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https://www.readbyqxmd.com/read/28727558/understanding-robust-adaptation-dynamics-of-gene-regulatory-network
#1
Xiao-Na Huang, Hai-Peng Ren
Robust adaptation is a critical attribute for gene regulatory network (GRN), understanding the relationship between adaptation and the GRN topology, and corresponding parameters is a challenging issue. The work in this paper includes: first, seven constraint multiobjective optimization algorithms are used to find sufficient solutions to get more reliable statistic rules. Meanwhile, the algorithms are compared to facilitate the future algorithm selection; second, a fuzzy c-mean algorithm is used to analyze solutions and to classify the solutions into different groups; third, the histogram analysis for all satisfactory solutions shows the preferred parameter range, i...
July 18, 2017: IEEE Transactions on Biomedical Circuits and Systems
https://www.readbyqxmd.com/read/28727001/analysis-of-genetic-diversity-of-chinese-dairy-goats-via-microsatellite-markers
#2
G Z Wang, S S Chen, T L Chao, Z B Ji, L Hou, Z J Qin, J M Wang
In this study, 15 polymorphic microsatellite markers were used to analyze the genetic structure and phylogenetic relationships of 6 dairy goat breeds in China, including 4 native developed breeds and 2 introduced breeds. The results showed that a total of 172 alleles were detected in 347 samples of the dairy goat breeds included in this study. The mean number of effective alleles per locus was 4.92. Except for BMS0812, all of the remaining microsatellite loci were highly polymorphic (polymorphism information content [PIC] > 0...
May 2017: Journal of Animal Science
https://www.readbyqxmd.com/read/28726887/standard-and-rapid-scan-infrared-spectroscopic-studies-of-o-xylene-transformations-in-terms-of-pore-arrangement-of-10-ring-zeolites-2d-cos-analysis
#3
Kinga Gołąbek, Karolina A Tarach, Kinga Góra-Marek
This study attempts to offer an insight into o-xylene isomerization process in terms of steric constraints of 10-ring zeolites. The zeolites under investigation, i.e. ZSM-5, IM-5 and TNU-9, have purely microporous structures and crystals with the same shape and offer comparable protonic functionality, both in manner of amount and strength of Si(OH)Al groups. Under these conditions, micropore topology is recognised to deliver differentiated catalytic performance of each zeolitic structure. Moreover, 10-ring zeolites of reduced dimensionality, i...
July 20, 2017: Dalton Transactions: An International Journal of Inorganic Chemistry
https://www.readbyqxmd.com/read/28726842/all-shook-up-over-topology
#4
EDITORIAL
(no author information available yet)
No abstract text is available yet for this article.
July 19, 2017: Nature
https://www.readbyqxmd.com/read/28726840/the-strange-topology-that-is-reshaping-physics
#5
Davide Castelvecchi
No abstract text is available yet for this article.
July 19, 2017: Nature
https://www.readbyqxmd.com/read/28726832/three-dimensional-magnetization-structures-revealed-with-x-ray-vector-nanotomography
#6
Claire Donnelly, Manuel Guizar-Sicairos, Valerio Scagnoli, Sebastian Gliga, Mirko Holler, Jörg Raabe, Laura J Heyderman
In soft ferromagnetic materials, the smoothly varying magnetization leads to the formation of fundamental patterns such as domains, vortices and domain walls. These have been studied extensively in thin films of thicknesses up to around 200 nanometres, in which the magnetization is accessible with current transmission imaging methods that make use of electrons or soft X-rays. In thicker samples, however, in which the magnetization structure varies throughout the thickness and is intrinsically three dimensional, determining the complex magnetic structure directly still represents a challenge...
July 19, 2017: Nature
https://www.readbyqxmd.com/read/28726818/topological-quantum-chemistry
#7
Barry Bradlyn, L Elcoro, Jennifer Cano, M G Vergniory, Zhijun Wang, C Felser, M I Aroyo, B Andrei Bernevig
Since the discovery of topological insulators and semimetals, there has been much research into predicting and experimentally discovering distinct classes of these materials, in which the topology of electronic states leads to robust surface states and electromagnetic responses. This apparent success, however, masks a fundamental shortcoming: topological insulators represent only a few hundred of the 200,000 stoichiometric compounds in material databases. However, it is unclear whether this low number is indicative of the esoteric nature of topological insulators or of a fundamental problem with the current approaches to finding them...
July 19, 2017: Nature
https://www.readbyqxmd.com/read/28726379/topological-dissection-of-the-membrane-transport-protein-mhp1-derived-from-cysteine-accessibility-and-mass-spectrometry
#8
Antonio Nickolas Calabrese, Scott M Jackson, Lynsey N Jones, Oliver Beckstein, Florian Heinkel, Joerg Gsponer, David Sharples, Marta Sans, Maria Kokkinidou, Arwen R Pearson, Sheena E Radford, Alison E Ashcroft, Peter J F Henderson
Cys accessibility and quantitative intact mass spectrometry (MS) analyses have been devised to study the topological transitions of Mhp1, the membrane protein for sodium-linked transport of hydantoins from Microbacterium liquefaciens. Mhp1 has been crystallised in three forms (outward-facing open, outward-facing occluded with substrate bound, and inward-facing open). We show that one natural cysteine residue, Cys327, out of three, has an enhanced solvent accessibility in the inward-facing (relative to the outward-facing) form...
