bluuebunny/crossref_metadata_2025_split huggingface dataset:
Pharmaco-écho-doppler pénien: méthodologie, critères diagnostiques et indications actuelles dans l’exploration d’une dysfonction érectile
Authors: Bonnin C. , Bouilly P. 
Published: January 2012

Résumé
La dysfonction érectile (DE) est une pathologie multifactorielle fréquente, dont l’origine organique ou mixte est considérée actuellement comme dominante chez l’homme après 50 ans. La plupart des DE vasculotissulaires sont liées à une dysfonction endothéliale, en relation avec les principaux facteurs de risque cardiovasculaires (FRCV). La DE représente un indicateur de la santé vasculaire en général. Elle est aussi prédictive d’événements cardiovasculaires (ECV), notamment de coronaropathies. Elle a également été associée aux artériopathies des membres inférieurs et aux accidents vasculaires cérébraux. Le pharmaco-écho-doppler pénien (PEDP) est un examen assez peu utilisé aujourd’hui dans la prise en charge d’une DE, la recherche étiologique n’étant encore le plus souvent pas considérée comme nécessaire à la prise en charge thérapeutique, mais également en raison de l’absence de standardisation. Cependant, de nombreuses publications ont mis récemment en évidence que l’origine vasculotissulaire d’une DE, établie sur des critères vélocimétriques enregistrés après injection intracaverneuse (IIC) de substances vasoactives, renforçait la valeur prédictive de la DE concernant les événements et la mortalité cardiovasculaires (CV), justifiant un intérêt accru pour réaliser cet examen.
Resonant dynamics for the quintic nonlinear Schrödinger equation
Authors: Grébert Benoît , Thomann Laurent 
Published: January 2012

We consider the quintic nonlinear Schrödinger equation (NLS) on the circle

i\partial _{t}u + \partial _{x}^{2}u = \pm \nu |u|^{4}u,\:\nu \ll 1,\:x \in \mathbb{S}^{1},\:t \in \mathbb{R}.

We prove that there exist solutions corresponding to an initial datum built on four Fourier modes which form a resonant set (see Definition 1.1), which have a nontrivial dynamic that involves periodic energy exchanges between the modes initially excited. It is noticeable that this nonlinear phenomenon does not depend on the choice of the resonant set.
The dynamical result is obtained by calculating a resonant normal form up to order 10 of the Hamiltonian of the quintic NLS and then by isolating an effective term of order 6. Notice that this phenomenon cannot occur in the cubic NLS case for which the amplitudes of the Fourier modes are almost actions, i.e. they are almost constant.

Résumé
Nous considérons lʼéquation de Schrödinger non linéaire (NLS) quintique sur le cercle

i\partial _{t}u + \partial _{x}^{2}u = \pm \nu |u|^{4}u,\:\nu \ll 1,\:x \in \mathbb{S}^{1},\:t \in \mathbb{R}.

Nous montrons quʼil existe des solutions issues dʼune condition initiale construite sur quatre modes de Fourier formant un ensemble résonant (voir définition 1.1) ont une dynamique non triviale mettant en jeu des échanges périodiques dʼénergie entre ces quatre modes initialement excités. Il est remarquable que ce phénomène non linéaire soit indépendant du choix de lʼensemble résonant.
Le résultat dynamique est obtenu en mettant dʼabord sous forme normale résonante jusquʼà lʼordre 10 lʼHamiltonien de NLS quintique puis en isolant un terme effectif dʼordre 6. Il est à noter que ce phénomène ne peut pas se produire pour NLS cubique pour lequel les amplitudes des modes de Fourier sont des presque-actions et donc ne varient quasiment pas au cours du temps.
Mining and integration of pathway diagrams from imaging data
Authors: Kozhenkov Sergey , Baitaluk Michael 
Published: January 2012

