bluuebunny/crossref_metadata_2025_split huggingface dataset:
Supporting biodiversity studies with the EUBrazilOpenBio Hybrid Data Infrastructure
Authors: Amaral Rafael , Badia Rosa M. , Blanquer Ignacio , Braga‐Neto Ricardo , Candela Leonardo , Castelli Donatella , Flann Christina , De Giovanni Renato , Gray William A. , Jones Andrew , Lezzi Daniele , Pagano Pasquale , Perez‐Canhos Vanderlei , Quevedo Francisco , Rafanell Roger , Rebello Vinod , Sousa‐Baena Mariane S. , Torres Erik 
Published: March 2014

SummaryEUBrazilOpenBio is a collaborative initiative addressing strategic barriers in biodiversity research by integrating open access data and user‐friendly tools widely available in Brazil and Europe. The project deploys the EU‐Brazil Hybrid Data Infrastructure that allows the sharing of hardware, software and data on‐demand. This infrastructure provides access to several integrated services and resources to seamlessly aggregate taxonomic, biodiversity and climate data, used by processing services implementing checklist cross‐mapping and ecological niche modelling. A Virtual Research Environment was created to provide users with a single entry point to processing and data resources. This article describes the architecture, demonstration use cases and some experimental results and validation. Copyright © 2014 John Wiley & Sons, Ltd.
Ultrafast Two‐Dimensional NMR Relaxometry for Investigating Molecular Processes in Real Time
Authors: Ahola Susanna , Telkki Ville‐Veikko 
Published: March 2014

AbstractNuclear spin–lattice (T1) and spin–spin (T2) relaxation times provide versatile information about the dynamics and structure of substances, such as proteins, polymers, porous media, and so forth. Multidimensional experiments increase the information content and resolution of NMR relaxometry, but they also multiply the measurement time. To overcome this issue, we present an efficient strategy for a single‐scan measurement of a 2D T1–T2 correlation map. The method shortens the experimental time by one to three orders of magnitude as compared to the conventional method, offering an unprecedented opportunity to study molecular processes in real‐time. We demonstrate that, despite the tremendous speed‐up, the T1–T2 correlation maps determined by the single‐scan method are in good agreement with the maps measured by the conventional method. The concept of the single‐scan T1–T2 correlation experiment is applicable to a broad range of other multidimensional relaxation and diffusion experiments.
A color and shape based algorithm for segmentation of white blood cells in peripheral blood and bone marrow images
Authors: Arslan Salim , Ozyurek Emel , Gunduz‐Demir Cigdem 
Published: March 2014

AbstractComputer‐based imaging systems are becoming important tools for quantitative assessment of peripheral blood and bone marrow samples to help experts diagnose blood disorders such as acute leukemia. These systems generally initiate a segmentation stage where white blood cells are separated from the background and other nonsalient objects. As the success of such imaging systems mainly depends on the accuracy of this stage, studies attach great importance for developing accurate segmentation algorithms. Although previous studies give promising results for segmentation of sparsely distributed normal white blood cells, only a few of them focus on segmenting touching and overlapping cell clusters, which is usually the case when leukemic cells are present. In this article, we present a new algorithm for segmentation of both normal and leukemic cells in peripheral blood and bone marrow images. In this algorithm, we propose to model color and shape characteristics of white blood cells by defining two transformations and introduce an efficient use of these transformations in a marker‐controlled watershed algorithm. Particularly, these domain specific characteristics are used to identify markers and define the marking function of the watershed algorithm as well as to eliminate false white blood cells in a postprocessing step. Working on 650 white blood cells in peripheral blood and bone marrow images, our experiments reveal that the proposed algorithm improves the segmentation performance compared with its counterparts, leading to high accuracies for both sparsely distributed normal white blood cells and dense leukemic cell clusters. © 2014 International Society for Advancement of Cytometry
Active colonization dynamics and diversity patterns are influenced by dendritic network connectivity and species interactions
Authors: Seymour Mathew , Altermatt Florian 
Published: March 2014

