bluuebunny/crossref_metadata_2025_split huggingface dataset:
DCUDP: scalable data transfer for high‐speed long‐distance networks
Authors: Zhang Xu , Gu Naijie , Su Junjie 
Published: May 2016

SummaryThe emergence of high‐speed long‐distance networks has promoted the development of various new types of applications that are required to transfer bulk data efficiently. Because of the conservative additive increase and multiplicative decrease strategy, traditional TCP has a severe problem in utilizing bandwidth, which provides an opening for new classes of UDP‐based protocols. This paper proposes a high‐speed bulk data transfer protocol, Double Cubic UDP (henceforth DCUDP), which is built on top of UDP with rate control and reliability control. DCUDP improves the scalability of the protocol over high bandwidth‐delay product networks through cubic‐shaped rate control functions and employs a randomized algorithm to alleviate the impacts of continuous loss and loss synchronization. In addition, DCUDP introduces a novel high‐precision user‐space timer system to facilitate the data transfer. The experimental results demonstrate that DCUDP performs well in terms of bandwidth utilization, CPU utilization, intra‐protocol fairness and round‐trip time fairness, and exhibits favorable friendliness to standard TCP and high‐speed TCP variants. Copyright © 2016 John Wiley & Sons, Ltd.
QoS‐aware indiscriminate volume storage cloud
Authors: Yang Bowei , Song Guanghua , Chen Yining , Zheng Yao , Wu Yue 
Published: May 2016

SummaryStorage quality‐of‐service (QoS) is a key issue for a storage cloud infrastructure. This paper presents QoSC, a QoS‐aware indiscriminate volume Storage Cloud over the dynamic network, based on the Hadoop distributed file system. QoSC employs a data redundancy policy based on indiscriminate recovery volumes and a QoS‐aware data placement strategy. We consider the QoS of a storage node as a combination of the transfer bandwidth, the availability of service, the workload (CPU utilization), the free storage space, and the failure rate of DataNodes. We have deployed QoSC on the campus network of Zhejiang University and have conducted a group of experiments and simulations on file storage and retrieval. The results show that QoSC improves the performance of file storage and retrieval and balances the workload among DataNodes, by being aware of QoS of DataNodes. Copyright © 2016 John Wiley & Sons, Ltd.
A review of extensive variation in the design of pitfall traps and a proposal for a standard pitfall trap design for monitoring ground‐active arthropod biodiversity
Authors: Brown Grant R. , Matthews Iain M. 
Published: May 2016

AbstractTo understand change in global biodiversity patterns requires large‐scale, long‐term monitoring. The ability to draw meaningful comparison across studies is severely hampered by extensive variation in the design of the sampling equipment and how it is used. Here, we present a meta‐analysis and description highlighting this variation in a common, widely used entomological survey technique. We report a decline in the completeness of methodological reporting over a 20‐year period, while there has been no clear reduction in the methodological variation between researchers using pitfall traps for arthropod sampling. There is a growing need for improved comparability between studies to facilitate the generation of large‐scale, long‐term biodiversity datasets. However, our results show that, counterproductive to this goal, over the last 20 years there has little progress in reducing the methodological variation. We propose a standardized pitfall trap design for the study of ground‐active arthropods. In addition, we provide a table to promote a more standardized reporting of the key methodological variables. Widespread adoption of more standardized methods and reporting would facilitate more nuanced analysis of biodiversity change.
High recurrence of device‐related adverse events following transvenous lead extraction procedure in patients with cardiac resynchronization devices
Authors: Regoli François , Bongiorni Maria Grazia , Rordorf Roberto , Santamaria Matteo , Klersy Caterine , Segreti Luca , De Regibus Valentina , Moccetti Tiziano , Conte Giulio , Caputo Maria Luce , Auricchio Angelo 
Published: May 2016

