bluuebunny/crossref_metadata_2025_split huggingface dataset:
Crystal structure of an SH2–kinase construct of c-Abl and effect of the SH2 domain on kinase activity
Authors: Lorenz Sonja , Deng Patricia , Hantschel Oliver , Superti-Furga Giulio , Kuriyan John 
Published: March 2015

Constitutive activation of the non-receptor tyrosine kinase c-Abl (cellular Abelson tyrosine protein kinase 1, Abl1) in the Bcr (breakpoint cluster region)–Abl1 fusion oncoprotein is the molecular cause of chronic myeloid leukaemia (CML). Recent studies have indicated that an interaction between the SH2 (Src-homology 2) domain and the N-lobe (N-terminal lobe) of the c-Abl kinase domain (KD) has a critical role in leukaemogenesis [Grebien et al. (2011) Cell 147, 306–319; Sherbenou et al. (2010) Blood 116, 3278–3285]. To dissect the structural basis of this phenomenon, we studied c-Abl constructs comprising the SH2 and KDs in vitro. We present a crystal structure of an SH2–KD construct bound to dasatinib, which contains the relevant interface between the SH2 domain and the N-lobe of the KD. We show that the presence of the SH2 domain enhances kinase activity moderately and that this effect depends on contacts in the SH2/N-lobe interface and is abrogated by specific mutations. Consistently, formation of the interface decreases slightly the association rate of imatinib with the KD. That the effects are small compared with the dramatic in vivo consequences suggests an important function of the SH2–N-lobe interaction might be to help disassemble the auto-inhibited conformation of c-Abl and promote processive phosphorylation, rather than substantially stimulate kinase activity.
Hypoxic induction of AKAP12 variant 2 shifts PKA-mediated protein phosphorylation to enhance migration and metastasis of melanoma cells
Authors: Finger Elizabeth C. , Castellini Laura , Rankin Erinn B. , Vilalta Marta , Krieg Adam J. , Jiang Dadi , Banh Alice , Zundel Wayne , Powell Marianne Broome , Giaccia Amato J. 
Published: March 2015

Significance
Scaffold proteins can serve as critical focal points for association of signaling molecules and downstream pathways that regulate tumor growth and invasion. We demonstrate that low oxygen levels, common in solid tumors, can regulate expression of one member of the AKAP scaffold protein family, AKAP12, in melanoma. Genetic inactivation of AKAP12 leads to decreased migration, invasion, and tumor growth in a mouse model of melanoma. Mechanistically, we discovered a switch in protein kinase A (PKA)-regulated phosphorylations under hypoxia that are dependent on AKAP12 and show that PKA is the critical kinase regulating AKAP12-dependent cellular migration. These results provide novel insight into how the tumor microenvironment modulates signal transduction and biological responses through the regulation of a specific variant of the scaffold protein AKAP12.
Influence of carbohydrate mouth rinsing on running and jumping performance during early morning soccer scrimmaging
Authors: Přibyslavská Veronika , Scudamore Eric Michael , Johnson Samantha Louise , Green James Matthew , Stevenson Wilcoxson Mary Caitlin , Lowe Jordan Blaine , O'Neal Eric Kyle 
Published: March 2015

AbstractCarbohydrate mouth rinse (CMR) is a novel method proposed to enhance endurance performance lasting ≤ 60 min. The current study examined the influence of CMR on anaerobic performance tasks in 11 collegiate female soccer players after an overnight fast. Athletes completed two experimental sessions, during which carbohydrate (CHO; 6% maltodextrin) or taste‐ and colour‐matched placebo (PLA) mouth‐rinse solutions were administered in a counterbalanced, double‐blinded design. Three rounds of a 5‐min scrimmage bout and series of performance tests including a single countermovement vertical jump (1VJ), a set of four consecutive vertical jumps, a 72‐m shuttle run (SR72) and 18‐m sprint comprised each trial. Thirst sensation (TS), session TS, ratings of perceived exertion (RPE) and session RPE were assessed as secondary outcomes. The first SR72 approached significance (p = 0.069), but no significant between‐trials differences were observed for any of the mean performance tasks. The highest 1VJ scores did not differ for the first (CHO = 47.3 ± 3.4, PLA = 47.7 ± 3.5 cm; p = 0.43), second (CHO = 48.0 ± 4.1, PLA = 47.9 ± 3.5 cm; p = 0.82) or third bout (CHO = 47.4 ± 3.9, PLA = 48.1 ± 3.9 cm; p = 0.26). TS approached significance (p = 0.053) during the first bout. No significant differences (p > 0.05) were found for any of the perceptual variables. Current results fail to support ergogenic influence of CMR on anaerobic performance tasks in collegiate female athletes.
iTagPlot: an accurate computation and interactive drawing tool for tag density plot
Authors: Kim Sung-Hwan , Ezenwoye Onyeka , Cho Hwan-Gue , Robertson Keith D. , Choi Jeong-Hyeon 
Published: March 2015