AbstractHabitat network connectivity influences colonization dynamics, species invasions, and biodiversity patterns. Recent theoretical work suggests dendritic networks, such as those found in rivers, alter expectations regarding colonization and dispersal dynamics compared with other network types. As many native and non‐native species are spreading along river networks, this may have important ecological implications. However, experimental studies testing the effects of network structure on colonization and diversity patterns are scarce. Up to now, experimental studies have only considered networks where sites are connected with small corridors, or dispersal was experimentally controlled, which eliminates possible effects of species interactions on colonization dynamics. Here, we tested the effect of network connectivity and species interactions on colonization dynamics using continuous linear and dendritic (i.e., river‐like) networks, which allow for active dispersal. We used a set of six protist species and one rotifer species in linear and dendritic microcosm networks. At the start of the experiment, we introduced species, either singularly or as a community within the networks. Species subsequently actively colonized the networks. We periodically measured densities of species throughout the networks over 2 weeks to track community dynamics, colonization, and diversity patterns. We found that colonization of dendritic networks was faster compared with colonization of linear networks, which resulted in higher local mean species richness in dendritic networks. Initially, community similarity was also greater in dendritic networks compared with linear networks, but this effect vanished over time. The presence of species interactions increased community evenness over time, compared with extrapolations from single‐species setups. Our experimental findings confirm previous theoretical work and show that network connectivity, species‐specific dispersal ability, and species interactions greatly influence the dispersal and colonization of dendritic networks. We argue that these factors need to be considered in empirical studies, where effects of network connectivity on colonization patterns have been largely underestimated.
Phosphorus–Boron‐Based Polymers Obtained by Dehydrocoupling of Ferrocenylphosphine–Borane Adducts
Authors: Pandey Souvik , Lönnecke Peter , Hey‐Hawkins Evamarie 
Published: March 2014

AbstractDehydrocoupling of the ferrocenylphosphine–borane adducts [FcPH2(BH3)] (1) [Fc = Fe(C5H5)(C5H4)] and [FcCH2PH2(BH3)] (2) with [{Rh(μ‐Cl)(cod)}2] (cod = 1,5‐cyclooctadiene) as catalyst gave the corresponding phosphorus–boron‐based polymers [FcPH(BH2)]n (3) and [FcCH2PH(BH2)]n (4) as low‐ (heating in toluene, 3low and 4low) or high‐molecular‐weight (heating without solvent, 3high or 4high) poly(ferrocenylphosphinoborane)s depending on the reaction conditions. Dehydrocoupling of a racemic mixture of [2‐N,N‐dimethyl(N‐borane)aminomethyl‐1‐ferrocenyl]phosphine–borane (6) resulted in several products, as both BH3 moieties are apparently involved in polymer formation. Quaternization of the amino group in planar‐chiral [Fe(C5H5){C5H3(CH2NMe2)PH2}] (5) with MeI and treatment of the corresponding ammonium salt [Fe(C5H5){C5H3(CH2NMe3)PH2}]I (8) with BH3(THF) gave [Fe(C5H5){C5H3(CH2NMe3)PH2(BH3)}]I (9), which proved to be a suitable precursor for selective dehydrocoupling to yield an ionic polymer, namely, {[Fe(C5H5){C5H3(CH2NMe3)PH(BH2)}]I}n. The ferrocenylphosphine–borane adducts 1, 2, and 6 were characterized by 31P, 11B, 1H, and 13C NMR spectroscopy, and the polymers were characterized by multinuclear NMR and IR spectroscopy, gel permeation chromatography (GPC), and thermal analysis [differential thermal analysis (DTA)/thermogravimetry (TG)]. The ionic precursor 9 and the resulting polymer are highly insoluble and were characterized by solid‐state 31P NMR spectroscopy, IR spectroscopy, and thermal analysis. Molecular structures of 1, 6, 8, and 9 were determined by X‐ray crystallography.
A Model Study toward the Concise Synthesis of Bromotyrosine‐Derived Spiroisoxazoline Natural Products and Analogous Core Structures
Authors: Das Prasanta , Valente Edward J. , Hamme Ashton T. 
Published: March 2014

AbstractA model study of the first nonaromatic ring based approach toward α‐hydroxyspiroisoxazolines resembling the bromotyrosine‐derived natural product and analogous spiroisoxazoline core structures was implemented. The desired molecular architecture was achieved through the multifunctionalization of a key 1,3‐diketo spiroisoxazoline. Our strategy could serve as an efficient alternative to previously developed approaches that involve aromatic ring oxidation as the essential step to synthesize this class of natural products.
Bandage‐Based Wearable Potentiometric Sensor for Monitoring Wound pH
Authors: Guinovart Tomàs , Valdés‐Ramírez Gabriela , Windmiller Joshua R. , Andrade Francisco J. , Wang Joseph 
Published: March 2014