Abstract
Motivation: Pathway diagrams from PubMed and World Wide Web (WWW) contain valuable highly curated information difficult to reach without tools specifically designed and customized for the biological semantics and high-content density of the images. There is currently no search engine or tool that can analyze pathway images, extract their pathway components (molecules, genes, proteins, organelles, cells, organs, etc.) and indicate their relationships.
Results: Here, we describe a resource of pathway diagrams retrieved from article and web-page images through optical character recognition, in conjunction with data mining and data integration methods. The recognized pathways are integrated into the BiologicalNetworks research environment linking them to a wealth of data available in the BiologicalNetworks' knowledgebase, which integrates data from &gt;100 public data sources and the biomedical literature. Multiple search and analytical tools are available that allow the recognized cellular pathways, molecular networks and cell/tissue/organ diagrams to be studied in the context of integrated knowledge, experimental data and the literature.
Availability: BiologicalNetworks software and the pathway repository are freely available at www.biologicalnetworks.org.
Contact: baitaluk@sdsc.edu
Supplementary information: Supplementary data are available at Bioinformatics online.
A Boolean network model of the FA/BRCA pathway
Authors: Rodríguez Alfredo , Sosa David , Torres Leda , Molina Bertha , Frías Sara , Mendoza Luis 
Published: January 2012

Abstract
Motivation:
Fanconi anemia (FA) is a chromosomal instability syndrome originated by inherited mutations that impair the Fanconi Anemia/Breast Cancer (FA/BRCA) pathway, which is committed to the repair of DNA interstrand cross-links (ICLs). The disease displays increased spontaneous chromosomal aberrations and hypersensitivity to agents that create DNA interstrand cross-links. In spite of DNA damage, FA/BRCA-deficient cells are able to progress throughout the cell cycle, probably due to the activity of alternative DNA repair pathways, or due to defects in the checkpoints that monitor DNA integrity.
Results: We propose a Boolean network model of the FA/BRCA pathway, Checkpoint proteins and some alternative DNA repair pathways. To our knowledge, this is the largest network model incorporating a DNA repair pathway. Our model is able to simulate the ICL repair process mediated by the FA/BRCA pathway, the activation of Checkpoint proteins observed by recurrent DNA damage, as well as the repair of DNA double-strand breaks and DNA adducts. We generated a series of simulations for mutants, some of which have never been reported and thus constitute predictions about the function of the FA/BRCA pathway. Finally, our model suggests alternative DNA repair pathways that become active whenever the FA/BRCA pathway is defective.
Contact: sarafrias@yahoo.com; lmendoza@biomedicas.unam.mx
Supplementary information: Supplementary data are available at Bioinformatics online.
Ventricular assist device support as a bridge to heart transplantation in patients with giant cell myocarditis
Authors: Murray Lindsay K. , González‐Costello Jose , Jonas Samual N. , Sims Daniel B. , Morrison Kerry A. , Colombo Paolo C. , Mancini Donna M. , Restaino Susan W. , Joye Evan , Horn Evelyn , Takayama Hiroo , Marboe Charles C. , Naka Yoshifumi , Jorde Ulrich P. , Uriel Nir 
Published: January 2012

AimsGiant cell myocarditis (GCM) carries a poor prognosis and many patients require end‐stage therapies. This study sought to determine the outcome of patients bridged with ventricular assist devices (VAD) to orthotopic heart transplantation (OHT).Methods and resultsA retrospective data collection of all patients with GCM was performed. Diagnosis was determined by endomyocardial or explanted heart biopsy. Eight patients were found, but two of those patients went directly to OHT and were excluded. The remaining six patients received VADs, and these patients, aged 44 ± 18 years, were included. Five of the six patients were bridged with biventricular support and one patient was supported by left ventricular assist device (LVAD) alone. Two patients died on device support. Four patients were bridged to OHT 77 ± 42 days after device implantation. All four patients bridged with a VAD are alive, with a mean follow‐up of 5.7 ± 4.1 years. Two patients were found to have recurrent GCM in the transplanted heart and were treated successfully with immunosuppression. Three patients had high grade (2R) rejection at 66 ± 52 days post‐OHT. Cardiac function was preserved in all patients, and only one patient had cardiac allograft vasculopathy.ConclusionPatients with end‐stage GCM can be successfully bridged with VADs to OHT with very good post‐OHT survival. The proper immunosuppressive regimen for this group needs further investigation given the frequency of rejection and GCM recurrence.
Measuring the vertical distributional variability of pelagic fauna in Monterey Bay
Authors: Urmy Samuel S. , Horne John K. , Barbee David H. 
Published: January 2012