Abstract
Motivation: Tag density plots are very important to intuitively reveal biological phenomena from capture-based sequencing data by visualizing the normalized read depth in a region.
Results: We have developed iTagPlot to compute tag density across functional features in parallel using multicores and a grid engine and to interactively explore it in a graphical user interface. It allows us to stratify features by defining groups based on biological function and measurement, summary statistics and unsupervised clustering.
Availability and implementation: http://sourceforge.net/projects/itagplot/.
Contact: jechoi@gru.edu and jeochoi@gmail.com
Supplementary information: Supplementary data are available at Bioinformatics online.
Are juvenile Caribbean spiny lobsters (Panulirus argus) becoming less social?
Authors: Childress Michael J. , Heldt Katherine A. , Miller Scott D. 
Published: March 2015

Abstract
Caribbean spiny lobsters are one of the most commercially important fisheries due in large part to their highly gregarious nature that facilitates their harvest by the use of traps or aggregation devices containing conspecifics. Aggregation in this species has been shown to be due to strong attraction to conspecific chemical cues that influence movement rates, discovery of crevice shelters, and den sharing behaviours. Although aggregation has been shown to have many potential benefits (reduction in exposure time and predation risk), it may also have significant costs as well (increase in predator encounters, disease transmission, and fishing mortality). We compared the results of three published and three unpublished Y-maze chemical cue choice experiments from 1996 to 2012 to determine if there has been a decrease in conspecific attraction by early benthic juvenile Caribbean spiny lobsters (15–55 mm carapace length, CL). We found that attraction to conspecific chemical cues decreased since 2010 and was significantly lower in 2012. Lobsters showed individual variation in conspecific attraction but this variation was unrelated to size, sex, or dominance status. We also found localized regional variation in conspecific attraction with lobsters from high shelter/high disease areas showing significantly lower conspecific attraction than those from low shelter/low disease areas. Given that conspecific attraction varies among individuals and potentially increases mortality through either natural (increased disease transmission) or fishery-induced (attraction to traps) mechanisms, we should play close attention to this loss of conspecific attraction in juvenile lobsters. Future studies should investigate both the causation and the ecological significance of changes in conspecific attraction in regions that vary in intensity of disease (PaV1) and fishing pressure.
Graphical display of diagnostic test results in electronic health Records: a comparison of 8 systems
Authors: Sittig Dean F , Murphy Daniel R , Smith Michael W , Russo Elise , Wright Adam , Singh Hardeep 
Published: March 2015

Abstract
Accurate display and interpretation of clinical laboratory test results is essential for safe and effective diagnosis and treatment. In an attempt to ascertain how well current electronic health records (EHRs) facilitated these processes, we evaluated the graphical displays of laboratory test results in eight EHRs using objective criteria for optimal graphs based on literature and expert opinion. None of the EHRs met all 11 criteria; the magnitude of deficiency ranged from one EHR meeting 10 of 11 criteria to three EHRs meeting only 5 of 11 criteria. One criterion (i.e., the EHR has a graph with y-axis labels that display both the name of the measured variable and the units of measure) was absent from all EHRs. One EHR system graphed results in reverse chronological order. One EHR system plotted data collected at unequally-spaced points in time using equally-spaced data points, which had the effect of erroneously depicting the visual slope perception between data points. This deficiency could have a significant, negative impact on patient safety. Only two EHR systems allowed users to see, hover-over, or click on a data point to see the precise values of the x–y coordinates. Our study suggests that many current EHR-generated graphs do not meet evidence-based criteria aimed at improving laboratory data comprehension.
Government support and firm innovation performance
Authors: Wei Jiuchang , Liu Yang 
Published: March 2015

