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https://www.readbyqxmd.com/read/28783060/a-diagnostic-post-occupancy-evaluation-of-the-nacadia%C3%A2-therapy-garden
#1
Ulrik Sidenius, Patrik Karlsson Nyed, Victoria Linn Lygum, Ulrika K Stigsdotter
The design of the Nacadia® therapy garden is based on a model for evidence-based health design in landscape architecture (EBHDL). One element of the model is a diagnostic post-occupancy evaluation (DPOE), which has not previously been fully developed. The present study develops a generic DPOE for therapy gardens, with a focus on studying the effects of the design on patients' health outcomes. This is done in order to identify successes and failures in the design. By means of a triangulation approach, the DPOE employs a mixture of methods, and data is interpreted corroborating...
August 5, 2017: International Journal of Environmental Research and Public Health
https://www.readbyqxmd.com/read/28777140/the-molecular-landscape-of-noninvasive-follicular-thyroid-neoplasm-with-papillary-like-nuclear-features-niftp-a-literature-review
#2
Fulvio Basolo, Elisabetta Macerola, Clara Ugolini, David N Poller, Zubair Baloch
The encapsulated and noninvasive follicular variant of papillary thyroid carcinoma has been recently reclassified as noninvasive follicular thyroid neoplasm with papillary-like nuclear features (NIFTP). These tumors demonstrate indolent behavior. This change in nomenclature will have great clinical impact by avoiding overtreatment of patients with NIFTP lesions who in the past were diagnosed with thyroid carcinoma and typically received completion thyroidectomy followed by radioactive iodine ablation. The pathologic diagnosis of NIFTP requires surgical removal of the thyroid lesion or the lobe harboring it, and thorough sampling of the complete interface between the tumor capsule and the thyroid parenchyma, to exclude foci of invasion...
September 2017: Advances in Anatomic Pathology
https://www.readbyqxmd.com/read/28752247/breast-cancer-complexity-implications-of-intratumoral-heterogeneity-in-clinical-management
#3
REVIEW
Brittany Haynes, Ashapurna Sarma, Pratima Nangia-Makker, Malathy P Shekhar
Generation of intratumoral phenotypic and genetic heterogeneity has been attributed to clonal evolution and cancer stem cells that together give rise to a tumor with complex ecosystems. Each ecosystem contains various tumor cell subpopulations and stromal entities, which, depending upon their composition, can influence survival, therapy responses, and global growth of the tumor. Despite recent advances in breast cancer management, the disease has not been completely eradicated as tumors recur despite initial response to treatment...
July 27, 2017: Cancer Metastasis Reviews
https://www.readbyqxmd.com/read/28740156/mapping-the-dynamics-of-the-glucocorticoid-receptor-within-the-nuclear-landscape
#4
Martin Stortz, Diego M Presman, Luciana Bruno, Paolo Annibale, Maria V Dansey, Gerardo Burton, Enrico Gratton, Adali Pecci, Valeria Levi
The distribution of the transcription machinery among different sub-nuclear domains raises the question on how the architecture of the nucleus modulates the transcriptional response. Here, we used fluorescence fluctuation analyses to quantitatively explore the organization of the glucocorticoid receptor (GR) in the interphase nucleus of living cells. We found that this ligand-activated transcription factor diffuses within the nucleus and dynamically interacts with bodies enriched in the coregulator NCoA-2, DNA-dependent foci and chromatin targets...
July 24, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28727195/patterns-of-divergence-across-the-geographic-and-genomic-landscape-of-a-butterfly-hybrid-zone-associated-with-a-climatic-gradient
#5
Sean F Ryan, Michael C Fontaine, Mark J Scriber, Michael E Pfrender, Shawn T O'Neil, Jessica J Hellmann
Hybrid zones are a valuable tool for studying the process of speciation and for identifying the genomic regions undergoing divergence and the ecological (extrinsic) and non-ecological (intrinsic) factors involved. Here, we explored the genomic and geographic landscape of divergence in a hybrid zone between Papilio glaucus and Papilio canadensis. Using a genome scan of 28,417 ddRAD SNPs, we identified genomic regions under possible selection and examined their distribution in the context of previously identified candidate genes for ecological adaptations...
