bluuebunny/crossref_metadata_2025_split huggingface dataset:
Viscous Fingering in Multiport Hele Shaw Cell for Controlled Shaping of Fluids
Authors: Islam Tanveer ul , Gandhi Prasanna S. 
Published: November 2017

AbstractThe pursuit of mimicking complex multiscale systems has been a tireless effort with many successes but a daunting task ahead. A new perspective to engineer complex cross-linked meshes and branched/tree-like structures at different scales is presented here. Control over Saffman-Taylor instability which otherwise randomly rearranges viscous fluid in a ‘lifted Hele-Shaw cell’ is proposed for the same. The proposed control employs multiple-ports or source-holes in this cell, to spontaneously shape a stretched fluid film into a network of well defined webs/meshes and ordered multiscale tree-like patterns. Use of multiple ports enables exercising strong control to fabricate such structures, in a robust and repeated fashion, which otherwise are completely non-characteristic to viscous fingering process. The proposed technique is capable of fabricating spontaneously families of wide variety of structures over micro and very large scale in a period of few seconds. Thus the proposed method forms a solid foundation to new pathways for engineering multiscale structures for several scientific applications including efficient gas exchange, heat transport, tissue engineering, organ-on-chip, and so on. Proposal of multi-port Hele-Shaw cell also opens new avenues for investigation of complex multiple finger interactions resulting in interesting fluid patterns.
Improved Detection of Cytokines Produced by Invariant NKT Cells
Authors: Sag Duygu , Özkan Müge , Kronenberg Mitchell , Wingender Gerhard 
Published: November 2017

AbstractInvariant Natural killer T (iNKT) cells rapidly produce copious amounts of multiple cytokines after in vivo activation, allowing for the direct detection of a number of cytokines directly ex vivo. However, for some cytokines this approach is suboptimal. Here, we report technical variations that allow the improved detection of IL-4, IL-10, IL-13 and IL-17A ex vivo. Furthermore, we describe an alternative approach for stimulation of iNKT cells in vitro that allows a significantly improved detection of cytokines produced by iNKT cells. Together, these protocols allow the detection of iNKT cell cytokines ex vivo and in vitro with increased sensitivity.
Roller-Induced Bundling of Long Silver Nanowire Networks for Strong Interfacial Adhesion, Highly Flexible, Transparent Conductive Electrodes
Authors: Chen Yan-Ren , Hong Chien-Chong , Liou Tong-Miin , Hwang Kuo Chu , Guo Tzung-Fang 
Published: November 2017

AbstractSilver nanowires (AgNWs) have been the most promising electrode materials for fabrication of flexible transparent touch panel, displays and many other electronics because of their excellent electrical properties, cost effectiveness, synthesis scalability, and suitability for mass production. Although a few literature reports have described the use of short Ag NWs in fabrication of randomly oriented Ag NW network-based electrode, their electrical conductivities are still far lower than that of Ag films. So far, no any literature report was able to provide any simple solution to fabrication of large-area and mass-manufactural ability to address the issues, such as, conductivity, transparency, electrical current withstand, bending stability, and interfacial adhesion. In the current work, we provide a simple solution to conquer the above-mentioned challenges, and report the development of long Ag NW bundle network electrodes on large area PET films that were coated, aligned, and bundled quickly and simply using a steel roller. Our developed AgNWs-bundle networks had superior performance in optoelectronic properties (sheet resistance 5.8 Ω sq−1; optical transmittance 89% at 550 nm wavelength), electrical current withstand up to 500 mA, and bending stability over 5000 bending cycles, and strong interfacial adhesion.
HIDEEP: a systems approach to predict hormone impacts on drug efficacy based on effect paths
Authors: Kwon Mijin , Jung Jinmyung , Yu Hasun , Lee Doheon 
Published: November 2017