AbstractIntroductionLittle is known about the clinical outcome and recurring system‐related adverse events (SAE) in cardiac resynchronization therapy (CRT) patients after transvenous lead extraction (TLE).Methods and resultsFrom January 2009 to June 2014, 256 consecutive CRT patients (mean age 68.3 ± 11.6 years, 216 male, 88% in New York Heart Association class II–IV, ejection fraction 35.1 ± 10.8%) were treated at four European institutions with TLE. Indications for TLE included systemic (18%) or local (45%) infection, system malfunction (34%), or other (3%). Demographic, clinical, TLE procedural, and follow‐up data were collected retrospectively. Adverse events (AE) were considered as death from any cause, cardiovascular hospitalization, and SAE (SAE included pocket and/or systemic infection, lead malfunction, or pocket haematoma requiring revision). Complete removal was achieved for 609 out of 614 leads (99.2%) by using either manual traction (28%), mechanical (52%) or laser (20%) sheaths. Over a median follow‐up of 21 (interquartile range 12–29) months, cumulative incidences of any AE and SAE were 53.9% and 21.1%, respectively. Recurring system malfunction occurred in 23 patients (9.0%), infection in 16 patients (6.2%), and pocket haematoma requiring revision in 15 patients (5.9%). Oral anticoagulation therapy was an independent predictor of both any AE [hazard ratio (HR) 2.09, 95% confidence interval (CI) 1.35–3.22, P = 0.001] and SAE (HR 2.38, 95% CI 1.21–4.68, P = 0.012) after TLE.ConclusionsEven though TLE is safe and effective to treat CRT patients, a high burden of recurring SAE after TLE was observed at mid‐term follow‐up. Careful evaluation of both patient characteristics as well as implantation strategy is suggested when indicating TLE in a CRT patient, particularly in patients receiving oral anticoagulation therapy.
Cavitas Sensors: Contact Lens Type Sensors & Mouthguard Sensors
Authors: Mitsubayashi Kohji , Arakawa Takahiro 
Published: May 2016

Abstract“Cavitas sensors” attached to body cavities such as the contact lens and mouthguard (“no implantable”, “no wearable”) are attracted attention as self‐detachable devices for daily medicine. Many types of contact lens (CL) sensors using electrical and optical methods have been developed for monitoring not only chemicals (glucose, lactate) and electrical conductivity in tear fluid, but also transcutaneous gases at eyelid mucosa. A CL intraocular pressure telemetric sensor has been also commercialized and applied to patients for monitoring the intraocular pressure. Some mouthguard sensors have been investigated for a real‐time measurement of salivary chemicals. A graphene based sensor on tooth enamel was reported to be capable of salivary bacterium detection. Here we review the challenges regarding the integration of biosensors into monitoring for biological information of body cavities. The self‐detachable cavitas sensors are expected to improve the quality of life in the near future.
Mercury and methylmercury biogeochemistry in a thawing permafrost wetland complex, Northwest Territories, Canada
Authors: Gordon J. , Quinton W. , Branfireun B. A. , Olefeldt D. 
Published: May 2016

AbstractIn arctic and sub‐arctic environments, mercury (Hg), more specifically toxic methylmercury (MeHg), is of growing concern to local communities because of its accumulation in fish. In these regions, there is particular interest in the potential mobilization of atmospherically deposited Hg sequestered in permafrost that is thawing at unprecedented rates. Permafrost thaw and the resulting ground surface subsidence transforms forested peat plateaus into treeless and permafrost‐free thermokarst wetlands where inorganic Hg released from the thawed permafrost and draining from the surrounding peat plateaus may be transformed to MeHg. This study begins to characterize the spatial distribution of MeHg in a peat plateau–thermokarst wetland complex, a feature that prevails throughout the wetland‐dominated southern margin of thawing discontinuous permafrost in Canada's Northwest Territories. We measured pore water total Hg, MeHg, dissolved organic matter characteristics and general water chemistry parameters to evaluate the role of permafrost thaw on the pattern of water chemistry. A gradient in vegetation composition, water chemistry and dissolved organic matter characteristics followed a toposequence from the ombrotrophic bogs near the crest of the complex to poor fens at its downslope margins. We found that pore waters in poor fens contained elevated levels of MeHg, and the water draining from these features had dissolved MeHg concentrations 4.5 to 14.5 times higher than the water draining from the bogs. It was determined through analysis of historical aerial images that the poor fens in the toposequence had formed relatively recently (early 1970s) as a result of permafrost thaw. Differences between the fens and bogs are likely to be a result of their differences in groundwater function, and this suggests that permafrost thaw in this landscape can result in hotspots for Hg methylation that are hydrologically connected to downstream ecosystems. Copyright © 2016 John Wiley & Sons, Ltd.
Resazurin Microtiter Assay for Clarithromycin Susceptibility Testing of Clinical Isolates of Mycobacterium abscessus Group
Authors: Garcia de Carvalho Natalia Fernandes , Sato Daisy Nakamura , Pavan Fernando R. , Ferrazoli Lucilaine , Chimara Erica 
Published: May 2016