AbstractA new wearable electrochemical sensor for monitoring the pH of wounds is introduced. The device is based on the judicious incorporation of a screen‐printed pH potentiometric sensor into bandages. The fabrication of this sensor, which uses an electropolymerized polyaniline (PANi) conducting polymer for pH sensing, combines the screen‐printing fabrication methodology with all‐solid‐state potentiometry for implementation of both the reference and the working electrodes. The pH bandage sensor displays a Nernstian response over a physiologically relevant pH range (5.5–8), with a noteworthy selectivity in the presence of physiological levels of most common ions. The bandage‐embedded sensor can track pH fluctuations with no apparent carry‐over effect. The sensor displays good resiliency against mechanical stress, along with superior repeatability and reproducibility. The in vitro performance of the device was successfully evaluated using buffer solutions emulating the composition of a wound. The novel pH‐sensitive bandages facilitate new avenues towards the realization of telemedicine.
Shaking table testing of multidrum columns and portals
Authors: Drosos Vasileios , Anastasopoulos Ioannis 
Published: March 2014

SUMMARYA common type of ancient monuments around the Mediterranean is the ancient Greek temple. Unfortunately, very few remain intact; most of them surviving in the form of free‐standing multidrum columns. Composed of stones resting on top of each other without any connection, such columns are considered vulnerable to earthquakes. The paper presents an experimental study of such structures, aiming to explore their seismic vulnerability and derive insights on the key factors affecting their response. Reduced scale models of a single multidrum column and of a portal were tested at the shaking table of the National Technical University of Athens Laboratory of Soil Mechanics. The models, constructed of marble just as the originals, were excited by idealized Ricker pulses and real seismic records. Single columns exhibit a remarkable earthquake resistance. Subjected to the strongest motions ever recorded in Greece, where many such monuments are situated, the columns hardly suffered any permanent deformation. Collapse is probable only for extremely harsh directivity‐affected seismic motions. Portals proved even more robust, surviving extreme seismic excitations. Their superior performance is related to the beneficial role of the epistyle, which adds energy dissipation and restoring force to the system. Their performance is very sensitive to minor changes in geometry or input motion. The complexity increases exponentially with the number of drums, being directly associated with the number of drum‐to‐drum interfaces and the increased probability of interface imperfections. In contrast to PGA, the maximum spectral displacement SDmax and the length scale Lp have turned out to be effective intensity measures. Copyright © 2014 John Wiley & Sons, Ltd.
Dimensions of Emotion Dysregulation in Bulimia Nervosa
Authors: Lavender Jason M. , Wonderlich Stephen A. , Peterson Carol B. , Crosby Ross D. , Engel Scott G. , Mitchell James E. , Crow Scott J. , Smith Tracey L. , Klein Marjorie H. , Goldschmidt Andrea B. , Berg Kelly C. 
Published: March 2014

AbstractThe goal of this study was to examine associations between dimensions of emotion dysregulation and eating disorder (ED) symptoms in bulimia nervosa (BN). This investigation used baseline data from a BN treatment study that included 80 adults (90% women) with full or subthreshold BN. Participants completed the Difficulties in Emotion Regulation Scale (DERS) and the Eating Disorders Examination interview. The Eating Disorders Examination global score was significantly correlated with the DERS total score, as well as several DERS subscales: nonacceptance, impulse and strategies. Further, the DERS goals subscale was found to be uniquely associated with frequency of purging and driven exercise, although none of the subscales were associated with frequency of objective binge eating. Findings indicate that emotion dysregulation is associated with ED symptoms in BN, suggesting the utility of interventions that address emotion regulation skills deficits in the treatment of the disorder. Copyright © 2014 John Wiley & Sons, Ltd and Eating Disorders Association.
Measurement of particle rotation in a saltation layer
Authors: von Pokorny M. L. , Horender S. 
Published: March 2014

