bluuebunny/crossref_metadata_2025_split huggingface dataset:
Corneal complications after orbital radiotherapy for primary epithelial malignancies of the lacrimal gland
Authors: Gore Sri K , Plowman Nicholas P , Dharmasena Aruna , Verity David H , Rose Geoffrey E 
Published: October 2017

PurposeTo review the long-term corneal complications after high-dose external beam orbital radiotherapy given to patients for lacrimal gland carcinomas. The impact of prophylactic measures to improve long-term ocular surface health is also assessed.DesignRetrospective case series.ParticipantsPatients under the care of Moorfields Eye Hospital and receiving external beam radiotherapy for primary epithelial lacrimal gland carcinoma between 1975 and 2014.MethodsRetrospective review of ophthalmic case notes at Moorfields Eye Hospital, and oncology and general physician records.Main outcome measuresThe occurrence of corneal perforation, and time to perforation.ResultsSixty-seven patients were included in this study, of whom nine (13%) developed corneal perforation at a median time of 10.4 months after radiotherapy (mean 35; range 3.2 months to 14.5 years); the majority (7/9; 78%) perforated within 36 months of radiotherapy. The mean follow-up interval of the whole cohort was 8.2 years (median 4.6; range, 2 months to 30.7 years).ConclusionsAlthough most patients with globe-sparing treatment of lacrimal gland carcinoma did not suffer corneal perforation, they usually require long-term therapy to maintain the ocular surface. The high-dose external beam radiotherapy needed for lacrimal gland carcinoma can produce significant ocular surface morbidity, and the 13% incidence of corneal perforation was greatest in the first 3 years after irradiation.
In vivo magnetofection: a novel approach for targeted topical delivery of nucleic acids for rectoanal motility disorders
Authors: Singh Jagmohan , Mohanty Ipsita , Rattan Satish 
Published: October 2017

In these studies, we developed a novel approach of in vivo magnetofection for localized delivery of nucleic acids such as micro-RNA-139-5p (miR-139-5p; which is known to target Rho kinase2) to the circular smooth muscle layer of the internal anal sphincter (IAS). The IAS tone is known to play a major role in the rectoanal continence via activation of RhoA-associated kinase (RhoA/ROCK2). These studies established an optimized protocol for efficient gene delivery using an assembly of equal volumes of in vivo PolyMag and miR139-5p or anti-miR-139-5p (100 nM each) injected in the circular smooth muscle layer in the pinpointed areas of the rat perianal region and then incubated for 20 min under magnetic field. Magnetofection efficiency was confirmed and analyzed by confocal microscopy of FITC-tagged siRNA. Using physiological and biochemical approaches, we investigated the effects of miR-139-5p and anti-miR-139-5p on basal intraluminal IAS pressure (IASP), fecal pellet count, IAS tone, agonist-induced contraction, contraction-relaxation kinetics, and RhoA/ROCK2 signaling. Present studies demonstrate that magnetofection-mediated miR-139-5p delivery significantly decreased RhoA/ROCK2, p-MYPT1, and p-MLC20 signaling, leading to decreases in the basal IASP and IAS tone and in rates of contraction and relaxation associated with increase in fecal pellet output. Interestingly, anti-miR-139-5p transfection had opposite effects on these parameters. Collectively, these data demonstrate that magnetofection is a promising novel method of in vivo gene delivery and of nucleotides to the internal anal sphincter for the site-directed and targeted therapy for rectoanal motility disorders. NEW & NOTEWORTHY These studies for the first time demonstrate the success of topical in vivo magnetofection (MF) of nucleic acids using perianal injections. To demonstrate its effectiveness, we used FITC-tagged siRNA via immunofluorescence microcopy and functional and biochemical evidence using miR-139-5p (which is known to target ROCK2). In conclusion, MF allows safe, convenient, efficient, and targeted delivery of oligonucleotides such as siRNAs and microRNAs. These studies have direct therapeutic implications in rectoanal motility disorders especially associated with IAS.
Gravity outweighs the contribution of structure to passive ventilation-perfusion matching in the supine adult human lung
Authors: Kang W. , Clark A. R. , Tawhai M. H. 
Published: October 2017

