bluuebunny/crossref_metadata_2025_split huggingface dataset:
Multidecadal Variability of the Overturning Circulation in Presence of Eddy Turbulence
Authors: Huck Thierry , Arzel Olivier , Sévellec Florian 
Published: October 2014

AbstractAt low-resolution, idealized ocean circulation models forced by prescribed differential surface heat fluxes show spontaneous multidecadal variability depending critically on eddy diffusivity coefficients. The existence of this critical threshold in the range of observational estimates legitimates some doubt on the relevance of such intrinsic oscillations in the real ocean. Through a series of numerical simulations with increasing resolution up to eddy-resolving ones (10 km) and various diapycnal diffusivities, this multidecadal variability proves a generic ubiquitous feature, at least in model versions with a flat bottom. The mean circulation largely changes in the process of refining the horizontal grid (along with the associated implicit viscosity and diffusivity), and the spatial structure of the variability is largely modified, but there is no clear influence of the resolution on the main oscillation period. The interdecadal variability appears even more robust to low vertical diffusivity and overturning when mesoscale eddies are resolved. The mechanism previously proposed for these oscillations, involving westward-propagating baroclinically unstable Rossby waves in the subpolar region and its feedback on the mean circulation, appears unaffected by mesoscale turbulence and is simply displaced following the polar front.
An Unusual Recovery from Traumatic Brain Injury in a Young Man
Authors: Ratnasingam Denesh , Lovick Darren S. , Weber Dennis M. , Buonocore Richard V. , Williams William V. 
Published: October 2014

Context Traumatic brain injury (TBI), a complex neurological traumatic incident where brain function is disrupted due to physical trauma, can be categorized in multiple ways and is commonly scored using the Glasgow Coma Scale. Severe closed head injury is a form of TBI with a Glasgow Coma Scale less than 8. The outcomes and prognosis are not uniform in the population but mortality is estimated at 30–50 percent. In this case of severe closed head injury, the patient was able to make a near full recovery after several neurosurgery and medical treatments and intercessory prayer to Saint Luigi Guanella. Findings A 21-year-old male patient received a severe closed head TBI and bilateral hemotympanum while rollerblading without a helmet. After imaging, a left frontal craniotomy and evacuation of epidural and subdural hematomas and resection of a left frontal contusion were performed. Intracranial pressure increased and the patient experienced a transtentorial herniation. He underwent a right frontotemporal and subtemporal craniectomy and evacuation of a frontotemporal subdural hematoma. The patient had intraventricular hemorrhage to which a ventriculostomy was performed and later converted to a ventriculo-peritoneal shunt for recurrent hydrocephalus. The patient was not expected to regain consciousness, but made a recovery after 24 days in the hospital and 10 days in rehabilitation. The patient followed up 6 months after injury for a cranioplasty and soon after returned to near baseline. Conclusions/clinical relevance In this extraordinary case, the severe closed head injury the patient sustained required intensive neurosurgical and medical treatment and the prognosis for recovery of consciousness was very poor; however, with treatment and rehabilitation and intercessory prayer to Saint Luigi Guanella, this patient was able to recover close to baseline from a Glasgow Coma Scale of 7. Lay Summary Head injuries vary in severity and traumatic brain injuries can be extremely serious leading to bleeding, loss of consciousness, and can affect verbal responses, muscles movement in motor responses, and responses with eye movement. Traumatic brain injuries require medical care to assess the severity and treat the injury. In this case report, we discuss a patient's very severe closed head injury while rollerblading without a helmet from which he was not expected to make a full recovery, but did so following intensive medical treatment, rehabilitation, and intercessory prayer to Saint Don Guanella to combat the initial injury and subsequent issues.
Characterization and dielectric properties of sodium fluoride doped talc
Authors: Gümüştas S. , Köseoğlu K. , Yalçinkaya E. E. , Balcan M. 
Published: October 2014