Purpose– This paper aims to examine the effect of government support on the innovation performance of firms in the Chinese context.Design/methodology/approach– We divided government support into vertical support and horizontal support, and adopted an empirical research approach in this study. We collected the data of 343 enterprises in China that had been identified as innovative enterprises, including their characteristic data, government support data and patent data. Negative binomial regression was used to quantitatively examine the relationship between government support and the innovation performance of firms.Findings– Both vertical support in the form of direct research and development (R&D) subsidies and horizontal support in the form of regional innovation policy positively influence the innovation performance of firms. In addition, direct R&D subsidies are more likely to experience the enhanced benefits of carrying out tax credit policy on the innovation performance of firms.Originality/value– This study contributed to the innovation literature by distinguishing two types of government support, namely, vertical support and horizontal support, and assessing the effects of government support on firm innovation in the Chinese context.
Organizational learning, absorptive capacity, imitation and innovation
Authors: Song Zhi-hong 
Published: March 2015

Purpose– The purpose of this paper is to examine the relationships among organizational learning, absorptive capacity, imitation and innovation in the Chinese context.Design/methodology/approach– Based on the organizational learning theory and innovation theory, the paper presents a framework linking organizational learning, absorptive capacity, imitation and innovation. Using a key informant technique, a survey questionnaire was designed and sent to the middle or top management managers of 115 firms located in Peking, People’s Republic (PR) of China. Structural equation modeling (SEM) with the maximum likelihood (ML) estimation procedures was applied to test the hypotheses developed in the research.Findings– The empirical results show that both organizational learning and absorptive capacity have positive impacts on innovation; imitation has a positive impact on absorptive capacity; absorptive capacity mediates the relationship between imitation and innovation.Practical implications– This study has implications for firms aiming to enhance innovation by organizational learning, absorptive capacity and imitation.Originality/value– Despite the number of studies concerning organizational learning, absorptive capacity, imitation and innovation, research that encompasses the interrelationships between the four concepts simultaneously remains scarce. The paper provides a framework linking organizational learning, imitation, absorptive capacity and innovation, and it advances the argument that absorptive capacity is an important factor in predicting the Chinese firms’ transition from imitation to innovation.
Gravimetric monitoring of the first field‐wide steam injection in a fractured carbonate field in Oman – a feasibility study
Authors: Glegola Marcin , Ditmar Pavel , Vossepoel Femke , Arts Rob , Al‐Kindy Fahad , Klees Roland 
Published: March 2015

ABSTRACTGas‐Oil Gravity Drainage is to be enhanced by steam injection in a highly fractured, low permeability carbonate field in Oman. Following a successful pilot, field‐wide steam injection is being implemented, first of this type in the world. A dedicated monitoring program has been designed to track changes in the reservoir. Various observations are to be acquired, including, surface deformation, temperature measurements, microseismic, well logs, pressure and saturation measurements to monitor the reservoir. Because significant changes in the reservoir density are expected, time‐lapse gravimetry is also being considered. In this paper we investigate the feasibility of gravimetric monitoring of the thermally enhanced gravity drainage process at the carbonate field in Oman. For this purpose, forward gravity modelling is performed. Based on field groundwater measurements, the estimates of the hydrological signal are considered and it is investigated under what conditions the groundwater influences can be minimized. Using regularized inversion of synthetic gravity data, we analyse the achievable accuracy of heat‐front position estimates. In case of large groundwater variations at the field, the gravity observations can be significantly affected and, consequently, the accuracy of heat‐front monitoring can be deteriorated. We show that, by applying gravity corrections based on local observations of groundwater, the hydrological influences can to a large extent be reduced and the accuracy of estimates can be improved. We conclude that gravimetric monitoring of the heat‐front evolution has a great potential.
Distribution of ∆9‐Tetrahydrocannabinol and 11‐Nor‐9‐Carboxy‐∆9‐Tetrahydrocannabinol Acid in Postmortem Biological Fluids and Tissues From Pilots Fatally Injured in Aviation Accidents
Authors: Kemp Philip M. , Cardona Patrick S. , Chaturvedi Arvind K. , Soper John W. 
Published: March 2015