AbstractExperimental evidence has shown that some of the human endogenous hormones significantly affect drug efficacy. Since hormone status varies with individual physiological states, it is essential to understand the interplay of hormones and drugs for precision medicine. Here, we developed an in silico method to predict interactions between 283 human endogenous hormones and 590 drugs for 20 diseases including cancers and non-cancer diseases. We extracted hormone effect paths and drug effect paths from a large-scale molecular network that contains protein interactions, transcriptional regulations, and signaling interactions. If two kinds of effect paths for a hormone-drug pair intersect closely, we expect that the influence of the hormone on the drug efficacy is significant. It has been shown that the proposed method correctly distinguishes hormone-drug pairs with known interactions from random pairs in blind experiments. In addition, the method can suggest underlying interaction mechanisms at the molecular level so that it helps us to better understand the interplay of hormones and drugs.
Characterisation of porous knitted titanium for replacement of intervertebral disc nucleus pulposus
Authors: Tendulkar Gauri , Sreekumar Vrinda , Rupp Frank , Teotia Arun K. , Athanasopulu Kiriaki , Kemkemer Ralf , Buck Alfred , Buck Alfred , Kaps Hans-Peter , Geis-Gerstorfer Jürgen , Kumar Ashok , Nussler Andreas K. 
Published: November 2017

AbstractEffective restoration of human intervertebral disc degeneration is challenged by numerous limitations of the currently available spinal fusion and arthroplasty treatment strategies. Consequently, use of artificial biomaterial implant is gaining attention as a potential therapeutic strategy. Our study is aimed at investigating and characterizing a novel knitted titanium (Ti6Al4V) implant for the replacement of nucleus pulposus to treat early stages of chronic intervertebral disc degeneration. Specific knitted geometry of the scaffold with a porosity of 67.67 ± 0.824% was used to overcome tissue integration failures. Furthermore, to improve the wear resistance without impairing original mechanical strength, electro-polishing step was employed. Electro-polishing treatment changed a surface roughness from 15.22 ± 3.28 to 4.35 ± 0.87 µm without affecting its wettability which remained at 81.03 ± 8.5°. Subsequently, cellular responses of human mesenchymal stem cells (SCP1 cell line) and human primary chondrocytes were investigated which showed positive responses in terms of adherence and viability. Surface wettability was further enhanced to super hydrophilic nature by oxygen plasma treatment, which eventually caused substantial increase in the proliferation of SCP1 cells and primary chondrocytes. Our study implies that owing to scaffolds physicochemical and biocompatible properties, it could improve the clinical performance of nucleus pulposus replacement.
Protein crowding and lipid complexity influence the nanoscale dynamic organization of ion channels in cell membranes
Authors: Duncan Anna L. , Reddy Tyler , Koldsø Heidi , Hélie Jean , Fowler Philip W. , Chavent Matthieu , Sansom Mark S. P. 
Published: November 2017

AbstractCell membranes are crowded and complex environments. To investigate the effect of protein-lipid interactions on dynamic organization in mammalian cell membranes, we have performed coarse-grained molecular dynamics simulations containing >100 copies of an inwardly rectifying potassium (Kir) channel which forms specific interactions with the regulatory lipid phosphatidylinositol 4,5-bisphosphate (PIP2). The tendency of protein molecules to cluster has the effect of organizing the membrane into dynamic compartments. At the same time, the diversity of lipids present has a marked effect on the clustering behavior of ion channels. Sub-diffusion of proteins and lipids is observed. Protein crowding alters the sub-diffusive behavior of proteins and lipids such as PIP2 which interact tightly with Kir channels. Protein crowding also affects bilayer properties, such as membrane undulations and bending rigidity, in a PIP2-dependent manner. This interplay between the diffusion and the dynamic organization of Kir channels may have important implications for channel function.
Conserved RNA structures in the intergenic regions of ambisense viruses
Authors: Kiening Michael , Weber Friedemann , Frishman Dmitrij 
Published: November 2017

AbstractAmbisense viruses are negative-sense single-stranded RNA viruses that use a unique expression strategy. Their genome contains at least one ambisense RNA segment that carries two oppositely oriented reading frames separated by an intergenic region. It is believed that a structural RNA element within the intergenic region is involved in transcription termination. However, a general overview over the structural repertoire of ambisense intergenic regions is currently lacking. In this study we investigated the structural potential of the intergenic regions of all known ambisense viruses and compared their structural repertoire by structure-guided clustering. Intergenic regions of most ambisense viruses possess a high potential to build stable secondary structures and many viruses share common structural motifs in the intergenic regions of their ambisense segments. We demonstrate that (i) within the phylogenetic virus groups sets of conserved functional structures are present, but that (ii) between the groups conservation is low to non-existent. These results reflect a high degree of freedom to regulate ambisense transcription termination and also imply that the genetic strategy of having an ambisense RNA genome has evolved several times independently.
Coupling optogenetics and light-sheet microscopy, a method to study Wnt signaling during embryogenesis
Authors: Kaur Prameet , Saunders Timothy E. , Tolwinski Nicholas S. 
Published: November 2017