AbstractThe purpose of this paper is to determine the effect of NaF and firing temperature on the dielectric properties (dielectric constant and dielectric loss) of talc, which is used in the electrical and electronic industries as a circuit element. A detailed characterization of the samples was made by XRD, FTIR, SEM and TG-DTG methods. Dielectric measurements were performed in the frequency range from 1 MHz to 80 MHz at room temperature. The dielectric constant value increased with an increase in firing temperature due to the removal of polarizable compounds from the talc structure. The higher dielectric constant values were obtained by addition of NaF. The dielectric loss of NaF doped talc decreased with the increase of firing temperature and increased with the increase of the amount of NaF.
Palaeogeographic controls on palygorskite occurrence in Maastrichtian-Palaeogene sediments of the Western High Atlas and Meseta Basins (Morocco)
Authors: Knidiri A. , Daoudi L. , El Ouahabi M. , Rhouta B. , Rocha F. , Fagel N. 
Published: October 2014

AbstractThe Maastrichtian-Palaeogene series of the Western High Atlas and Meseta Basins in Morocco are particularly rich in palygorskite. The present work is aimed at clarifying the genesis of palygorskite from the interbedded facies and gaining an understanding of their relationships with the depositional environment. The mineralogical characteristics of palygorskite from these series were studied by X-ray diffraction (XRD) and electron microscopy (SEM/TEM). The palygorskite content and microstructure show large geographical and stratigraphical variations in the deposits studied. The palygorskite occurrence is directly related to palaeobathymetry, since it is the dominant clay mineral in shallow marine and restricted environments. According to the morphology of palygorskite crystallites, four types of textures were distinguished. These types of palygorskite are polygenetic, formed by chemical precipitation, by the recrystallization of smectite clays or reworked by wind or water from sub-aerial environments. The difference between the two studied sub-basins with respect to palygorskite occurrence is attributed to the palaeomorphology of the hinterlands, to the tectonic differentiation and to the physical-chemical conditions of seawater.
Remarks on ‘Coupled coincidence point results for a generalized compatible pair with applications’
Authors: Erhan İnci M , Karapınar Erdal , Roldán-López-de-Hierro Antonio-Francisco , Shahzad Naseer 
Published: October 2014

Abstract
Very recently, Hussain et al. (Fixed Point Theory Appl. 2014:62, 2014) announced the existence and uniqueness of some coupled coincidence point. In this short note we remark that the announced results can be derived from the coincidence point results in the literature.

MSC: 47H10, 54H25.
Diagnosing external ventricular drain-related ventriculitis by means of local inflammatory response: soluble triggering receptor expressed on myeloid cells-1
Authors: Gordon Monica , Ramirez Paula , Soriano Alex , Palomo Manuel , Lopez-Ferraz Cristina , Villarreal Esther , Meseguer Salome , Gomez Maria Dolores , Folgado Carlos , Bonastre Juan 
Published: October 2014

Abstract
Introduction
External ventricular drainage (EVD)-related ventriculitis is one of the most severe complications associated with the use of EVDs. Establishing an early and certain diagnosis can be difficult in critically ill patients. We performed this prospective study to evaluate the usefulness of soluble triggering receptor expressed on myeloid cells-1 (sTREM-1) determination in cerebrospinal fluid (CSF) in the diagnosis of ventriculitis.

Methods
A prospective observational study was conducted of 73 consecutive patients with EVD. Samples of CSF for culture, cytobiochemical analysis and sTREM-1 determination were extracted three times a week. Ventriculitis diagnosis required a combination of microbiological, cytobiochemical and clinical criteria.

Results
Seventy-three consecutive patients were included. EVD-related ventriculitis was diagnosed in six patients and EVD-colonization in ten patients. Patients without clinical or microbiological findings were considered controls. The median CSF sTREM-1 was 4,320 pg/ml (interquartile range (IQR): 2,987 to 4,886) versus 266 pg/ml (118 to 689); P <0.001. There were no differences when comparing colonized-patients and controls. The best cut-off sTREM-1 value for the diagnosis of ventriculitis was 2,388.79 pg/ml (sensitivity 100%, specificity 98.5%, positive predictive value 85.71%, negative predictive value 100%). CSF proteins, glucose and the ratio CSF/serum glucose were also significantly different (P = 0.001). Serum biomarkers were not useful to diagnose EVD-related infection. These results were confirmed by a case°Control study with ventriculitis patients (cases) and non-ventriculitis (control subjects) matched by age, comorbidities, severity scales and EVD duration (P = 0.004).