AbstractLittle is known of the postmortem distribution of ∆9‐tetrahydrocannabinol (THC) and its major metabolite, 11‐nor‐9‐carboxy‐∆9‐tetrahydrocannabinol (THCCOOH). Data from 55 pilots involved in fatal aviation accidents are presented in this study. Gas chromatography/mass spectrometry analysis obtained mean THC concentrations in blood from multiple sites, liver, lung, and kidney of 15.6 ng/mL, 92.4 ng/g, 766.0 ng/g, 44.1 ng/g and mean THCCOOH concentrations of 35.9 ng/mL, 322.4 ng/g, 42.6 ng/g, 138.5 ng/g, respectively. Heart THC concentrations (two cases) were 184.4 and 759.3 ng/g, and corresponding THCCOOH measured 11.0 and 95.9 ng/g, respectively. Muscle concentrations for THC (two cases) were 16.6 and 2.5 ng/g; corresponding THCCOOH, “confirmed positive” and 1.4 ng/g. The only brain tested in this study showed no THC detected and 2.9 ng/g THCCOOH, low concentrations that correlated with low values in other specimens from this case. This research emphasizes the need for postmortem cannabinoid testing and demonstrates the usefulness of a number of tissues, most notably lung, for these analyses.
Dissecting Thoracic Aortic Hematoma Masquerading as Blunt Force Injury of the Neck
Authors: Wiens Andrea L. , Felo Joseph A. 
Published: March 2015

AbstractDiscoloration of the skin of the anterior and lateral neck may raise suspicion for blunt force injury, particularly cervical compression, in an unwitnessed death. We present a case of an elderly woman with an unwitnessed death at home which highlights an external examination finding of blue/purple discoloration of the skin of the neck and links this finding with those from internal examination at autopsy. Pertinent negatives include absence of conjunctival and mucosal petechiae, absence of cutaneous abrasions of the neck, and absence of contusions of the anterior neck musculature. This case illustrates a natural disease entity, spontaneous dissection of a thoracic aortic hematoma, masquerading as blunt force injury externally and highlights the importance of having an appropriate index of suspicion when triaging jurisdictional cases for postmortem examination to accurately determine cause and manner of death.
Decade of Medicare: The contribution of private practice dietitians to chronic disease management and diabetes group services
Authors: Cant Robyn , Ball Lauren 
Published: March 2015

AbstractAimTo review changes in utilisation of dietetics services through the Medicare Chronic Disease Management program over the last decade and describe patient uptake in 2013.MethodsDietetics service data were extracted from published Medicare statistics for the periods (i) January 2004 to December 2013 and (ii) January to December 2013. Data comprised individual dietetics services by state and patient demography, and group services data for provider professions regarding type 2 diabetes: dietitians, diabetes educators and exercise physiologists. t‐test was used to investigate the association of dietetics' individual service utilisation and workforce statistics.ResultsIndividual dietetics Chronic Disease Management consultations in private practice have increased annually since 2004. Dietetics has remained the third largest provider. In 2013, a total of 302 910 individual consultations were conducted; 7% of allied health consultations. Likewise, individual services for Indigenous Australians increased since 2008. Utilisation of group services for type 2 diabetes comprised <2% of dietetics services. Dietitians provided more group services than diabetes educators but considerably fewer than exercise physiologists. Middle‐aged and older patients were common, with highest uptake by those aged 55–74 years. Overall, total and per capita utilisation rates were considerably higher in NSW, Victoria and Queensland compared to less populous states, although this disparity has reduced since 2010.ConclusionsAs 10 years has elapsed since the program's inception, further evaluation of the policy is needed to examine large variations in dietetics' Chronic Disease Management uptake by state and territory in both individual and group services.
Decreased placental and transcellular permeation of cefuroxime in pregnant women with diabetes
Authors: Lalic‐Popovic Mladena , Paunkovic Jovana , Grujic Zorica , Golocorbin‐Kon Svetlana , Milasinovic Ljubomir , Al‐Salami Hani , Mikov Momir 
Published: March 2015