ABSTRACTTwo computational methods to measure particle rotations from shadow images of sand particles saltating in a wind tunnel are presented. One method calculates the maximum of the cross‐correlations through multiple angular rotations of an imaged particle. The second method polar transforms both images and then calculates the correlation coefficient for multiple pixel displacements in the θ axis, corresponding to particle rotations. The results from both methods were analysed as a function of height above sand bed (3.7–33.4 mm) and particle size (0.32–0.93 mm equivalent mean diameter). Our results indicate little evidence that particle rotation speeds depend on either their size or height above the sand bed. Though similar results were obtained from both methods, there existed different advantages and disadvantages between the methods. Erroneous results likely arose from particles that were inadequately described by a 2‐D rotation axis, or from poorly imaged particles. At a wind tunnel speed of about 12 m/s, most particles rotated at around 300–400 rev/s. Negative rotations were also found, and their proportion was approximately 15% within the total range of −450 to 850 rev/s. The ratio of displacement kinetic energy to rotation energy was compared across the various groups and had values between 15 and 40. The quotient showed little dependence on height, though decreased with increasing particle size. Wider applicability of the measurement methodology to study snow particle rotation is also discussed. Copyright © 2014 John Wiley & Sons, Ltd.
A spectral quadrilateral multidomain penalty method model for high Reynolds number incompressible stratified flows
Authors: Escobar‐Vargas J.A. , Diamessis P.J. , Sakai T. 
Published: March 2014

SUMMARYA two‐dimensional quadrilateral spectral multidomain penalty method (SMPM) model has been developed for the simulation of high Reynolds number incompressible stratified flows. The implementation of higher‐order quadrilateral subdomains renders this model a nontrivial extension of a one‐dimensional subdomain SMPM model built for the simulation of the same type of flows in vertically nonperiodic domains (Diamessis et al., J. Comp. Phys, 202:298‐322, 2005). The nontrivial aspects of this extension consist of the implementation of subdomain corners, the penalty formulation of the pressure Poisson equation (PPE), and, most importantly, the treatment of specific challenges that arise in the iterative solution of the SMPM‐discretized PPE. The two primary challenges within the framework of the iterative solution of the PPE are its regularization to ensure the consistency of the associated linear system of equations and the design of an appropriate two‐level preconditioner. A qualitative and quantitative assessment of the accuracy, efficiency, and stability of the quadrilateral SMPM solver is provided through its application to the standard benchmarks of the Taylor vortex, lid‐driven cavity, and double shear layer. The capacity of the flow solver for the study of environmental stratified flow processes is shown through the simulation of long‐distance propagation of an internal solitary wave of depression in a manner that is free of numerical dispersion and dissipation. The methods and results presented in this paper make it a point of reference for future studies oriented toward the reliable application of the quadrilateral SMPM model to more complex environmental stratified flow process studies. Copyright © 2014 John Wiley & Sons, Ltd.
Pain anticipation recruits the mesolimbic system and differentially modulates subsequent recognition memory
Authors: Bauch Eva M. , Rausch Vanessa H. , Bunzeck Nico 
Published: March 2014

AbstractThe ability to encode information into long‐term memory is not a passive process but can be influenced by motivational factors. While the mesolimbic system has long been associated with reward‐driven memory enhancement, the precise neurobiology of processing aversive events and their effects on declarative learning remain unclear. To address this issue, human subjects encoded a series of scene images, which was combined with cues predicting an aversive electric shock with different probabilities (0.2, 0.5, 0.8). Subsequently, recognition memory for the scenes was tested using a remember/know procedure. In a behavioral experiment, shock probability had linear effects on familiarity and inverted u‐shaped effects on recollection. While the behavioral effect was absent in experiment 2 (fMRI), at the neural level encoding‐related activity in the hippocampus mimicked the recollection specific quadratic effect, whereas activity in the anterior parahippocampal gyrus mirrored the familiarity specific linear relationship that was evident in experiment 1. Importantly, the probability of upcoming shocks was linearly coded in the substantia nigra / ventral tegmental area, and pain associated brain regions, such as the insula, responded to shock delivery. Our results demonstrate that anticipating primary aversive events recruits the human mesolimbic system and differentially modulates declarative memory functions via medial temporal lobe structures. Hum Brain Mapp 35:4594–4606, 2014. © 2014 Wiley Periodicals, Inc.
Treatment outcomes of postradiation second head and neck malignancies managed by a multidisciplinary approach
Authors: Chung Joseph , Lee Victor , Tsang Raymond , Chan Jimmy , Kwong Dora L. W. , Lam Ka‐on , Sze Henry C. K. , Leung To‐wai 
Published: March 2014