BackgroundMycobacterium abscessus group has heterogeneous susceptibility pattern among species. The species is most common cause of nosocomial infections. Macrolides minimum Inhibitory concentration (MIC) determination is essential for the treatment.MethodsThirty‐six strains were randomly selected for performing Resazurin Microtiter Assay (REMA) for clarithromycin testing in comparison to MIC test according to Clinical and Laboratory Standards Institute (2011) recommendation. REMA has been used for detection of drug resistance in M. tuberculosis. Extended incubation was performed to detect induced resistance.ResultsThirty microliters of resazurin (0.01%) was added after visually taking MIC reading. Resistance was observed in 11.1% of M. bolletti and 4.8% of M. abscessus strains; and induced resistance was detected in 77.8% and 95.2% of M. bolletti and M. abscessus strains, respectively. All strains of M. massiliense were susceptible. The samples presented same MIC value both by visual reading and through resazurin.ConclusionThe present study showed 100% concordance between both readings, with REMA providing easier to read and report results benefit. This change in reading can also reflect on the MIC determination and report, improving the test.
Quaternary fossil fauna from the Luangwa Valley, Zambia
Authors: Bishop Laura C. , Barham Lawrence , Ditchfield Peter W. , Elton Sarah , Harcourt‐Smith William E. H. , Dawkins Peter 
Published: May 2016

ABSTRACTThis paper describes a large collection of Quaternary fossil fauna from the Luangwa Rift Valley, Zambia. Stone Age artefacts have been recovered from stratified fluvial contexts, but no in situ fossil faunas have yet been recovered. We report on 500 fossil specimens collected from the surface of point bars exposed seasonally along the banks of the main Luangwa River channel. We used non‐destructive X‐ray fluorescence analysis of the fossils' chemical signatures to determine whether they derive from one or many primary contexts, and the relationship between chemical signature and state of preservation. Specimens are identified to taxon (genus) to reconstruct palaeoenvironments and biochronology. A relatively wide range of taxa is identified, including a fossil hominin talus, described here. None of the fossils is positively attributable to extinct species, except a femur of an extinct Theropithecus reported in 2003. Although no additional extinct taxa were identified, some of the remains were attributable to genera that are not currently found in this region. The results suggest that most of the assemblage derives from sediments which are Middle Pleistocene or later, and that past environments in the Luangwa Valley may have differed from the habitat availability found today.
Improved facial nerve identification during parotidectomy with fluorescently labeled peptide
Authors: Hussain Timon , Nguyen Linda T. , Whitney Michael , Hasselmann Jonathan , Nguyen Quyen T. 
Published: May 2016

Objectives/HypothesisAdditional intraoperative guidance could reduce the risk of iatrogenic injury during parotid gland cancer surgery. We evaluated the intraoperative use of fluorescently labeled nerve binding peptide NP41 to aid facial nerve identification and preservation during parotidectomy in an orthotopic model of murine parotid gland cancer. We also quantified the accuracy of intraoperative nerve detection for surface and buried nerves in the head and neck with NP41 versus white light (WL) alone.Study DesignTwenty‐eight mice underwent parotid gland cancer surgeries with additional fluorescence (FL) guidance versus WL reflectance (WLR) alone. Eight mice were used for additional nerve‐imaging experiments.MethodsTwenty‐eight parotid tumor‐bearing mice underwent parotidectomy. Eight mice underwent imaging of both sides of the face after skin removal. Postoperative assessment of facial nerve function measured by automated whisker tracking were compared between FL guidance (n = 13) versus WL alone (n=15). In eight mice, nerve to surrounding tissue contrast was measured under FL versus WLR for all nerve branches detectable in the field of view.ResultsPostoperative facial nerve function after parotid gland cancer surgery tended to be better with additional FL guidance. Fluorescent labeling significantly improved nerve to surrounding tissue contrast for both large and smaller buried nerve branches compared to WLR visualization and improved detection sensitivity and specificity.ConclusionsNP41 FL imaging significantly aids the intraoperative identification of nerve braches otherwise nearly invisible to the naked eye. Its application in a murine model of parotid gland cancer surgery tended to improve functional preservation of the facial nerve.Level of EvidenceNA Laryngoscope, 126:2711–2717, 2016
CO Lasers from Lab to Fab
Authors: Held Andrew 
Published: May 2016