AbstractOptogenetics allows precise, fast and reversible intervention in biological processes. Light-sheet microscopy allows observation of the full course of Drosophila embryonic development from egg to larva. Bringing the two approaches together allows unparalleled precision into the temporal regulation of signaling pathways and cellular processes in vivo. To develop this method, we investigated the regulation of canonical Wnt signaling during anterior-posterior patterning of the Drosophila embryonic epidermis. Cryptochrome 2 (CRY2) from Arabidopsis Thaliana was fused to mCherry fluorescent protein and Drosophila β–catenin to form an easy to visualize optogenetic switch. Blue light illumination caused oligomerization of the fusion protein and inhibited downstream Wnt signaling in vitro and in vivo. Temporal inactivation of β–catenin confirmed that Wnt signaling is required not only for Drosophila pattern formation, but also for maintenance later in development. We anticipate that this method will be easily extendable to other developmental signaling pathways and many other experimental systems.
A Copper-Catalyzed Tandem Cyclization Reaction of Aminoalkynes with Alkynes for the Construction of Tetrahydropyrrolo[1,2-a]quinolines Scaffold
Authors: Ma Can-Liang , Zhao Jin-Hao , Yang Yong , Zhang Min-Kui , Shen Chao , Sheng Rong , Dong Xiao-Wu , Hu Yong-Zhou 
Published: November 2017

AbstractA synthetic method for diversely substituted tetrahydropyrrolo[1,2-a]quinolines was developed via CuCl-catalyzed cascade transformation of internal aminoalkynes with alkynes under microwave- irradiation.
Long-term climate change in the D-region
Authors: Clilverd Mark A. , Duthie Roger , Rodger Craig J. , Hardman Rachael L. , Yearby Keith H. 
Published: November 2017

AbstractControversy exists over the potential effects of long-term increases in greenhouse gas concentrations on the ionospheric D-region at 60–90 km altitudes. Techniques involving in-situ rocket measurements, remote optical observations, and radio wave reflection experiments have produced conflicting results. This study reports a novel technique that analyses long-distance subionospheric very low frequency radiowave observations of the NAA 24.0 kHz transmitter, Cutler, Maine, made from Halley Station, Antarctica, over the period 1971–2016. The analysis is insensitive to any changes in the output power of the transmitter, compensates for the use of different data logging equipment, and can confirm the accuracy of the timing systems operated over the 45 year long record. A ~10% reduction in the scale size of the transmitter nighttime interference fringe pattern has been determined, taking into account the quasi-11 year solar cycle. Subionospheric radiowave propagation modeling suggests that the contraction of the interference fringe pattern about the mid-latitude NAA transmitter is due to a 3 km reduction in the effective height of the nighttime ionospheric D-region over the last 45 years. This is consistent with the effect of enhanced infra-red cooling by increasing greenhouse gases.
Cardiovascular Disease Risk Assessment in the United States and Low- and Middle-Income Countries Using Predicted Heart/Vascular Age
Authors: Appiah Duke , Capistrant Benjamin D. 
Published: November 2017

AbstractAlmost 80% of the global burden of cardiovascular disease (CVD) occurs in low- and middle-income countries (LMICs). However, LMICs do not have well-established, low-technology ways to quantify and communicate CVD risk at population or individual levels. We examined predicted heart/vascular age (PHA) in six LMICs and the United States. Data were from CVD-free adults in World Health Organization Study on Global Aging and Adult Health (n = 29094) and US National Health and Nutritional Examination Survey (n = 6726). PHA was calculated using the non-laboratory Framingham CVD risk equation. High excess PHA (HEPHA) was defined as the differences between PHA and chronological age >5 years. Logistic regression models were used to identify factors associated with HEPHA. Age-standardized prevalence of HEPHA was higher in Russia 52%; China 56%; Mexico 59%; and South Africa 65% compared to the US 45%, Ghana 36%; and India 38%. In LMICs, higher income, being divorced/widowed, alcohol intake and abdominal obesity had higher odds of HEPHA; higher education, fruit intake and physical activity had lower odds of HEPHA. The use of PHA may offer a useful avenue to communicate CVD risk. Interventions tailored at socioeconomic and cultural factors that influence CVD risk factors may be necessary to prevent CVD in LMICs.
Multilocus DNA barcoding – Species Identification with Multilocus Data
Authors: Liu Junning , Jiang Jiamei , Song Shuli , Tornabene Luke , Chabarria Ryan , Naylor Gavin J. P. , Li Chenhong 
Published: November 2017