Gravity and matched airway/vascular tree geometries are both hypothesized to be key contributors to ventilation-perfusion (V̇/Q̇) matching in the lung, but their relative contributions are challenging to quantify experimentally. We used a structure-based model to conduct an analysis of the relative contributions of tissue deformation (the “Slinky” effect), other gravitational mechanisms (weight of blood and gravitational gradient in tissue elastic recoil), and matched airway and arterial tree geometry to V̇/Q̇ matching and therefore to total lung oxygen exchange. Our results showed that the heterogeneity in V̇ and Q̇ were lowest and the correlation between V̇ and Q̇ was highest when the only mechanism for V̇/Q̇ matching was either tissue deformation or matched geometry. Heterogeneity in V̇ and Q̇ was highest and their correlation was poorest when all mechanisms were active (that is, at baseline). Eliminating the contribution of matched geometry did not change the correlation between V̇ and Q̇ at baseline. Despite the much larger heterogeneities in V̇ and Q̇ at baseline, the contribution of in-common (to V̇ and Q̇) gravitational mechanisms provided sufficient compensatory V̇/Q̇ matching to minimize the impact on oxygen transfer. In summary, this model predicts that during supine normal breathing under gravitational loading, passive V̇/Q̇ matching is predominantly determined by shared gravitationally induced tissue deformation, compliance distribution, and the effect of the hydrostatic pressure gradient on vessel and capillary size and blood pressures. Contribution from the matching airway and arterial tree geometries in this model is minor under normal gravity in the supine adult human lung. NEW & NOTEWORTHY We use a computational model to systematically analyze contributors to ventilation-perfusion matching in the lung. The model predicts that the multiple effects of gravity are the predominant mechanism in providing passive ventilation-perfusion matching in the supine adult human lung under normal gravitational loads, while geometric matching of airway and arterial trees plays a minor role.
Mining the Stiffness-Sensitive Transcriptome in Human Vascular Smooth Muscle Cells Identifies Long Noncoding RNA Stiffness Regulators
Authors: Yu Christopher K. , Xu Tina , Assoian Richard K. , Rader Daniel J. 
Published: October 2017

Objective—
Vascular extracellular matrix stiffening is a risk factor for aortic and coronary artery disease. How matrix stiffening regulates the transcriptome profile of human aortic and coronary vascular smooth muscle cells (VSMCs) is not well understood. Furthermore, the role of long noncoding RNAs (lncRNAs) in the cellular response to stiffening has never been explored. This study characterizes the stiffness-sensitive (SS) transcriptome of human aortic and coronary VSMCs and identifies potential key lncRNA regulators of stiffness-dependent VSMC functions.

Approach and Results—
Aortic and coronary VSMCs were cultured on hydrogel substrates mimicking physiological and pathological extracellular matrix stiffness. Total RNAseq was performed to compare the SS transcriptome profiles of aortic and coronary VSMCs. We identified 3098 genes (2842 protein coding and 157 lncRNA) that were stiffness sensitive in both aortic and coronary VSMCs (false discovery rate <1%). Hierarchical clustering revealed that aortic and coronary VSMCs grouped by stiffness rather than cell origin. Conservation analyses also revealed that SS genes were more conserved than stiffness-insensitive genes. These VSMC SS genes were less tissue-type specific and expressed in more tissues than stiffness-insensitive genes. Using unbiased systems analyses, we identified MALAT1 as an SS lncRNA that regulates stiffness-dependent VSMC proliferation and migration in vitro and in vivo.

Conclusions—
This study provides the transcriptomic landscape of human aortic and coronary VSMCs in response to extracellular matrix stiffness and identifies novel SS human lncRNAs. Our data suggest that the SS transcriptome is evolutionarily important to VSMCs function and that SS lncRNAs can act as regulators of stiffness-dependent phenotypes.
Spatiotemporal Changes in Active Layer Thickness under Contemporary and Projected Climate in the Northern Hemisphere
Authors: Peng Xiaoqing , Zhang Tingjun , Frauenfeld Oliver W. , Wang Kang , Luo Dongliang , Cao Bin , Su Hang , Jin Huijun , Wu Qingbai 
Published: October 2017