AbstractFirst demonstrated over fifty years ago, carbon monoxide (CO) and carbon dioxide (CO2) lasers are similar technologies that took two different paths of development. CO2 lasers are deployed extensively in a wide range of industrial applications, and their use continues to grow. In contrast, CO lasers were largely restricted to laboratory applications, primarily because it was found to be difficult to produce CO lasers which offered the same high level of reliability and lifetime as CO2 lasers.
When Ideas Serve as Benchmark
Authors: Schönleber Martin , Kogel‐Hollacher Markus 
Published: May 2016

AbstractFollowing the specialized press in the last five years the rise of low coherence interferometry as the prime sensor technology for quality assurance, quality control and even real‐time process control in nearly all laser materials processing areas is more than remarkable. The initial idea to use this technology for just measuring the depth of the keyhole in high power laser welding was soon extended, when Precitec introduced the sensor device to laser materials processing experts which helped to exploit the full potential in many other areas than just laser welding.At present the Precitec IDM — in‐process depth meter — is the preferred sensor when it comes to measure continuous wave, short pulsed, or even ultra short pulsed laser process ing, independent of the processed material. It is the ideal sensor technology when it comes to accurately acquire 3D topography information around the interaction zone itself, allowing for integration of pre‐ and post‐process features in the system software.
Fast 3D ultrashort echo‐time spiral projection imaging using golden‐angle: A flexible protocol for in vivo mouse imaging at high magnetic field
Authors: Castets Charles R. , Lefrançois William , Wecker Didier , Ribot Emeline J. , Trotier Aurélien J. , Thiaudière Eric , Franconi Jean‐Michel , Miraux Sylvain 
Published: May 2016

PurposeTo develop a fast three‐dimensional (3D) k‐space encoding method based on spiral projection imaging (SPI) with an interleaved golden‐angle approach and to validate this novel sequence on small animal models.MethodsA disk‐like trajectory, in which each disk contained spirals, was developed. The 3D encoding was performed by tilting the disks with a golden angle. The sharpness was first calculated at different
values. Then, the sharpness was measured on phantom using variable undersampling ratios. Finally, the sampling method was validated by whole brain time‐of‐flight angiography and ultrasmall superparamagnetic iron oxide (USPIO) enhanced free‐breathing liver angiography on mouse.ResultsThe in vitro results demonstrated the robustness of the method for short
and high undersampling ratios. In vivo experiments showed the ability to properly detect small vessels in the brain with an acquisition time shorter than 1 min. Free‐breathing mice liver angiography showed the insensitivity of this protocol toward motions and flow artifacts, and enabled the visualization of liver motion during breathing.ConclusionsThe method implemented here allowed fast 3D k‐space sampling with a high undersampling ratio. Combining the advantages of center‐out spirals with the flexibility of the golden angle approach could have major implications for real‐time imaging. Magn Reson Med 77:1831–1840, 2017. © 2016 International Society for Magnetic Resonance in Medicine
Maternal protein restriction during pregnancy and lactation affects the development of muscle fibers and neuromuscular junctions in rats
Authors: Confortim Heloisa Deola , Jerônimo Leslie Cazetta , Centenaro Lígia Aline , Pinheiro Patrícia Fernanda Felipe , Matheus Selma Maria Michelin , Torrejais Marcia Miranda 
Published: May 2016