July 20, 2017: Molecular Ecology
https://www.readbyqxmd.com/read/28726930/competition-and-selectivity-in-supramolecular-synthesis-structural-landscape-around-1-pyridylmethyl-2-2-biimidazoles
#6
C A Gunawardana, J Desper, A S Sinha, M Ðaković, C B Aakeröy
Three isomeric forms of 1-(pyridylmethyl)-2,2'-biimidazole, A1-A3, have been synthesized and subjected to systematic co-crystallizations with selected hydrogen- and halogen-bond donors in order to explore the impact of electrostatics and geometry on the resulting supramolecular architectures. The solid-state supramolecular behavior of A1-A3 is largely consistent in halogen-bonded co-crystals. Only two types of primary interactions, the N-HN/NH-N homomeric hydrogen-bond interactions responsible for the pairing of biimidazole moieties and the IN(pyridine) halogen bonds responsible for the co-crystal formation and structure extension, are present in these systems...
July 20, 2017: Faraday Discussions
https://www.readbyqxmd.com/read/28701277/the-epigenetic-architecture-at-gene-promoters-determines-cell-type-specific-lps-tolerance
#7
Kerstin Klein, Mojca Frank-Bertoncelj, Emmanuel Karouzakis, Renate E Gay, Christoph Kolling, Adrian Ciurea, Nagihan Bostanci, Georgios N Belibasakis, Lih-Ling Lin, Oliver Distler, Steffen Gay, Caroline Ospelt
Synovial fibroblasts (SF) drive inflammation and joint destruction in chronic arthritis. Here we show that SF possess a distinct type of LPS tolerance compared to macrophages and other types of fibroblasts. In SF and dermal fibroblasts, genes that were non-tolerizable after repeated LPS stimulation included pro-inflammatory cytokines, chemokines and matrix metalloproteinases, whereas anti-viral genes were tolerizable. In macrophages, all measured genes were tolerizable, whereas in gingival and foreskin fibroblasts these genes were non-tolerizable...
July 9, 2017: Journal of Autoimmunity
https://www.readbyqxmd.com/read/28698678/prototype-of-a-bistable-polariton-field-effect-transistor-switch
#8
H Suchomel, S Brodbeck, T C H Liew, M Amthor, M Klaas, S Klembt, M Kamp, S Höfling, C Schneider
Microcavity exciton polaritons are promising candidates to build a new generation of highly nonlinear and integrated optoelectronic devices. Such devices range from novel coherent light emitters to reconfigurable potential landscapes for electro-optical polariton-lattice based quantum simulators as well as building blocks of optical logic architectures. Especially for the latter, the strongly interacting nature of the light-matter hybrid particles has been used to facilitate fast and efficient switching of light by light, something which is very hard to achieve with weakly interacting photons...
July 11, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28690840/making-the-clock-tick-the-transcriptional-landscape-of-the-plant-circadian-clock
#9
REVIEW
James Ronald, Seth J Davis
Circadian clocks are molecular timekeepers that synchronise internal physiological processes with the external environment by integrating light and temperature stimuli. As in other eukaryotic organisms, circadian rhythms in plants are largely generated by an array of nuclear transcriptional regulators and associated co-regulators that are arranged into a series of interconnected molecular loops. These transcriptional regulators recruit chromatin-modifying enzymes that adjust the structure of the nucleosome to promote or inhibit DNA accessibility and thus guide transcription rates...
2017: F1000Research
https://www.readbyqxmd.com/read/28682378/facile-synthesis-of-porous-la-ti-o-and-latio2n-microspheres
#10
Evan E Rugen, Kallum M Koczkur, Sara E Skrabalak
Photocatalysts offer an excellent opportunity to shift the global energy landscape from a fossil fuel-dependent paradigm to sustainable and carbon-neutral solar fuels. Oxynitride materials such as LaTiO2N are potential photocatalysts for the water splitting reaction due to their high oxidative stability and their narrow band gaps, which are suitable for visible light absorption. However, facile synthetic routes to metal oxynitrides with controlled morphologies are rare. Ultrasonic spray synthesis (USS) offers a facile method toward complex metal oxides which can potentially be converted to oxynitrides with preservation of the microsphere structures that typify the products from such aerosol routes...