Abstract
Variability of active layer thickness (ALT) in permafrost regions is critical for assessments of climate change, water resources, and engineering applications. Detailed knowledge of ALT variations is also important for studies on ecosystem, hydrological, and geomorphological processes in cold regions. The primary objective of this study is therefore to provide a comprehensive 1971–2000 climatology of ALT and its changes across the entire Northern Hemisphere from 1850 through 2100. To accomplish this, in situ observations, the Stefan solution based on a thawing index, and the edaphic factor (E factor) are employed to calculate ALT. The thawing index is derived from (i) the multimodel ensemble mean of 16 models from phase 5 of the Coupled Model Intercomparison Project (CMIP5) over 1850–2005, (ii) three representative concentration pathways (RCP2.6, RCP4.5, and RCP8.5) for 2006–2100, and (iii) Climatic Research Unit (CRU) gridded observations for 1901–2014. The results show significant spatial variability in in situ ALT that generally ranges from 40 to 320 cm, with some extreme values of 900 cm in the Alps. The differences in the ALT climatology between the three RCPs and the historical experiments ranged from 0 to 200 cm. The biggest increases, of 120–200 cm, are on the Qinghai–Tibetan Plateau, while the smallest increases of less than 20 cm are in Alaska. Averaged over all permafrost regions, mean ALT from CMIP5 increased significantly at 0.57 ± 0.04 cm decade−1 during 1850–2005, while 2006–2100 projections show ALT increases of 0.77 ± 0.08 cm decade−1 for RCP2.6, 2.56 ± 0.07 cm decade−1 for RCP4.5, and 6.51 ± 0.07 cm decade−1 for RCP8.5.
Trends in Extreme Rainfall Frequency in the Contiguous United States: Attribution to Climate Change and Climate Variability Modes
Authors: Armal Saman , Devineni Naresh , Khanbilvardi Reza 
Published: October 2017

AbstractThis study presents a systematic analysis for identifying and attributing trends in the annual frequency of extreme rainfall events across the contiguous United States to climate change and climate variability modes. A Bayesian multilevel model is developed for 1244 rainfall stations simultaneously to test the null hypothesis of no trend and verify two alternate hypotheses: trend can be attributed to changes in global surface temperature anomalies or to a combination of well-known cyclical climate modes with varying quasiperiodicities and global surface temperature anomalies. The Bayesian multilevel model provides the opportunity to pool information across stations and reduce the parameter estimation uncertainty, hence identifying the trends better. The choice of the best alternate hypothesis is made based on the Watanabe–Akaike information criterion, a Bayesian pointwise predictive accuracy measure. Statistically significant time trends are observed in 742 of the 1244 stations. Trends in 409 of these stations can be attributed to changes in global surface temperature anomalies. These stations are predominantly found in the U.S. Southeast and Northeast climate regions. The trends in 274 of these stations can be attributed to El Niño–Southern Oscillation, the North Atlantic Oscillation, the Pacific decadal oscillation, and the Atlantic multidecadal oscillation along with changes in global surface temperature anomalies. These stations are mainly found in the U.S. Northwest, West, and Southwest climate regions.
Geological features and geochemical characteristics of Late Devonian–Early Carboniferous K-bentonites from northwestern Turkey
Authors: Göncüoğlu M.C. , Günal-Türkmenoğlu A. , Bozkaya Ö. , Ünlüce-Yücel Ö. , Okuyucu C. , Yilmaz İ.Ö. 
Published: October 2017