Conclusions
CSF sTREM-1 was useful in the diagnosis of ventriculitis, in a similar measure to classical CSF parameters. Furthermore, CSF sTREM-1 could prove the diagnosis in uncertain cases and discriminate between EVD-colonization and infection.
Genome of the house fly, Musca domestica L., a global vector of diseases with adaptations to a septic environment
Authors: Scott Jeffrey G , Warren Wesley C , Beukeboom Leo W , Bopp Daniel , Clark Andrew G , Giers Sarah D , Hediger Monika , Jones Andrew K , Kasai Shinji , Leichter Cheryl A , Li Ming , Meisel Richard P , Minx Patrick , Murphy Terence D , Nelson David R , Reid William R , Rinkevich Frank D , Robertson Hugh M , Sackton Timothy B , Sattelle David B , Thibaud-Nissen Francoise , Tomlinson Chad , van de Zande Louis , Walden Kimberly KO , Wilson Richard K , Liu Nannan 
Published: October 2014

Abstract
Background
Adult house flies, Musca domestica L., are mechanical vectors of more than 100 devastating diseases that have severe consequences for human and animal health. House fly larvae play a vital role as decomposers of animal wastes, and thus live in intimate association with many animal pathogens.

Results
We have sequenced and analyzed the genome of the house fly using DNA from female flies. The sequenced genome is 691 Mb. Compared with Drosophila melanogaster, the genome contains a rich resource of shared and novel protein coding genes, a significantly higher amount of repetitive elements, and substantial increases in copy number and diversity of both the recognition and effector components of the immune system, consistent with life in a pathogen-rich environment. There are 146 P450 genes, plus 11 pseudogenes, in M. domestica, representing a significant increase relative to D. melanogaster and suggesting the presence of enhanced detoxification in house flies. Relative to D. melanogaster, M. domestica has also evolved an expanded repertoire of chemoreceptors and odorant binding proteins, many associated with gustation.

Conclusions
This represents the first genome sequence of an insect that lives in intimate association with abundant animal pathogens. The house fly genome provides a rich resource for enabling work on innovative methods of insect control, for understanding the mechanisms of insecticide resistance, genetic adaptation to high pathogen loads, and for exploring the basic biology of this important pest. The genome of this species will also serve as a close out-group to Drosophila in comparative genomic studies.
SuRFing the genomics wave: an R package for prioritising SNPs by functionality
Authors: Ryan Niamh M , Morris Stewart W , Porteous David J , Taylor Martin S , Evans Kathryn L 
Published: October 2014

AbstractIdentifying functional non-coding variants is one of the greatest unmet challenges in genetics. To help address this, we introduce an R package, SuRFR, which integrates functional annotation and prior biological knowledge to prioritise candidate functional variants. SuRFR is publicly available, modular, flexible, fast, and simple to use. We demonstrate that SuRFR performs with high sensitivity and specificity and provide a widely applicable and scalable benchmarking dataset for model training and validation.Website: http://www.cgem.ed.ac.uk/resources/
Functional consequences of somatic mutations in cancer using protein pocket-based prioritization approach
Authors: Vuong Huy , Cheng Feixiong , Lin Chen-Ching , Zhao Zhongming 
Published: October 2014

Abstract
Background
Recently, a number of large-scale cancer genome sequencing projects have generated a large volume of somatic mutations; however, identifying the functional consequences and roles of somatic mutations in tumorigenesis remains a major challenge. Researchers have identified that protein pocket regions play critical roles in the interaction of proteins with small molecules, enzymes, and nucleic acid. As such, investigating the features of somatic mutations in protein pocket regions provides a promising approach to identifying new genotype-phenotype relationships in cancer.

Methods
In this study, we developed a protein pocket-based computational approach to uncover the functional consequences of somatic mutations in cancer. We mapped 1.2 million somatic mutations across 36 cancer types from the COSMIC database and The Cancer Genome Atlas (TCGA) onto the protein pocket regions of over 5,000 protein three-dimensional structures. We further integrated cancer cell line mutation profiles and drug pharmacological data from the Cancer Cell Line Encyclopedia (CCLE) onto protein pocket regions in order to identify putative biomarkers for anticancer drug responses.