July 20, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28725251/custom-made-micro-applicators-for-high-dose-rate-brachytherapy-treatment-of-chronic-psoriasis
#9
Ivan M Buzurovic, Desmond A O'Farrell, Mandar S Bhagwat, Jorgen L Hansen, Thomas C Harris, Scott Friesen, Robert A Cormack, Phillip M Devlin
PURPOSE: In this study, we present the treatment of the psoriatic nail beds of patients refractory to standard therapies using high-dose-rate (HDR) brachytherapy. The custom-made micro applicators (CMMA) were designed and constructed for radiation dose delivery to small curvy targets with complicated topology. The role of the HDR brachytherapy treatment was to stimulate the T cells for an increased immune response. MATERIAL AND METHODS: The patient diagnosed with psoriatic nail beds refractory to standard therapies received monthly subunguinal injections that caused significant pain and discomfort in both hands...
June 2017: Journal of Contemporary Brachytherapy
https://www.readbyqxmd.com/read/28725014/su-schrieffer-heeger-chain-with-one-pair-of-formula-see-text-symmetric-defects
#10
L Jin, P Wang, Z Song
The topologically nontrivial edge states induce [Formula: see text] transition in Su-Schrieffer-Heeger (SSH) chain with one pair of gain and loss at boundaries. In this study, we investigated a pair of [Formula: see text]-symmetric defects located inside the SSH chain, in particular, the defects locations are at the chain centre. The [Formula: see text] symmetry breaking of the bound states leads to the [Formula: see text] transition, the [Formula: see text]-symmetric phases and the localized states were studied...
July 19, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28723958/can-single-molecule-localization-microscopy-be-used-to-map-closely-spaced-rgd-nanodomains
#11
Mahdie Mollazade, Thibault Tabarin, Philip R Nicovich, Alexander Soeriyadi, Daniel J Nieves, J Justin Gooding, Katharina Gaus
Cells sense and respond to nanoscale variations in the distribution of ligands to adhesion receptors. This makes single molecule localization microscopy (SMLM) an attractive tool to map the distribution of ligands on nanopatterned surfaces. We explore the use of SMLM spatial cluster analysis to detect nanodomains of the cell adhesion-stimulating tripeptide arginine-glycine-aspartic acid (RGD). These domains were formed by the phase separation of block copolymers with controllable spacing on the scale of tens of nanometers...
2017: PloS One
https://www.readbyqxmd.com/read/28723654/disrupted-small-world-brain-network-topology-in-pure-conduct-disorder
#12
Feng-Mei Lu, Jian-Song Zhou, Jiang Zhang, Xiao-Ping Wang, Zhen Yuan
OBJECTIVES: Conduct disorder (CD) is characterized by the violation of the rights of others or basic social rules and a repetitive, persistent pattern of antisocial and aggressive behaviors. A large number of functional and structural neuroimaging studies have identified widely abnormalities in specific brain regions in CD, but the alterations in the topological organization of functional networks among them remain largely unknown. METHODS: Resting-state functional magnetic resonance imaging was applied to investigate the intrinsic functional connectivity in 18 pure CD patients and eighteen typically developing healthy controls...
July 8, 2017: Oncotarget
https://www.readbyqxmd.com/read/28722475/ann-qsar-workflow-for-predicting-the-inhibition-of-hiv-1-reverse-transcriptase-by-pyridinone-non-nucleoside-derivatives
#13
Abolfazl Barzegar, Elham Zamani-Gharehchamani, Ali Kadkhodaie-Ilkhchi
AIM: Pyridinone derivatives have high potency against non-nucleoside reverse transcriptase inhibitor (NNRTI)-resistant human immunodeficiency virus type-1 strains. Quantitative structure-activity relationship (QSAR) studies on a series of pyridinone derivatives acting as NNRTIs are very important in designing the next generation of NNRTIs. Methodology & results: The QSAR models were developed using linear (single and forward stepwise) and combined nonlinear artificial neural network (ANN) approaches...
July 19, 2017: Future Medicinal Chemistry
https://www.readbyqxmd.com/read/28722399/bias-free-chemically-diverse-test-sets-from-machine-learning
#14
Ellen Swann, Michael Fernandez, Michelle L Coote, Amanda S Barnard
Current benchmarking methods in quantum chemistry rely on databases that are built using a chemist's intuition. It is not fully understood how diverse or representative these databases truly are. Multivariate statistical techniques like archetypal analysis and K-means clustering have previously been used to summarise large sets of nanoparticles however molecules are more diverse and not as easily characterised by descriptors. In this work we compare three sets of descriptors based on the one-, two- and three-dimensional structure of a molecule...