ABSTRACTBackgroundThe purpose of this study was to report on the treatment outcomes of patients with postradiation second head and neck malignancies.MethodsFifty‐seven consecutive patients with postradiation second malignancy were reviewed. Progression‐free survival (PFS), overall survival (OS), and prognostic factors were analyzed.ResultsMean time interval between first course of radiation therapy to the development of postradiation second malignancy was 13.2 years. Median PFS and OS for the whole group were 12.0 and 67.0 months, respectively. Postradiation sarcoma conferred a worse PFS (p = .003) and OS (p = .001) as compared to postradiation carcinoma. Multivariate analysis revealed that Eastern Cooperative Oncology Group (ECOG) performance status ≥3 (p = .034), postradiation sarcoma (p = .007), and lack of radical surgery (p = .044) are prognostic of PFS, whereas postradiation sarcoma (p = .002), lack of postprogression surgery (p < .001), and lack of postprogression systemic therapy (p = .011) were prognostic factors of OS.ConclusionTreatment outcomes of postradiation second malignancy seemed promising under a multidisciplinary management. © 2014 Wiley Periodicals, Inc. Head Neck 37: 815–822, 2015
Utility of magnifying endoscopy with narrow band imaging in determining the invasion depth of superficial pharyngeal cancer
Authors: Kikuchi Daisuke , Iizuka Toshiro , Yamada Akihiro , Furuhata Tsukasa , Yamashita Satoshi , Nomura Kosuke , Kuribayashi Yasutaka , Kimura Ryuusuke , Matsui Akira , Mitani Toshifumi , Ogawa Osamu , Takeda Hidehiko , Hoteya Shu , Kaise Mitsuru 
Published: March 2014

ABSTRACTBackgroundMagnifying endoscopy with narrow band imaging (ME‐NBI) is useful to diagnose invasion depth of superficial esophageal cancer. The purpose of this study was to evaluate the utility of ME‐NBI of superficial pharyngeal cancer.MethodsBetween April 2008 and June 2012, 146 lesions in 104 patients who underwent ME‐NBI and en bloc resection were retrospectively analyzed. Based on magnifying endoscopic classification, proposed by the Japan Esophageal Society, microvasculature type was classified into B1, B2, and B3.ResultsB1 alone, B2, and B3 were observed in 128, 14, and 4 lesions, respectively. The frequency of subepithelial cancer were 20.3% (26 of 128), 78.6% (11 of 14), and 100% (4 of 4), respectively (p < .05). Mean invasion distance were 650 μm, 720.0 μm, and 2256.5 μm. Positive and negative predictive value for diagnosing subepithelial cancer based on the presence of B2 or B3 was 83.3% (15 of 18) and 79.7% (102 of 128).ConclusionME‐NBI is useful to determining invasion depth of superficial pharyngeal cancer. © 2014 Wiley Periodicals, Inc. Head Neck 37: 846–850, 2015
DNA aneuploidy‐specific therapy for head and neck squamous cell carcinoma
Authors: García Martínez Jorge , García–Inclán Cristina , Suárez Carlos , Llorente José L. , Hermsen Mario A. 
Published: March 2014

BackgroundPatients with head and neck squamous cell carcinoma (HNSCC) have an unfavorable prognosis, with a 5‐year survival rate of approximately 40%. Genetic analyses have revealed that the majority of HNSCCs carry complex, aneuploid karyotypes, showing numerical and structural chromosomal imbalances. New compounds are being developed that target chromosomal instability in general, specifically affecting cells with aneuploid karyotypes.MethodsTwo such compounds, 5‐aminoimidazole‐4‐carboxamide riboside (AICAR) and 17‐allylamino‐17‐demethoxygeldanamycin (17‐AAG), were tested using a panel of stable diploid and unstable aneuploid HNSCC cell lines, and short‐term cultures of normal keratinocytes as control.ResultsA significant growth inhibitory effect by both compounds was observed in the aneuploid compared to diploid HNSCC cell lines and to the normal keratinocytes. This effect was independent from the TP53 mutation status. Combination treatment with AICAR and 17‐AAG demonstrated the strongest inhibition.ConclusionAneuploidy‐targeted therapy may be a viable addition to the treatment options for HNSCC.<copy;2013> © 2014 Wiley Periodicals, Inc. Head Neck 37: 884–888, 2015