Results
We found that genes harboring protein pocket somatic mutations were significantly enriched in cancer driver genes. Furthermore, genes harboring pocket somatic mutations tended to be highly co-expressed in a co-expressed protein interaction network. Using a statistical framework, we identified four putative cancer genes (RWDD1, NCF1, PLEK, and VAV3), whose expression profiles were associated with overall poor survival rates in melanoma, lung, or colorectal cancer patients. Finally, genes harboring protein pocket mutations were more likely to be drug-sensitive or drug-resistant. In a case study, we illustrated that the BAX gene was associated with the sensitivity of three anticancer drugs (midostaurin, vinorelbine, and tipifarnib).

Conclusions
This study provides novel insights into the functional consequences of somatic mutations during tumorigenesis and for anticancer drug responses. The computational approach used might be beneficial to the study of somatic mutations in the era of cancer precision medicine.
Methotrexate in chronic-recurrent calcium pyrophosphate deposition disease: no significant effect in a randomized crossover trial
Authors: Finckh Axel , Mc Carthy Geraldine M , Madigan Anne , Van Linthoudt Daniel , Weber Marcel , Neto David , Rappoport Georges , Blumhardt Sandra , Kyburz Diego , Guerne Pierre-Andre 
Published: October 2014

Abstract
Introduction
Calcium pyrophosphate deposition (CPPD) may cause severe arthropathy, major joint destruction and treatment options are limited. The aim of this study was to test the therapeutic efficacy of methotrexate (MTX) in chronic or recurrent CPPD arthropathy.

Methods
Patients with CPPD arthropathy were randomized to receive either weekly subcutaneous injections of 15 mg/week of MTX or placebo (PBO) for three months, in a double-blind, crossover randomized controlled trial. Inclusion criteria comprised definite CPPD disease, recurrent arthritis or persistent polyarthritis, and an insufficient response to NSAIDs, glucocorticoids or colchicine. The primary outcome was an improvement in the disease activity scores based on 44 joints (DAS44). The analysis was performed on an intent-to-treat basis.

Results
We randomized 26 patients, and compared 25 treatment periods on MTX with 21 treatment periods on PBO. Baseline characteristics were balanced between the groups. The evolution of the DAS44 was not statistically significantly different between groups (median DAS44 decreased by −0.08 on MTX versus −0.13 on PBO, after three months, P = 0.44). Furthermore, pain levels remained stable in both groups (median change in VAS Pain −1 unit on MTX and 0 on PBO, P = 0.43), and none of the secondary outcomes was significantly different between the two groups. Minor adverse events (AE) did not differ in frequency between the groups, but the only serious AE occurred on MTX (bicytopenia).

Conclusions
The results of this trial with MTX in this older population with chronic or recurrent CPPD arthropathy suggest no strong effect of MTX on disease activity.

Trial registration
EudraCT No: 2007-003479-37. Registered 26 April 2008
Hypoxia and vitamin D differently contribute to leptin and dickkopf-related protein 2 production in human osteoarthritic subchondral bone osteoblasts
Authors: Bouvard Béatrice , Abed Elie , Yéléhé-Okouma Mélissa , Bianchi Arnaud , Mainard Didier , Netter Patrick , Jouzeau Jean-Yves , Lajeunesse Daniel , Reboul Pascal 
Published: October 2014

Abstract
Introduction
Bone remodelling and increased subchondral densification are important in osteoarthritis (OA). Modifications of bone vascularization parameters, which lead to ischemic episodes associated with hypoxic conditions, have been suspected in OA. Among several factors potentially involved, leptin and dickkopf-related protein 2 (DKK2) are good candidates because they are upregulated in OA osteoblasts (Obs). Therefore, in the present study, we investigated the hypothesis that hypoxia may drive the expression of leptin and DKK2 in OA Obs.

Methods
Obs from the sclerotic portion of OA tibial plateaus were cultured under either 20% or 2% oxygen tension in the presence or not of 50 nM 1,25-dihydroxyvitamin D3 (VitD3). The expression of leptin, osteocalcin, DKK2, hypoxia-inducible factor 1α (Hif-1α) and Hif-2α was measured by real-time polymerase chain reaction and leptin production was measured by enzyme-linked immunosorbent assay (ELISA). The expression of Hif-1α, Hif-2α, leptin and DKK2 was reduced using silencing RNAs (siRNAs). The signalling pathway of hypoxia-induced leptin was investigated by Western blot analysis and with mitogen-activated protein kinase (MAPK) inhibitors.

