bluuebunny/crossref_metadata_2025_split huggingface dataset:
Discovering multirelational structure in social media streams
Authors: Lin Yu-Ru , Sundaram Hari , De Choudhury Munmun , Kelliher Aisling 
Published: January 2012

In this article, we present a novel algorithm to discover multirelational structures from social media streams. A media item such as a photograph exists as part of a meaningful interrelationship among several attributes, including time, visual content, users, and actions. Discovery of such relational structures enables us to understand the semantics of human activity and has applications in content organization, recommendation algorithms, and exploratory social network analysis.
We are proposing a novel nonnegative matrix factorization framework to characterize relational structures of group photo streams. The factorization incorporates image content features and contextual information. The idea is to consider a cluster as having similar relational patterns; each cluster consists of photos relating to similar content or context. Relations represent different aspects of the photo stream data, including visual content, associated tags, photo owners, and post times. The extracted structures minimize the mutual information of the predicted joint distribution. We also introduce a relational modularity function to determine the structure cost penalty, and hence determine the number of clusters. Extensive experiments on a large Flickr dataset suggest that our approach is able to extract meaningful relational patterns from group photo streams. We evaluate the utility of the discovered structures through a tag prediction task and through a user study. Our results show that our method based on relational structures, outperforms baseline methods, including feature and tag frequency based techniques, by 35%--420%. We have conducted a qualitative user study to evaluate the benefits of our framework in exploring group photo streams. The study indicates that users found the extracted clustering results clearly represent major themes in a group; the clustering results not only reflect how users describe the group data but often lead the users to discover the evolution of the group activity.
The NOAA Products Validation System (NPROVS)
Authors: Reale Tony , Sun Bomin , Tilley Franklin H. , Pettey Michael 
Published: January 2012

Abstract
The following report summarizes the NOAA Products Validation System (NPROVS), operated at the NOAA National Environmental Satellite, Data, and Information Service (NESDIS) Center for Satellite Applications and Research (STAR). NPROVS provides centralized collocation and intercomparison of multiple suites of satellite-derived atmospheric sounding products, global operational radiosonde and dropsonde observations, and numerical weather prediction (NWP) data. The report addresses the screening and processing of radiosonde and dropsonde data, the method of collocating to the respective satellite product data, and perceived characteristic differences among the respective satellite products. The analysis of characteristic tendencies among the satellite products underscores the need for absolute consistency when compiling validation datasets of respective satellite, ground target, and NWP observations in order to minimize the varying degrees of inherent differences among these systems.
The access and collocation of sonde and satellite observations occur on a daily basis with the routine archiving of all collocated data at STAR. The minimum requirement for retaining a given sonde is that the collective temperature and moisture profiles extend vertically at least 5 km without a gap. Retained reports are further processed including analysis to identify suspicious observations, temperature and moisture profile features, and impacts when applying sampling constraints. The collocation approach is optimized for each satellite system to select a single “closest” sounding from each satellite that lies within 6 h and 250 km of a given sonde. The NPROVS analytical and graphical interface provides a dual troubleshooting function to assure the integrity of collocations and validation function for intercomparing the satellite products. Results indicate notable differences in the perceived characteristic of the products systems with seasonal tendencies.
Cerebral perfusion changes in migraineurs: a voxelwise comparison of interictal dynamic susceptibility contrast MRI measurements
Authors: Arkink Enrico B , Bleeker Egbert JW , Schmitz Nicole , Schoonman Guus G , Wu Ona , Ferrari Michel D , van Buchem Mark A , van Osch Matthias JP , Kruit Mark C 
Published: January 2012

Introduction: The increased risk of cerebro- and cardiovascular disease in migraineurs may be the consequence of a systemic condition affecting whole body vasculature. At cerebrovascular level, this may be reflected by interictal global or regional cerebral perfusion abnormalities. Whether focal perfusion changes occur during interictal migraine has not been convincingly demonstrated. Methods: We measured brain perfusion with dynamic susceptibility contrast magnetic resonance imaging (DSC-MRI) in 29 interictal female migraineurs (12 migraine with aura (MA), 17 migraine without aura (MO)), and 16 female controls. Perfusion maps were compared between these groups with a voxelwise (p < 0.001, uncorrected, minimum cluster size 20 voxels) and a region-of-interest approach. Results: In whole brain voxelwise analyses interictal hyperperfusion was observed in the left medial frontal gyrus in migraineurs and in the inferior and middle temporal gyrus in MO patients, in comparison with controls. Hypoperfusion was seen in the postcentral gyrus and in the inferior temporal gyrus in MA patients and in the inferior frontal gyrus in MO patients. Additional focal sites of hyperperfusion were noted in subgroups based on attack frequency and disease history. Region-of-interest analyses of the pons, hypothalamus, occipital lobe, and cerebellum did not show interictal perfusion differences between migraineurs and controls. Conclusions: We conclude that interictal migraine is characterized by discrete areas of hyper- and hypoperfusion unspecific for migraine pathophysiology and not explaining the increased vulnerability of particular brain regions for cerebrovascular damage.
Factors associated with emotional and behavioral outcomes in adolescents with multiple sclerosis
Authors: Till C , Udler E , Ghassemi R , Narayanan S , Arnold DL , Banwell BL 
Published: January 2012