AbstractBackgroundThe present study investigated the transcellular and placental permeation of cefuroxime, an antibiotic used in cesarean sections, in pregnant women with diabetes and hypertension.MethodsFifty‐three women scheduled for cesarean section were divided into three groups: healthy women (n = 18), women with arterial hypertension (n = 21), and women with gestational diabetes (n = 14). All women received 1.5 g, i.v., cefuroxime. Cefuroxime concentrations were measured in maternal venous plasma before, during, and after delivery, as well as in fetal umbilical cord vein and artery plasma during delivery. The effects of diabetes and hypertension on cefuroxime placental‐permeation were assessed by the fetomaternal plasma concentration ratios. Pharmacokinetic non‐compartmental model analyses were performed and results were compared using anova.ResultsFetomaternal drug concentration ratios were lower in the diabetic group than in the hypertensive and control groups. There were no significant differences in umbilical arterial : venous plasma drug concentration ratios in the diabetic and hypertensive groups compared with the control group. Apparent volume of distribution and clearance were significantly lower in the diabetic group compared with the control and hypertensive groups.ConclusionsDiabetes led to decreased placental transfer of cefuroxime, as well as volume of distribution and clearance, but did not affect other pharmacokinetic parameters. Hypertension had no significant effect on the permeation of cefuroxime or on its pharmacokinetics. Prophylactic concentrations of cefuroxime were reached in all groups, but the dosing time of cefuroxime should not be less than 30 min or greater than 2 h prior to delivery.
Evaluation of stability and capsular bag opacification of a new foldable adjustable intraocular lens
Authors: MacLean Kyle D , Werner Liliana , Kramer Gregory D , Farukhi M Aabid , Gardiner Gareth L , Kahook Malik Y , Mamalis Nick 
Published: March 2015

AbstractBackgroundIncorrect lens power remains one of the most common reasons for intraocular lens explantation/exchange. We evaluated stability and effect on capsular bag opacification of a new foldable modular lens system, with a base component and an optic component in rabbit eyes.MethodsBilateral phacoemulsification was performed on six rabbits; one eye received the test lens (Harmoni Modular Lens, ClarVista Medical), whereas the other received a single‐piece hydrophobic acrylic control lens (SA60AT, Alcon). Slit‐lamp examinations were performed at postoperative weeks 1, 2, 3, 4 and 6. All rabbits were sacrificed at week 6. After enucleation, the eyes were examined grossly from the Miyake–Apple view. Following, all globes were sectioned and processed for histopathological examination.ResultsThe modular lens was stable in all six rabbits. Uveal biocompatibility was similar to or better in the test eyes when compared with control eyes up to 6 weeks postoperatively. Overall, capsular bag opacification was found to be significantly lower in the test eyes when compared with control eyes. At the 6‐week gross examination, central posterior capsule opacification was scored as 0.58 ± 0.73 in the test group, and as 3.00 ± 1.26 in the control group (paired two samples for means t‐test; two‐tail P = 0.005).ConclusionsThe Harmoni Modular system remains stable within the capsular bag after implantation. Due to the design of the base component featuring long loops, along with peripheral anterior and posterior square edges, the lens appeared to prevent overall capsular bag opacification in the rabbit model.
Phylogenetic relationships of toads of theRhinella granulosagroup (Anura: Bufonidae): a molecular perspective with comments on hybridization and introgression
Authors: Pereyra Martín O. , Baldo Diego , Blotto Boris L. , Iglesias Patricia P. , Thomé Maria T.C. , Haddad Célio F.B. , Barrio‐Amorós César , Ibáñez Roberto , Faivovich Julián 
Published: March 2015

AbstractTheRhinella granulosagroup consists of 13 species of toads distributed throughout open areas of South America and Panama. In this paper we perform a phylogenetic analysis considering all but one species of the group, employing five nuclear and four mitochondrial genes, for up to 7910 bp per specimen. Separate phylogenetic analyses under direct optimization (DO) of nuclear and mitochondrial sequences recovered theR. granulosagroup as monophyletic and revealed topological incongruence that can be explained mainly by multiple events of hybridization and introgression, both mitochondrial and nuclear. TheDOcombined analysis, after the exclusion of putatively introgressed or heterozygous genomes, resulted in a phylogenetic hypothesis for theR. granulosagroup in which most of the species are recovered as monophyletic, but with interspecific relationships poorly supported. The optimization of morphological (adult and larval), chromosomal, and behavioural characters resulted in 12 putative phenotypic synapomorphies for this species group and some other synapomorphies for internal clades. Our results indicate the need for additional population genetic studies onR. dorbignyiandR. fernandezaeto corroborate the taxonomic status of both taxa. Finally, we discuss biological and genetic characteristics of Bufonidae, as possible explanations for the common occurrence of hybridization and introgression observed in some lineages of this family.