Importantly, uterine contractility is a three-dimensionally (3D)-coordinated phenomenon and should be studied in a 3D environment...
March 23, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/28332995/three-dimensional-dosimetric-validation-of-a-magnetic-resonance-guided-intensity-modulated-radiation-therapy-system
#12
Leith J Rankine, Stewart Mein, Bin Cai, Austen Curcuru, Titania Juang, Devin Miles, Sasa Mutic, Yuhe Wang, Mark Oldham, H Harold Li
PURPOSE: To validate the dosimetric accuracy of a commercially available magnetic resonance guided intensity modulated radiation therapy (MRgIMRT) system using a hybrid approach: 3-dimensional (3D) measurements and Monte Carlo calculations. METHODS AND MATERIALS: We used PRESAGE radiochromic plastic dosimeters with remote optical computed tomography readout to perform 3D high-resolution measurements, following a novel remote dosimetry protocol. We followed the intensity modulated radiation therapy commissioning recommendations of American Association of Physicists in Medicine Task Group 119, adapted to incorporate 3D data...
April 1, 2017: International Journal of Radiation Oncology, Biology, Physics
https://www.readbyqxmd.com/read/28332957/three-dimensional-computed-tomography-reconstruction-in-transplant-renal-artery-stenosis
#13
Xufeng Zhang, Hongwei Wang, Shuangde Liu, Jieke Yan, Xiaoli Liu, Dongsheng Xu, Chuan Tian
OBJECTIVES: Transplant renal artery stenosis is a frequently recognized complication of kidney transplant procedures. A single-center retrospective study was conducted to examine the use of 3-dimensional computed tomography reconstruction in diagnosing transplant artery stenosis. MATERIALS AND METHODS: During 2013 at our center, 86 patients underwent kidney transplant. All patients underwent ultrasonographic analyses. Patients with clinically suspected transplant renal artery stenosis were examined by 3-dimensional computed tomography reconstruction and were treated with endovascular approaches or medically managed...
March 22, 2017: Experimental and Clinical Transplantation
https://www.readbyqxmd.com/read/28332777/diagnostic-performance-of-the-melafind-device-in-a-real-life-clinical-setting
#14
Christine Fink, Claudia Jaeger, Katharina Jaeger, Holger A Haenssle
BACKGROUND: MelaFind is a multispectral computer vision system intended to -provide additional information on melanocytic lesions suspected of being melanoma by -objectively assessing their three-dimensional morphology. OBJECTIVES: Analysis of the diagnostic performance of MelaFind in a real-life clinical setting. PATIENTS AND METHODS: In this observational study, 360 pigmented skin lesions (PSL) in 111 patients were assessed by office-based dermatologists using MelaFind...
March 23, 2017: Journal der Deutschen Dermatologischen Gesellschaft, Journal of the German Society of Dermatology: JDDG
https://www.readbyqxmd.com/read/28332755/highly-branched-metal-alloy-networks-with-superior-activities-for-the-methanol-oxidation-reaction
#15
Xun Cui, Peng Xiao, Jing Wang, Ming Zhou, Wenlong Guo, Yang Yang, Yanjie He, Zewei Wang, Yingkui Yang, Yunhuai Zhang, Zhiqun Lin
Three-dimensional (3D) interconnected metal alloy nanostructures possess superior catalytic performance owing to their advantageous characteristics, including improved catalytic activity, corrosion resistance, and stability. Hierarchically structured Ni-Cu alloys composed of 3D network-like microscopic branches with nanoscopic dendritic feelers on each branch were crafted by a facile and efficient hydrogen evolution-assisted electrodeposition approach. They were subsequently exploited for methanol electrooxidation in alkaline media...