ABSTRACTIntroduction: A balanced maternal diet is a determining factor in normal fetal development. The objective of this study was to evaluate the effects of maternal protein restriction during pregnancy and lactation on muscle fiber and neuromuscular junction (NMJ) morphology of rat offspring at 21 days of age. Methods: Wistar rats were divided into a control group (CG), offspring of mothers fed a normal protein diet (17%), and a restricted group (RG), offspring of mothers fed a low‐protein diet (6%). After a period of lactation, the animals were euthanized, and soleus muscles were obtained from pups for analysis. Results: The soleus muscles of the RG exhibited an increase of 133% in the number of fibers and of 79% in the amount of nuclei. Moreover, the number of NMJs was lower in the restricted group than in the CG. Conclusions: Maternal protein restriction alters the normal development of the neuromuscular system. Muscle Nerve 55: 109–115, 2017
A benchmark testing ground for integrating homology modeling and protein docking
Authors: Bohnuud Tanggis , Luo Lingqi , Wodak Shoshana J. , Bonvin Alexandre M. J. J. , Weng Zhiping , Vajda Sandor , Schueler‐Furman Ora , Kozakov Dima 
Published: May 2016

ABSTRACTProtein docking procedures carry out the task of predicting the structure of a protein–protein complex starting from the known structures of the individual protein components. More often than not, however, the structure of one or both components is not known, but can be derived by homology modeling on the basis of known structures of related proteins deposited in the Protein Data Bank (PDB). Thus, the problem is to develop methods that optimally integrate homology modeling and docking with the goal of predicting the structure of a complex directly from the amino acid sequences of its component proteins. One possibility is to use the best available homology modeling and docking methods. However, the models built for the individual subunits often differ to a significant degree from the bound conformation in the complex, often much more so than the differences observed between free and bound structures of the same protein, and therefore additional conformational adjustments, both at the backbone and side chain levels need to be modeled to achieve an accurate docking prediction. In particular, even homology models of overall good accuracy frequently include localized errors that unfavorably impact docking results. The predicted reliability of the different regions in the model can also serve as a useful input for the docking calculations. Here we present a benchmark dataset that should help to explore and solve combined modeling and docking problems. This dataset comprises a subset of the experimentally solved ‘target’ complexes from the widely used Docking Benchmark from the Weng Lab (excluding antibody–antigen complexes). This subset is extended to include the structures from the PDB related to those of the individual components of each complex, and hence represent potential templates for investigating and benchmarking integrated homology modeling and docking approaches. Template sets can be dynamically customized by specifying ranges in sequence similarity and in PDB release dates, or using other filtering options, such as excluding sets of specific structures from the template list. Multiple sequence alignments, as well as structural alignments of the templates to their corresponding subunits in the target are also provided. The resource is accessible online or can be downloaded at http://cluspro.org/benchmark, and is updated on a weekly basis in synchrony with new PDB releases. Proteins 2016; 85:10–16. © 2016 Wiley Periodicals, Inc.
Identity‐based access control for pro‐active message's DTN
Authors: Sánchez‐Carmona Adrián , Robles Sergi , Borrego Carlos 
Published: May 2016

AbstractPro‐active message's delay tolerant networks (DTNs) are based on the usage of mobile code to obtain messages that contain their own routing code. This architecture allows applications to use the same network in different ways. The keystone of this type of heterogeneous network is a collection of contextual and application‐related information that it is stored in every node and accessed by the messages' routing code. Access to that information must be protected in order to make the whole architecture feasible; the operation of the network has to be secure, and attacks of information poisoning have to be avoided. We propose an identity‐based access control system for pro‐active message's DTN based on tools that are available in DTN networks, like symmetric key encryption and hashes. Our system grants confidentiality and integrity to the contextual information and solves the question of messages needing to use distributed information stored in nodes to route properly. The proof of concept of identity‐based access control in a certain kind of application demonstrates the feasibility of the proposal. The comparison between our proposal and other access control systems shows that identity‐based access control is the only system that fits well with the special characteristics of pro‐active message's DTN. Copyright © 2016 John Wiley & Sons, Ltd.