Results
The expression of leptin and DKK2 in Obs was stimulated 7-fold and 1.8-fold, respectively (P <0.05) under hypoxia. Interestingly, whereas VitD3 stimulated leptin and DKK2 expression 2- and 4.2-fold, respectively, under normoxia, it stimulated their expression by 28- and 6.2-fold, respectively, under hypoxia (P <0.05). The hypoxia-induced leptin production was confirmed by ELISA, particularly in the presence of VitD3 (P <0.02). Compared to Obs incubated in the presence of scramble siRNAs, siHif-2α inhibited VitD3-stimulated leptin mRNA and protein levels by 70% (P =0.004) and 60% (P <0.02), respectively, whereas it failed to significantly alter the expression of DKK2. siHif-1α has no effect on these genes. Immunoblot analysis showed that VitD3 greatly stabilized Hif-2α under hypoxic conditions. The increase in leptin expression under hypoxia was also regulated, by p38 MAPK (P <0.03) and phosphoinositide 3-kinase (P <0.05). We found that the expression of leptin and DKK2 were not related to each other under hypoxia.

Conclusions
Hypoxic conditions via Hif-2 regulation trigger Obs to produce leptin, particularly under VitD3 stimulation, whereas DKK2 is regulated mainly by VitD3 rather than hypoxia.
Remote Consulting in Education System
Authors: �������  , Sosnina Tatyana 
Published: October 2014

This paper presents a new kind of educational consulting � remote consulting. In education system remote consulting is a way tonot only get quality
services, but also gain skills of using means of information and communication technologies.
Introducing innovations into education forces a specialist to develop new competencies, implementing the concept of &#34;education through life&#34;;this leads
to the need to find new learning technologies and ways of learning. The author proposes to study forms of synchronous (webinar, e-conference, Skype,
etc.) and asynchronous (e-mail, e-conference, etc.) remote consulting. The researchrevealed that the use of remote consulting by means of internet technology
significantlyextends user�s capability to acquire knowledge.
Scheduling the German Basketball League
Authors: Westphal Stephan 
Published: October 2014

In this paper, we discuss the problem of finding an optimal schedule for the German Basketball League (BBL) for the 2011–2012 season. A major issue that we address is that most of the games take place in multipurpose arenas that are also used for other events and are thus not always available. In addition, we must minimize the number of successive home or away games, assign the most interesting games to television broadcasting slots, minimize the distance teams must drive on a newly established derby day, and meet team requests for home or away games and to play specific teams. We present several algorithmic approaches and show how these models fit the BBL’s requirements. In this process, we prove that the classic models, which the BBL had applied previously and many other leagues still apply, are too limited to meet these requirements. We show that canonical schedules do not have the desired properties. We proved to the BBL that mirrored schedules cannot meet its needs, and thus convinced it to use nonmirrored schedules for the first time in its history. The BBL’s requirements are typical of sports leagues; therefore, the approaches presented are also applicable to many other sports leagues. We implemented our approach in scheduling software that we developed for the BBL and applied to its 2011–2012 season scheduling.
Critical civic consciousness: Exploring the US civic opportunity gap with Giroux and Freire
Authors: Pope IV Alexander 
Published: October 2014

Abstract
This conceptual article describes critical civic consciousness, a new theoretical framework suitable for engaging in research on school-based civic engagement opportunities when they occur. The framework incorporates elements of Giroux’s critical citizenship and Freire’s conscientização to critically examine existing descriptions of the civic opportunity gap in the United States. Critical civic consciousness offers a means of conceptualizing civic engagement opportunities that moves beyond the common sense correlation between in-school experiences and later ‘real-world’ applications that permeates existing research on the topic. Teachers, students and researchers can link classroom experiences to desired outcomes by focusing on the interactions between classroom members. This framework is specifically concerned with the civic opportunity gap associated with civic and social studies education in the United States but has implications for civic education in other contexts.