AbstractNewly discovered K-bentonite beds, interstratified with limestones/dolomitic limestones of the Upper Devonian–Lower Carboniferous Yılanlı Formation, are exposed in the northwestern Black Sea region of Turkey, around Zonguldak and Bartın. K-bentonite samples collected from four different locations: the Gavurpınarı and Yılanlı Burnu quarries from the Bartın area, the Çimşir Çukurları quarry from the Şapça area, and the Güdüllü and Gökgöl highway tunnel section near Zonguldak city were investigated using optical microscopy, X-ray diffraction and inductively coupled plasma mass spectrometry in order to reveal their mineralogical and geochemical characteristics and understand their origin and evolution. The K-bentonites occur at different levels in the Yılanlı Formation as 2–40 cm-thick, greenish to yellowish beds cropping out several hundred metres along strike. Preliminary biostratigraphic data suggest that the protoliths of the Bartın (Gavurpınarı and Yılanlı Burnu) and Güdüllü K-bentonites were deposited at around the boundary between the Frasnian and Famennian, whereas those in the Şapça and Gökgöl sections are slightly younger (Devonian–Carboniferous boundary interval). The lithofacies types of the host carbonate rocks suggest an ‘epeiric’ shallow carbonate platform environment. Illite and mixed-layer illite-smectite were the major clay minerals in the K-bentonites. The K-bentonites from the Bartın area display a high degree of illitization and consist mainly of illite indicating high-grade diagenesis, whereas illite-smectite-rich samples from the Şapca and Gökgöl tunnel locations reflect relatively lower diagenetic conditions. According to their geochemical compositions, two groups of K-bentonites were distinguished, one with alkali basalt (Bartın area and Güdüllü locations) and one with trachyte affinities (Gökgöl tunnel and Şapça locations). Geochemical fingerprinting of K-bentonites by trace and rare earth element (REE) data suggest that tephras with alkali basalt composition have been derived by a source formed in a ‘continental back-arc’ setting, whereas the source of K-bentonites with trachytic precursors is related to ‘continental within-plate rifting’. An evaluation of the global Late Devonian and Devonian–Carboniferous volcanism suggests that the bentonite precursors may be related to late-Variscan magmatism in Laurussia.
Experimental pressure and sealing plug as part of the European DOPAS project – deep geological repository plug demonstration
Authors: Hanusová Irena , Svoboda Jiří , Večerník Petr 
Published: October 2017

AbstractThe objective of the DOPAS international project is to design a sealing-plug system for deep geological repository (DGR) use, to provide detailed plans for the design of such plugs, to test the characteristics of the materials to be used and the construction technology and to install four experimental in situ plugs. The Czech experimental pressure and sealing-plug (EPSP) experiment is being conducted in a rock environment consisting of granitoids at the Josef Regional Underground Research Centre. The concept of the experiment is based primarily on the use of materials and technology available in the Czech Republic and the principal aim is to demonstrate the technical viability and functioning of a pressure-resistant plug located in a future DGR. The completion of the EPSP experiment will contribute towards both the demonstration of how sealing-plug systems behave under real underground conditions and the long-term safety of a future DGR in the Czech Republic.
High-angle annular dark field scanning transmission electron microscopic (HAADF-STEM) study of Fe-rich 7 Å–14 Å interstratified minerals from a hydrothermal deposit
Authors: Inoué Sayako , Kogure Toshihiro 
Published: October 2017

AbstractThe distribution of octahedral cations in the two component layers of a 7 Å–14 Å interstratified mineral with a bulk chemical composition (Fe4.122+Mg0.07Mn0.01Al1.69□0.11)(Si2.56Al1.44) O10(OH)8was investigated using high-angle annular dark field scanning transmission electron microscopy (HAADF-STEM) in combination with the image simulations. In the 14 Å component layers, comparison between the observed and simulated images revealed that the M4 sites of the interlayer sheets were occupied preferentially by Al together with a small amount of Fe; the other M1, M2 and M3 sites were occupied by dominant Fe and residual Al in equal proportions. Two types of octahedral sheets with disordered and ordered cation distributions were recognized in the 7 Å component layers. The two types of sheets were similar to the octahedral sheet of the 2:1 layer and the interlayer sheet in the 14 Å layer above, respectively. Irregular vertical stacking and lateral contact of the different component layers in structure and chemistry characterized the interstratification, which may be caused by rapid precipitation and accretion of the component layers in hydrothermal environments.
Deciphering temperature, pressure and oxygen-activity conditions of chlorite formation
Authors: Vidal Olivier , Lanari Pierre , Munoz Manuel , Bourdelle Franck , De Andrade Vincent 
Published: October 2017

AbstractThe advantages and limits of empirical, semi-empirical and thermodynamic methods devoted to the estimation of chlorite-formation temperature are discussed briefly. The results of semiempirical and thermodynamic approaches with different assumptions regarding the redox state of iron in chlorite are compared for a large set of natural data covering a range of pressure conditions from a few hundred bars to 18 kbar and temperature from 100 to 500°C. The T-XFe3+ evolution estimated using the thermodynamic approach of Vidal et al. (2005) shows a systematic increase in XFe3+ with decreasing temperature, which is compatible with the decrease in aO2 buffered by magnetite- or hematite-chlorite equilibrium. This trend as well as the observed increase in vacancies in chlorite with decreasing temperature is interpreted as the incorporation of Fe3+-sudoite. The standard-state properties of this endmember have been derived to reproduce the observed T-aO2-XFe3+ evolutions. It can be used to estimate T-aO2-XFe3 values with a Chl-Qtz-H2O multi-equilibrium approach. When combining our results with those of other studies published recently, it appears that thermodynamic approaches and mapping techniques developed for metamorphic rocks can be used to discuss the conditions of formation of very low-grade rocks where kinetics is much more sluggish than in metamorphic rocks. This requires use of appropriate analytical tools and techniques with a spatial resolution of a few hundred nanometres.
Comments on the characterization of untreated and ground kaolin from Ranong, Thailand
Authors: Goodman Bernard A. , Worasith Niramon 
Published: October 2017