August 15, 2017: Dalton Transactions: An International Journal of Inorganic Chemistry
https://www.readbyqxmd.com/read/28678226/topology-of-internally-constrained-polymer-chains
#11
Maziar Heidari, Vahid Satarifard, Sander J Tans, Mohammad Reza Ejtehadi, Samaneh Mashaghi, Alireza Mashaghi
Linear chains with intra-chain contacts can adopt different topologies and allow transitions between them, but it remains unclear how this process can be controlled. This question is important to systems ranging from proteins to chromosomes, which can adopt different conformations that are key to their function and toxicity. Here, we investigate how the topological dynamics of a simple linear chain is affected by interactions with a binding partner, using Monte Carlo and Molecular Dynamics simulations. We show that two point contacts with a binding partner are sufficient to accelerate or decelerate the formation of particular topologies within linear chains...
July 5, 2017: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/28668130/analysis-of-functional-dynamics-of-modular-multidomain-proteins-by-saxs-and-nmr
#12
Matthew K Thompson, Aaron C Ehlinger, Walter J Chazin
Multiprotein machines drive virtually all primary cellular processes. Modular multidomain proteins are widely distributed within these dynamic complexes because they provide the flexibility needed to remodel structure as well as rapidly assemble and disassemble components of the machinery. Understanding the functional dynamics of modular multidomain proteins is a major challenge confronting structural biology today because their structure is not fixed in time. Small-angle X-ray scattering (SAXS) and nuclear magnetic resonance (NMR) spectroscopy have proven particularly useful for the analysis of the structural dynamics of modular multidomain proteins because they provide highly complementary information for characterizing the architectural landscape accessible to these proteins...
2017: Methods in Enzymology
https://www.readbyqxmd.com/read/28667018/a-high-density-linkage-map-reveals-sexual-dimorphism-in-recombination-landscapes-in-red-deer-cervus-elaphus
#13
Susan E Johnston, Jisca Huisman, Philip A Ellis, Josephine M Pemberton
High density linkage maps are an important tool to gain insight into the genetic architecture of traits of evolutionary and economic interest, and provide a resource to characterise variation in recombination landscapes. Here, we used information from the cattle genome and the 50K Cervine Illumina BeadChip to inform and refine a high density linkage map in a wild population of red deer (Cervus elaphus). We constructed a predicted linkage map of 38,038 SNPs and a skeleton map of 10,835 SNPs across 34 linkage groups...
June 30, 2017: G3: Genes—Genomes—Genetics
https://www.readbyqxmd.com/read/28657760/effect-of-monovalent-ion-parameters-on-molecular-dynamics-simulations-of-g-quadruplexes
#14
Marek Havrila, Petr Stadlbauer, Barira Islam, Michal Otyepka, Jiří Šponer
G-quadruplexes (GQs) are key noncanonical DNA and RNA architectures stabilized by desolvated monovalent cations present in their central channels. We analyze extended atomistic molecular dynamics simulations (∼580 μs in total) of GQs with 11 monovalent cation parametrizations, assessing GQ overall structural stability, dynamics of internal cations, and distortions of the G-tetrad geometries. Majority of simulations were executed with the SPC/E water model; however, test simulations with TIP3P and OPC water models are also reported...
July 17, 2017: Journal of Chemical Theory and Computation
https://www.readbyqxmd.com/read/28640578/insect-analogue-to-the-lotus-leaf-a-planthopper-wing-membrane-incorporating-a-low-adhesion-nonwetting-superhydrophobic-bactericidal-and-biocompatible-surface
#15
Gregory S Watson, David W Green, Bronwen W Cribb, Christopher L Brown, Christopher R Meritt, Mark J Tobin, Jitraporn Vongsvivut, Mingxia Sun, Ai-Ping Liang, Jolanta A Watson
Nature has produced many intriguing and spectacular surfaces at the micro- and nanoscales. These small surface decorations act for a singular or, in most cases, a range of functions. The minute landscape found on the lotus leaf is one such example, displaying antiwetting behavior and low adhesion with foreign particulate matter. Indeed the lotus leaf has often been considered the "benchmark" for such properties. One could expect that there are animal counterparts of this self-drying and self-cleaning surface system...