March 23, 2017: Angewandte Chemie
https://www.readbyqxmd.com/read/28332583/hierarchical-meso-macro-porous-carbon-fabricated-from-dual-mgo-templates-for-direct-electron-transfer-enzymatic-electrodes
#16
Hiroto Funabashi, Satoshi Takeuchi, Seiya Tsujimura
We designed a three-dimensional (3D) hierarchical pore structure to improve the current production efficiency and stability of direct electron transfer-type biocathodes. The 3D hierarchical electrode structure was fabricated using a MgO-templated porous carbon framework produced from two MgO templates with sizes of 40 and 150 nm. The results revealed that the optimal pore composition for a bilirubin oxidase-catalysed oxygen reduction cathode was a mixture of 33% macropores and 67% mesopores (MgOC33). The macropores improve mass transfer inside the carbon material, and the mesopores improve the electron transfer efficiency of the enzyme by surrounding the enzyme with carbon...
March 23, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28332478/addressed-immobilization-of-biofunctionalized-diatoms-on-electrodes-by-gold-electrodeposition
#17
S Leonardo, D Garibo, M Fernández-Tejedor, C K O'Sullivan, M Campàs
Diatoms are single cell microalgae with a silica shell (frustule), which possess a micro/nanoporous pattern of unparalleled diversity far beyond the possibilities of current micro- and nanofabrication techniques. To explore diatoms as natural three-dimensional nanostructured supports in sensing and biosensing devices, a simple, rapid and stable method to immobilize diatoms via gold electrodeposition is described. In this process, gold microstructures are formed, immobilizing diatoms by entrapment or crossing their nanopores...
March 23, 2017: Biofabrication
https://www.readbyqxmd.com/read/28332215/effects-of-increased-left-ventricular-wall-thickness-on-the-myocardium-in-severe-aortic-stenosis-with-normal-left-ventricular-ejection-fraction-two-and-three-dimensional-multilayer-speckle-tracking-echocardiography
#18
Eun Jeong Cho, Sung-Ji Park, Eun Kyoung Kim, Ga Yeon Lee, Sung-A Chang, Jin-Oh Choi, Sang-Chol Lee, Seung Woo Park
BACKGROUND: The aim of this study was to determine the capability of real time three-dimensional echocardiography (RT3DE) and two-dimensional (2D) multilayer speckle tracking echocardiography (MSTE) for evaluation of early myocardial dysfunction triggered by increased left ventricular (LV) wall thickness in severe aortic stenosis (AS) with normal LV ejection fraction (EF≥55%). METHODS: Conventional, RT3D STE and 2D MSTE were performed in 45 patients (mean 68.9±9...
March 23, 2017: Echocardiography
https://www.readbyqxmd.com/read/28332203/margins-of-freedom-a-field-theoretic-approach-to-class-based-health-dispositions-and-practices
#19
Patrick John Burnett, Gerry Veenstra
Pierre Bourdieu's theory of practice situates social practices in the relational interplay between experiential mental phenomena (habitus), resources (capitals) and objective social structures (fields). When applied to class-based practices in particular, the overarching field of power within which social classes are potentially made manifest is the primary field of interest. Applying relational statistical techniques to original survey data from Toronto and Vancouver, Canada, we investigated whether smoking, engaging in physical activity and consuming fruit and vegetables are dispersed in a three-dimensional field of power shaped by economic and cultural capitals and cultural dispositions and practices...
March 23, 2017: Sociology of Health & Illness
https://www.readbyqxmd.com/read/28332110/minimizing-injury-and-maximizing-return-to-play-lessons-from-engineered-ligaments
#20
REVIEW
Keith Baar
Musculoskeletal injuries account for more than 70% of time away from sports. One of the reasons for the high number of injuries and long return to play is that we have only a very basic understanding of how our training alters tendon and ligament (sinew) structure and function. Sinews are highly dense tissues that are difficult to characterize both in vivo and in vitro. Recently, engineered ligaments have been developed in vitro using cells from human anterior cruciate ligaments or hamstring tendons. These three-dimensional tissues can be grown in a laboratory, treated with agents thought to affect sinew physiology, and then mechanically tested to determine their function...
March 22, 2017: Sports Medicine
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