AbstractSpecies identification using DNA sequences, known as DNA barcoding has been widely used in many applied fields. Current barcoding methods are usually based on a single mitochondrial locus, such as cytochrome c oxidase subunit I (COI). This type of barcoding method does not always work when applied to species separated by short divergence times or that contain introgressed genes from closely related species. Herein we introduce a more effective multi-locus barcoding framework that is based on gene capture and “next-generation” sequencing. We selected 500 independent nuclear markers for ray-finned fishes and designed a three-step pipeline for multilocus DNA barcoding. We applied our method on two exemplar datasets each containing a pair of sister fish species: Siniperca chuatsi vs. Sini. kneri and Sicydium altum vs. Sicy. adelum, where the COI barcoding approach failed. Both of our empirical and simulated results demonstrated that under limited gene flow and enough separation time, we could correctly identify species using multilocus barcoding method. We anticipate that, as the cost of DNA sequencing continues to fall that our multilocus barcoding approach will eclipse existing single-locus DNA barcoding methods as a means to better understand the diversity of the living world.
Seasonality and brain size are negatively associated in frogs: evidence for the expensive brain framework
Authors: Luo Yi , Zhong Mao Jun , Huang Yan , Li Feng , Liao Wen Bo , Kotrschal Alexander 
Published: November 2017

AbstractThe challenges of seasonal environments are thought to contribute to brain evolution, but in which way is debated. According to the Cognitive Buffer Hypothesis (CBH) brain size should increase with seasonality, as the cognitive benefits of a larger brain should help overcoming periods of food scarcity via, for instance, increased behavioral flexibility. However, in line with the Expensive Brain Framework (EBF) brain size should decrease with seasonality because a smaller brain confers energetic benefits in periods of food scarcity. Empirical evidence is inconclusive and mostly limited to homoeothermic animals. Here we used phylogenetic comparative analyses to test the impact of seasonality on brain evolution across 30 species of anurans (frogs) experiencing a wide range of temperature and precipitation. Our results support the EBF because relative brain size and the size of the optic tectum were negatively correlated with variability in temperature. In contrast, we found no association between the variability in precipitation and the length of the dry season with either brain size or the sizes of other major brain regions. We suggest that seasonality-induced food scarcity resulting from higher variability in temperature constrains brain size evolution in anurans. Less seasonal environments may therefore facilitate the evolution of larger brains in poikilothermic animals.
Higher Platelet-to-Lymphocyte Ratio Increased the Risk of Sarcopenia in the Community-Dwelling Older Adults
Authors: Liaw Fang-Yih , Huang Ching-Fu , Chen Wei-Liang , Wu Li-Wei , Peng Tao-Chun , Chang Yaw-Wen , Kao Tung-Wei 
Published: November 2017

AbstractThe platelet-to-lymphocyte ratio (PLR) has been extensively studied in oncologic diseases. However, the correlation between PLR and sarcopenia remains unknown. In this cross-sectional analysis, we enrolled 3,671 non-institutionalized individuals from the National Health and Nutrition Examination Survey (NHANES) III (1988–1994) aged ≥60 years and whose complete blood counts (CBCs), body composition measurements, and related demographic information was available. Skeletal muscle mass was assessed using a previously published equation (including age, sex, height, and bioelectrical impedance analysis). PLR values were estimated based on laboratory data. Multiple linear and logistic regression analyses, quartile-based stratified odds ratio comparisons, and trend tests were performed. Elevations in serum PLR values were significantly associated with sarcopenia status and negatively associated with skeletal muscle index. After additionally adjusting for other covariates, the significant negative correlation remained; moreover, participants with highest serum PLR values (≥155) had 2.36 times greater risk of sarcopenia than those with lowest PLR values (<90; odds ratio (OR) = 2.36; 95% confidence interval (CI): 1.21–3.31; p < 0.01). Higher PLR levels are associated with a greater risk of sarcopenia in geriatric populations. Thus, PLR as an inexpensive and easily measurable parameter can be considered as an inflammatory biomarker for sarcopenia.
The mitochondrial genome of the wolfberry fruit fly, Neoceratitis asiatica (Becker) (Diptera: Tephritidae) and the phylogeny of Neoceratitis Hendel genus
Authors: Su Yun , Zhang Yue , Feng Shiqian , He Jia , Zhao Zihua , Bai Zhenzhen , Liu Lijun , Zhang Rong , Li Zhihong 
Published: November 2017