July 19, 2017: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/28638623/the-genetic-architecture-of-growth-traits-in-salix-matsudana-under-salt-stress
#16
Jian Zhang, Huwei Yuan, Qingshan Yang, Min Li, Ying Wang, Yujuan Li, Xiangjian Ma, Feng Tan, Rongling Wu
Willow (Salix) is one of the most important ornamental tree species in landscape plants. One species, Salix matsudana, is widely used as a shade tree and border tree because of its soft branches and plump crown. Some varieties of S. matsudana were salt tolerant and could grow normally in coastal regions. However, the molecular mechanisms of salt tolerance for S. matsudana have been less clear. Here, we addressed this issue by performing a mapping experiment containing 195 intraspecific F1 progeny of S. matsudana, derived from salt-sensitive 'yanjiang' and salt-tolerant '9901', grown by cuttings in a 100 mM NaCl solution...
2017: Horticulture Research
https://www.readbyqxmd.com/read/28627434/a-different-kind-of-love-lipid-droplet-contact-sites
#17
REVIEW
Maya Schuldiner, Maria Bohnert
Lipid droplets (LDs) store lipids and hence serve as energy reservoir and as a source for building-blocks for the organelle membrane systems. LD biology therefore depends on tight communication with other organelles. The unique architecture of LDs, consisting of a neutral lipid core shielded by a phospholipid-monolayer, is however an obstacle to bulk-exchange of bilayer-bounded vesicles with other organelles. In recent years, it is emerging that contact sites, places where two organelles are positioned in close proximity allowing vesicle-independent communication, are an important way to integrate LDs into the organellar landscape...
June 13, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/28596419/intra-tumor-heterogeneity-novel-approaches-for-resolving-genomic-architecture-and-clonal-evolution
#18
Ravi G Gupta, Robert A Somer
High-throughput genomic technologies have revealed a remarkably complex portrait of intra-tumor heterogeneity in cancer and have shown that tumors evolve through a reiterative process of genetic diversification and clonal selection. This discovery has challenged the classical paradigm of clonal dominance and brought attention to subclonal tumor cell populations that contribute to the cancer phenotype. Dynamic evolutionary models may explain how these populations grow within the ecosystem of tissues, including linear, branching, neutral and punctuated patterns...
June 8, 2017: Molecular Cancer Research: MCR
https://www.readbyqxmd.com/read/28579392/bptf-maintains-chromatin-accessibility-and-the-self-renewal-capacity-of-mammary-gland-stem-cells
#19
Wesley D Frey, Anisha Chaudhry, Priscila F Slepicka, Adam M Ouellette, Steven E Kirberger, William C K Pomerantz, Gregory J Hannon, Camila O Dos Santos
Chromatin remodeling is a key requirement for transcriptional control of cellular differentiation. However, the factors that alter chromatin architecture in mammary stem cells (MaSCs) are poorly understood. Here, we show that BPTF, the largest subunit of the NURF chromatin remodeling complex, is essential for MaSC self-renewal and differentiation of mammary epithelial cells (MECs). BPTF depletion arrests cells at a previously undefined stage of epithelial differentiation that is associated with an incapacity to achieve the luminal cell fate...
July 11, 2017: Stem Cell Reports
https://www.readbyqxmd.com/read/28575308/spatial-temporal-transcriptional-dynamics-of-long-non-coding-rnas-in-human-brain
#20
Xiao-Qin Zhang, Ze-Lin Wang, Ming-Wai Poon, Jian-Hua Yang
The functional architecture of human brain is greatly determined by the temporal and spatial regulation of the transcription process. However, the spatial and temporal transcriptional landscape of long non-coding RNAs (lncRNAs) during human brain development remains poorly understood. Here, we report the genome-wide lncRNA transcriptional analysis in an extensive series of 1340 post-mortem human brain specimens collected from 16 regions spanning the period from early embryo development to late adulthood. We discovered that lncRNA transcriptome dramatically changed during fetal development, while transited to a surprisingly relatively stable state after birth till the late adulthood...
May 31, 2017: Human Molecular Genetics
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