AbstractAung et al. (2014, 2015) described the activation of kaolin samples to remove coloured pigments from rice-bran oil, the effects of various treatments on their decolourization capacity, and the characterization of these kaolin samples by physical methods. This research used a kaolin sample from Ranong in southern Thailand, and investigated the effects of grinding and heat treatment prior to acid activation of the mineral. The various activated mineral phases were then characterized by a combination of X-ray diffraction, Fourier-Transform infrared spectroscopy and X-ray fluorescence. This work represented an extension of research reported previously by Worasith et al. (2011a), in which various samples of the same Ranong kaolin were characterized after grinding and acid activation, and their capacities to decolourize rice-bran oil evaluated (Worasith et al., 2011b). However, despite the similarities in the experiments, there are some important differences in the results presented in these two sets of publications, which raise questions concerning the conduct of this type of research and the generality of any conclusions derived.
Estimation of modified fluid factor and dry fracture weaknesses using azimuthal elastic impedance
Authors: Chen Huaizhen , Ji Yuxin , Innanen Kristopher A. 
Published: October 2017

We consider the problem of fluid identification and fracture detection in unconventional reservoir (tight gas sand and shale gas) characterization. We begin with a simplification of the stiffness parameters and the derivation of a linearized reflection coefficient and azimuthal elastic impedance (EI). The accuracy of the simplification is confirmed in application to gas-bearing fractured rocks with low porosity and small fracture density. We have developed a modified fluid factor that is more sensitive to fluid type and less influenced by porosity. A two-step inversion workflow is evaluated based on the derived linearized reflection coefficient and azimuthal EI, including (1) a damped least-squares inversion for azimuthal EI, constrained by an initial model, and (2) a Bayesian Markov chain Monte Carlo inversion for the modified fluid factor and dry fracture weaknesses. Stability and accuracy are examined with synthetic data, from which we conclude that the modified fluid factor and dry fracture weaknesses can be stably determined in the presence of moderate data error/noise. The stability of our approach is further confirmed on a fractured tight gas sand field data set, within which we observe that geologically reasonable parameters (Lamé constants, the modified fluid factor, and dry fracture weaknesses) are determined. We conclude that our inversion workflow and its underlying assumptions form realistic predictions/discriminations of reservoir fracture and fluid parameters.
Bone permittivity and its effect on using ground-penetrating radar
Authors: Schneider Blair B. , Tsoflias Georgios , Steeples Don W. , Mandel Rolfe , Hofman Jack 
Published: October 2017

Ground-penetrating radar (GPR) is a powerful tool that is still being developed for archaeological investigations. We investigated the dielectric properties of mammoth bone and bone from modern bison, cow, deer, and elk as a proxy for applying GPR for detecting prehistoric animal remains. Sample dielectric properties (relative permittivity, loss factor, and loss-tangent values) were measured with an impedance analyzer over frequencies ranging from 10 MHz to 1 GHz. Bone-sample porosity, bulk density, water saturation, and volumetric water content of the specimens were also measured. The measured sample-relative permittivity values were then compared with modeled relative permittivity values using common dielectric-mixing models to determine which parameters control the best-fit predictions of relative permittivity of animal bone. We observe statistically significant dielectric-property differences among different animal fauna, as well as variation as a function of frequency. In addition, we determine that the relative permittivity values of 8–9 for similar minerals, such as apatite, are not suitable as a proxy for predicting animal bone properties. We estimate new relative permittivity values of 3–5 for dry animal bone minerals in the frequency range of 100–1000 MHz using these common dielectric-mixing models. We postulate that differences in bone microstructure contribute to dielectric-property variability.