Abstract
Urmy, S. S., Horne, J. K., and Barbee, D. H. 2012. Measuring the vertical distributional variability of pelagic fauna in Monterey Bay. – ICES Journal of Marine Science, 69: 184–196. Temporal variability is an important feature of aquatic ecosystems that can be difficult to measure. A stationary, upward-facing scientific echosounder was used to record the vertical distribution of pelagic fauna in Monterey Bay, CA, for 18 months. To characterize the distributions, a suite of metrics, including measures of density, abundance, location, dispersion, occupancy, evenness, and aggregation, was developed and tested. An algorithm to detect and count the number of acoustic backscatter layers was developed using image-analysis techniques. The metrics recorded a strong seasonal cycle, with total backscatter reaching a minimum during the spring upwelling season and peaking in autumn and winter. Variability in the vertical distribution of animals was greatest at long time-scales and decreased as a power (−1.050 to −1.585) of signal frequency. There were significant peaks in the power spectrum at 12- and 24-h periods, corresponding to the semi-diurnal tide and diel vertical migration. The diel signal was strongest in late winter and weakest during the spring upwelling season. Active acoustics are a useful addition to ocean observatories, and the metrics presented provide a useful set of tools to quantify the distribution and temporal variability of pelagic fauna.
Chaetognath assemblages along the Pacific Coast and adjacent inland waters of the Philippines: relative importance of oceanographic and biological factors
Authors: Noblezada Mary Mar P. , Campos Wilfredo L. 
Published: January 2012

AbstractNoblezada, M. M. P., and Campos, W. L. 2012. Chaetognath assemblages along the Pacific Coast and adjacent inland waters of the Philippines: relative importance of oceanographic and biological factors. – ICES Journal of Marine Science, 69: 410–420. When studying plankton distribution, it is necessary to investigate the biology of the target organisms and the surrounding physical environment. Station and species groupings are only useful if they provide insight into the environmental associations of the species in the group. The study covers two geographic regions: the Pacific Coast (Bicol Shelf) and inland waters (San Bernardino Strait, Ticao Pass, Sibuyan, and Visayan Seas) of the Philippines. Comprehensive information is provided on chaetognath assemblages and distribution within the regions. The findings are integrated with oceanographic conditions and phenomena that define the characteristics of the subareas and consideration given to how these conditions affect chaetognath ecology. A comparison is also provided of the community structure of the two regions, and the possible use of chaetognaths as indicator species of water mass movement and oceanographic phenomena explored. In all, 28 284 specimens were examined, and 33 species from 17 genera were identified. Chaetognath distributions, abundance, and community structure were analysed using dissimilarity indices and multiple regression. The results show that the distribution of chaetognaths agrees well with the movement of oceanic water from the Pacific into the central part of the archipelago.
Effects of environmental conditions and fishing operations on the performance of a bottom trawl
Authors: Queirolo Dante , Hurtado Carlos F. , Gaete Erick , Soriguer Milagrosa C. , Erzini Karim , Gutiérrez-Estrada Juan C. 
Published: January 2012

Abstract
Queirolo, D., Hurtado, C. F., Gaete, E., Soriguer, M. C., Erzini, K., and Gutiérrez-Estrada, J. C. 2012. Effects of environmental conditions and fishing operations on the performance of a bottom trawl. – ICES Journal of Marine Science, 69: 293–302. Trawl performance was studied based on net spread and variability in the contact of the footrope with the seabed and their relationship with vessel operations, catch weight, and environmental conditions. Artificial neural networks (ANNs) and generalized additive models (GAMs) were used to model the response of each variable. For the variables net spread and variability in footrope contact (VFC), the ANN models were more accurate than the GAMs, with greater generalization capacity in the validation phase. In the best ANN model for net spread, all variables were significant. The relationship between tow direction and wind direction (tactic) was most important in the sensitivity analysis. Net spread increased with increasing towing speed and windspeed, and decreased with increasing wave height. In the ANN model for VFC, there were differences among vessels, and both scope ratio and catch size were not significant. VFC increased with increasing depth and decreased with increasing towing speed and windspeed. The results demonstrate that both operational variables and environmental conditions affect trawl performance, and suggest that survey protocols designed based on this information might help to improve the precision of biomass estimates.
A Prospective Randomized Equivalence Trial of the GlideScope Cobalt® Video Laryngoscope to Traditional Direct Laryngoscopy in Neonates and Infants
Authors: Fiadjoe John E. , Gurnaney Harshad , Dalesio Nicholas , Sussman Emily , Zhao Huaqing , Zhang Xuemei , Stricker Paul A. 
Published: January 2012