AbstractNeoceratitis asiatica (Becker) (Diptera: Tephritidae) is one of the most important fruit pestsof wolfberry which is a traditional Chinese medicinal herb. We characterized the complete mitochondrial genome of N. asiatica and described its organization in this study. This mitogenome had a total length of 15,481 bp, consisting of 13 protein-coding genes, 2 rRNA genes, 22 tRNA genes and a non-coding region (A + T-rich control region). The overall base composition of N. asiatica in descending order was 40.6% A, 8.5% G, 38.4% T and 12.6% C. The phylogenetic relationships shows that Ceratitis capitata and N. asiatica may be sister taxa. This is the first report of the complete mitochondrial genome of a member of the Neoceratitis Genus and the complete mitochondrial genome sequence may provide useful information for phylogenetic analysis and studies between the genera Ceratitis and Neoceratitis.
CRISPR/Cas9-mediated genome editing in naïve human embryonic stem cells
Authors: Jacobs Eva Z. , Warrier Sharat , Volders Pieter-Jan , D’haene Eva , Van Lombergen Eva , Vantomme Lies , Van der Jeught Margot , Heindryckx Björn , Menten Björn , Vergult Sarah 
Published: November 2017

AbstractThe combination of genome-edited human embryonic stem cells (hESCs) and subsequent neural differentiation is a powerful tool to study neurodevelopmental disorders. Since the naïve state of pluripotency has favourable characteristics for efficient genome-editing, we optimized a workflow for the CRISPR/Cas9 system in these naïve stem cells. Editing efficiencies of respectively 1.3–8.4% and 3.8–19% were generated with the Cas9 nuclease and the D10A Cas9 nickase mutant. Next to this, wildtype and genome-edited naïve hESCs were successfully differentiated to neural progenitor cells. As a proof-of-principle of our workflow, two monoclonal genome-edited naïve hESCs colonies were obtained for TUNA, a long non-coding RNA involved in pluripotency and neural differentiation. In these genome-edited hESCs, an effect was seen on expression of TUNA, although not on neural differentiation potential. In conclusion, we optimized a genome-editing workflow in naïve hESCs that can be used to study candidate genes involved in neural differentiation and/or functioning.
Predictors of Atrial Fibrillation Recurrence after Catheter Ablation: Data from the German Ablation Registry
Authors: Sultan A. , Lüker J. , Andresen D. , Kuck K. H. , Hoffmann E. , Brachmann J. , Hochadel M. , Willems S. , Eckardt L. , Lewalter T. , Senges J. , Steven D. 
Published: November 2017

AbstractCatheter ablation (CA) for atrial fibrillation (AF) has emerged as a widespread first or second line treatment option. However, up to 45% of patients (pts) show recurrence of AF within 12 month after CA. We present prospective multicenter registry data comparing characteristics of pts with and without recurrence of AF within the first year after CA. This study comprises all pts with complete follow-up one year after CA (1-y-FU; n = 3679). During 1y-FU in 1687 (45.9%) pts recurrence of AF occurred. The multivariate analysis revealed female sex and AF type prior to the procedure as predictors for AF recurrence. Furthermore, comorbidities such as valvular heart disease and renal failure as well as an early AF relapse were also predictors of AF recurrence during 1-y-FU. However, despite an AF recurrence rate of 45.9%, the majority of these pts (72.4%) reported a significant alleviation of clinical symptoms. In conclusion in pts with initially successful CA for AF female sex, AF type, in-hospital AF relapse and comorbidities such as renal failure and valvular heart disease are independent predictors for AF recurrence during 1-y-FU. However, the majority of pts deemed their interventions as successful with significant reduction of symptoms irrespective of AF.