July 19, 2017: ACS Combinatorial Science
https://www.readbyqxmd.com/read/28722347/foxo3-longevity-interactome-on-chromosome-6
#15
Timothy A Donlon, Brian J Morris, Randi Chen, Kamal H Masaki, Richard C Allsopp, D Craig Willcox, Ayako Elliott, Bradley J Willcox
FOXO3 has been implicated in longevity in multiple populations. By DNA sequencing in long-lived individuals, we identified all single nucleotide polymorphisms (SNPs) in FOXO3 and showed 41 were associated with longevity. Thirteen of these had predicted alterations in transcription factor binding sites. Those SNPs appeared to be in physical contact, via RNA polymerase II binding chromatin looping, with sites in the FOXO3 promoter, and likely function together as a cis-regulatory unit. The SNPs exhibited a high degree of LD in the Asian population, in which they define a specific longevity haplotype that is relatively common...
July 19, 2017: Aging Cell
https://www.readbyqxmd.com/read/28722297/assessing-guest-molecule-diffusion-in-heterogeneous-powder-samples-of-metal-organic-frameworks-through-pfg-nmr
#16
Roland Thoma, Jörg Kärger, Nader de Sousa Amadeu, Sandra Nießing, Christoph Janiak
Investigation of guest diffusion in porous metal-organic frameworks (MOFs) is of major importance since many porosity-related properties of MOFs are influenced by diffusion effects. The diffusion of dimethylsulfoxide (DMSO) in the metal-organic framework (MOF) MIL-53-NH2(Al) was investigated through pulsed-field-gradient (PFG) NMR spectroscopy. The microporous material was synthesized in small crystallites (under 500 nm), which agglomerated in a large range of particle sizes, giving a morphologically very heterogeneous sample...
July 19, 2017: Chemistry: a European Journal
https://www.readbyqxmd.com/read/28722054/structural-complexity-induced-by-topology-change-in-hybrids-consisting-of-hexa-peri-hexabenzocoronene-and-polyhedral-oligomeric-silsesquioxane
#17
Meng-Yao Zhang, Sheng Zhou, Hong-Bing Pan, Jing Ping, Wei Zhang, Xing-He Fan, Zhihao Shen
Organic-inorganic hybrids with hexa-peri-hexabenzocoronene (HBC) and polyhedral oligomeric silsesquioxane (POSS) were designed and synthesized. The increase of the POSS content (or a change in topology) results in more complex self-assembled structures. This work provides a new approach for the design and synthesis of materials with sub-10 nm sizes.
July 19, 2017: Chemical Communications: Chem Comm
https://www.readbyqxmd.com/read/28722039/correction-conceptual-design-of-tetraazaporphyrin-and-subtetraazaporphyrin-based-functional-nanocarbon-materials-electronic-structures-topologies-optical-properties-and-methane-storage-capacities
#18
Rodion V Belosludov, Hannah M Rhoda, Ravil K Zhdanov, Vladimir R Belosludov, Yoshiyuki Kawazoe, Victor N Nemykin
Correction for 'Conceptual design of tetraazaporphyrin- and subtetraazaporphyrin-based functional nanocarbon materials: electronic structures, topologies, optical properties, and methane storage capacities' by Rodion V. Belosludov et al., Phys. Chem. Chem. Phys., 2016, 18, 13503-13518.
July 19, 2017: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/28720873/bulk-vs-surface-structure-of-3d-metal-impurities-in-topological-insulator-bi2te3
#19
B Leedahl, D W Boukhvalov, E Z Kurmaev, A Kukharenko, I S Zhidkov, N V Gavrilov, S O Cholakh, P Huu Le, C Wei Luo, A Moewes
Topological insulators have become one of the most prominent research topics in materials science in recent years. Specifically, Bi2Te3 is one of the most promising for technological applications due to its conductive surface states and insulating bulk properties. Herein, we contrast the bulk and surface structural environments of dopant ions Cr, Mn, Fe, Co, Ni, and Cu in Bi2Te3 thin films in order to further elucidate this compound. Our measurements show the preferred oxidation state and surrounding crystal environment of each 3d-metal atomic species, and how they are incorporated into Bi2Te3...
July 18, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28720777/aging-and-rejuvenation-of-active-matter-under-topological-constraints
#20
Liesbeth M C Janssen, Andreas Kaiser, Hartmut Löwen
The coupling of active, self-motile particles to topological constraints can give rise to novel non-equilibrium dynamical patterns that lack any passive counterpart. Here we study the behavior of self-propelled rods confined to a compact spherical manifold by means of Brownian dynamics simulations. We establish the state diagram and find that short active rods at sufficiently high density exhibit a glass transition toward a disordered state characterized by persistent self-spinning motion. By periodically melting and revitrifying the spherical spinning glass, we observe clear signatures of time-dependent aging and rejuvenation physics...
July 18, 2017: Scientific Reports
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