Background
Intubation in children is increasingly performed using video laryngoscopes. Many pediatric studies examine novice laryngoscopists or describe single patient experiences. This prospective randomized nonblinded equivalence trial compares intubation time for the GlideScope Cobalt® video laryngoscope (GCV, Verathon Medical, Bothell, WA) with direct laryngoscopy with a Miller blade (DL, Heine, Dover, NH) in anatomically normal neonates and infants. The primary hypothesis was that intubation times with GCV would be noninferior to DL.

Methods
Sixty subjects presenting for elective surgery were randomly assigned to intubation using GCV or DL. Intubation time, time to best view, percentage of glottic opening score, and intubation success were documented. We defined an intubation time difference of less than 10 s as clinically insignificant.

Results
There was no difference in intubation time between the groups (GCV median = 22.6 s; DL median = 21.4 s; P = 0.24). The 95% one-sided CI for mean difference between the groups was less than 8.3 s. GCV yielded faster time to best view (median = 8.1 s; DL 9.9 s; P = 0.03). Endotracheal tube passage time was longer for GCV (median = 14.3 s; DL 8.5 s; P = 0.007). The percentage of glottic opening score was improved with GCV (median 100; DL 80; P < 0.0001).

Conclusions
Similar intubation times and success rates were achieved in anatomically normal neonates and infants with the GCV as with DL. The GCV yielded faster time to best view and better views but longer tube passage times than DL.
AtBGAL10 Is the Main Xyloglucan β-Galactosidase in Arabidopsis, and Its Absence Results in Unusual Xyloglucan Subunits and Growth Defects
Authors: Sampedro Javier , Gianzo Cristina , Iglesias Natalia , Guitián Esteban , Revilla Gloria , Zarra Ignacio 
Published: January 2012

Abstract
In growing cells, xyloglucan is thought to connect cellulose microfibrils and regulate their separation during wall extension. In Arabidopsis (Arabidopsis thaliana), a significant proportion of xyloglucan side chains contain β-galactose linked to α-xylose at O2. In this work, we identified AtBGAL10 (At5g63810) as the gene responsible for the majority of β-galactosidase activity against xyloglucan. Xyloglucan from bgal10 insertional mutants was found to contain a large proportion of unusual subunits, such as GLG and GLLG. These subunits were not detected in a bgal10 xyl1 double mutant, deficient in both β-galactosidase and α-xylosidase. Xyloglucan from bgal10 xyl1 plants was enriched instead in XXLG/XLXG and XLLG subunits. In both cases, changes in xyloglucan composition were larger in the endoglucanase-accessible fraction. These results suggest that glycosidases acting on nonreducing ends digest large amounts of xyloglucan in wild-type plants, while plants deficient in any of these activities accumulate partly digested subunits. In both bgal10 and bgal10 xyl1, siliques and sepals were shorter, a phenotype that could be explained by an excess of nonreducing ends leading to a reinforced xyloglucan network. Additionally, AtBGAL10 expression was examined with a promoter-reporter construct. Expression was high in many cell types undergoing wall extension or remodeling, such as young stems, abscission zones, or developing vasculature, showing good correlation with α-xylosidase expression.
The Primary Transcriptome of Barley Chloroplasts: Numerous Noncoding RNAs and the Dominating Role of the Plastid-Encoded RNA Polymerase
Authors: Zhelyazkova Petya , Sharma Cynthia M. , Förstner Konrad U. , Liere Karsten , Vogel Jörg , Börner Thomas 
Published: January 2012

Abstract
Gene expression in plastids of higher plants is dependent on two different transcription machineries, a plastid-encoded bacterial-type RNA polymerase (PEP) and a nuclear-encoded phage-type RNA polymerase (NEP), which recognize distinct types of promoters. The division of labor between PEP and NEP during plastid development and in mature chloroplasts is unclear due to a lack of comprehensive information on promoter usage. Here, we present a thorough investigation into the distribution of PEP and NEP promoters within the plastid genome of barley (Hordeum vulgare). Using a novel differential RNA sequencing approach, which discriminates between primary and processed transcripts, we obtained a genome-wide map of transcription start sites in plastids of mature first leaves. PEP-lacking plastids of the albostrians mutant allowed for the unambiguous identification of NEP promoters. We observed that the chloroplast genome contains many more promoters than genes. According to our data, most genes (including genes coding for photosynthesis proteins) have both PEP and NEP promoters. We also detected numerous transcription start sites within operons, indicating transcriptional uncoupling of genes in polycistronic gene clusters. Moreover, we mapped many transcription start sites in intergenic regions and opposite to annotated genes, demonstrating the existence of numerous noncoding RNA candidates.
TheArabidopsis O-LinkedN-Acetylglucosamine Transferase SPINDLY Interacts with Class I TCPs to Facilitate Cytokinin Responses in Leaves and Flowers
Authors: Steiner Evyatar , Efroni Idan , Gopalraj Manjula , Saathoff Katie , Tseng Tong-Seung , Kieffer Martin , Eshed Yuval , Olszewski Neil , Weiss David 
Published: January 2012

AbstractO-linked N-acetylglucosamine (O-GlcNAc) modifications regulate the posttranslational fate of target proteins. The Arabidopsis thaliana O-GlcNAc transferase (OGT) SPINDLY (SPY) suppresses gibberellin signaling and promotes cytokinin (CK) responses by unknown mechanisms. Here, we present evidence that two closely related class I TCP transcription factors, TCP14 and TCP15, act with SPY to promote CK responses. TCP14 and TCP15 interacted with SPY in yeast two-hybrid and in vitro pull-down assays and were O-GlcNAc modified in Escherichia coli by the Arabidopsis OGT, SECRET AGENT. Overexpression of TCP14 severely affected plant development in a SPY-dependent manner and stimulated typical CK morphological responses, as well as the expression of the CK-regulated gene RESPONSE REGULATOR5. TCP14 also promoted the transcriptional activity of the CK-induced mitotic factor CYCLIN B1;2. Whereas TCP14-overexpressing plants were hypersensitive to CK, spy and tcp14 tcp15 double mutant leaves and flowers were hyposensitive to the hormone. Reducing CK levels by overexpressing CK OXIDASE/DEHYDROGENASE3 suppressed the TCP14 overexpression phenotypes, and this suppression was reversed when the plants were treated with exogenous CK. Taken together, we suggest that responses of leaves and flowers to CK are mediated by SPY-dependent TCP14 and TCP15 activities.
Aerodynamic investigation on tiltable endplate for WIG craft
Authors: Wei Yang , Zhigang Yang 
Published: January 2012

PurposeThe purpose of this paper is to investigate the aerodynamics of wing in ground effect with tiltable endplates for a new type wing‐in‐ground effect (WIG) craft.Design/methodology/approachThe concept of tiltable endplates was implemented into the design of a WIG craft. Numerical investigation on aerodynamics of the tiltable endplate was carried out. The endplate effect on aerodynamics was deeply investigated with a rectangular wing at given angle of attack and flight height. The size of endplate relative to whole wing was then studied based on given endplate deflection angle and flight height. Finally, aerodynamics and flow of tiltable endplate in various flight heights and endplate deflection angles were analyzed. Aerodynamics, pressure and wingtip vortex were recorded in the study.FindingsEndplate influences development of wingtip vortex and improves aerodynamics. Tiltable endplate can enable WIG craft to yield improved aerodynamic performance and worthwhile economy improvements on long‐distance flights in and out of ground effect (OGE).Research limitations/implicationsThe results are entirely based on computational fluid dynamics (CFD). The gap between “numerical world” and “real world” depends on development and appropriate application of CFD. The current work shows further understanding of ground effect and aerodynamics of wing in ground effect.Practical implicationsThe aerodynamics and aerodynamic optimization of wing in ground effect are of the great importance for WIG craft. The work improves the design and research on aerodynamics of WIG craft.Originality/valueThe concept of tiltable endplate for a new type wing in ground effect allows WIG craft to achieve good aerodynamic performance not only in ground effect but also in OGE. This was studied and proved in the current work.