Background: Multiple sclerosis (MS) onset during adolescence has the potential to disrupt a key period of psychosocial maturation. Objective: We aimed to examine the prevalence and risk factors associated with emotional and behavioral outcomes in adolescents with MS. Methods: The Behavioral Assessment System for Children-2nd Edition (BASC-2) was completed by 31 adolescents with MS (mean age = 16.1 years), 31 age-matched controls, and parents of all participants. BASC-2 outcomes were compared between groups. Base rates were examined for scores falling at least one or two standard deviations below norm. Associations between BASC-2 outcomes and features of disease severity and IQ were examined. Results: Youth with MS were reported by their parents to have more symptoms of depression and somatization and lower adaptive skills compared with reports by parents of controls. On the self-report, patients endorsed more problems of inattention/hyperactivity and lower self-reliance relative to controls. Behavioral concerns and reduced adaptive functioning in the MS group were associated with fatigue, poor relations with parents, and perceived social stress. Psychosocial outcomes did not associate with number of relapses, Expanded Disability Status Scale score, disease duration, brain lesion volume or IQ. Conclusion: Youth with MS are at risk of difficulties in behavioral and emotional health. Relations with parents emerged as a key factor influencing the emotional well-being of youth with MS, suggesting an important role for family-centered care in this population.
Stentless pediatric robotic pyeloplasty
Authors: Rodriguez Alejandro R. , Rich Mark A. , Swana Hubert S. 
Published: January 2012

Objectives: Open dismembered pyeloplasty remains the standard of care for the correction of ureteropelvic junction obstruction in children. We describe our experience with a tubeless, stentless pediatric robotic pyeloplasty technique. Methods: Between October 2008 and September 2009, 12 consecutive children underwent robotic dismembered pyeloplasty. Ureteral stents or nephrostomy tubes were not used. Operative time, hospital stay, days of Jackson–Pratt drainage, and complications were analyzed. Postoperative renal ultrasonography was obtained at 4–6 weeks after surgery. Results: The mean patient age was 9.1 years (3.5–16). The mean operative and console times were 178 (122–250) and 129 (96–193) minutes, respectively. The Jackson–Pratt drain was removed after a mean of 1.8 days (1–4). The mean hospital stay was 2.4 days (1–4.5). There were no complications. Mean follow up was 16 months (12–24 months). All patients had complete resolution of symptoms. Hydronephrosis either completely resolved or significantly decreased in all cases. In cases without complete resolution of hydronephrosis, 99m Tc-MAG-3 diuretic renography showed preservation of renal function without obstruction. Conclusions: Robot-assisted laparoscopic pyeloplasty can be safely performed without internal indwelling stent drainage. In children, this avoids the need for additional anesthesia and stent-related morbidity.
Gain-of-function ADAMTS13 variants that are resistant to autoantibodies against ADAMTS13 in patients with acquired thrombotic thrombocytopenic purpura
Authors: Jian Cui , Xiao Juan , Gong Lingjie , Skipwith Christopher G. , Jin Sheng-Yu , Kwaan Hau C. , Zheng X. Long 
Published: January 2012

Abstract
Thrombotic thrombocytopenic purpura (TTP) is primarily caused by immunoglobulin G (IgG) autoantibodies against A Disintegrin And Metalloprotease with ThromboSpondin type 1 repeats, 13 (ADAMTS13). Nearly all adult idiopathic TTP patients harbor IgGs, which bind the spacer domain of ADAMTS13, a region critical for recognition and proteolysis of von Willebrand factor (VWF). We hypothesize that a modification of an exosite in the spacer domain may generate ADAMTS13 variants with reduced autoantibody binding while preserving or enhancing specific activity. Site-directed mutagenesis was used to generate a series of ADAMTS13 variants, and their functional properties were assessed. Of 24 novel ADAMTS13 variants, 2 (ie, M4, R660K/F592Y/R568K/Y661F and M5, R660K/F592Y/R568K/Y661F/Y665F) exhibited increased specific activity approximately 4- to 5-fold and approximately 10- to 12-fold cleaving a peptide VWF73 substrate and multimeric VWF, respectively. More interestingly, the gain-of-function ADAMTS13 variants were more resistant to inhibition by anti-ADAMTS13 autoantibodies from patients with acquired idiopathic TTP because of reduced binding by anti-ADAMTS13 IgGs. These results shed more light on the critical role of the exosite in the spacer domain in substrate recognition. Our findings also help understand the pathogenesis of acquired autoimmune TTP. The autoantibody-resistant ADAMTS13 variants may be further developed as a novel therapeutic for acquired TTP with inhibitors.
graphite - a Bioconductor package to convert pathway topology to gene network
Authors: Sales Gabriele , Calura Enrica , Cavalieri Duccio , Romualdi Chiara 
Published: January 2012

Abstract

Background
Gene set analysis is moving towards considering pathway topology as a crucial feature. Pathway elements are complex entities such as protein complexes, gene family members and chemical compounds. The conversion of pathway topology to a gene/protein networks (where nodes are a simple element like a gene/protein) is a critical and challenging task that enables topology-based gene set analyses.
Unfortunately, currently available R/Bioconductor packages provide pathway networks only from single databases. They do not propagate signals through chemical compounds and do not differentiate between complexes and gene families.

Results
Here we present , a Bioconductor package addressing these issues. Pathway information from four different databases is interpreted following specific biologically-driven rules that allow the reconstruction of gene-gene networks taking into account protein complexes, gene families and sensibly removing chemical compounds from the final graphs. The resulting networks represent a uniform resource for pathway analyses. Indeed, graphite provides easy access to three recently proposed topological methods. The package is available as part of the Bioconductor software suite.

Conclusions
is an innovative package able to gather and make easily available the contents of the four major pathway databases. In the field of topological analysis acts as a provider of biological information by reducing the pathway complexity considering the biological meaning of the pathway elements.
Gene duplication and an accelerated evolutionary rate in 11S globulin genes are associated with higher protein synthesis in dicots as compared to monocots
Authors: Li Chun , Li Meng , Dunwell Jim M , Zhang Yuan-Ming 
Published: January 2012

Abstract

Background
Seed storage proteins are a major source of dietary protein, and the content of such proteins determines both the quantity and quality of crop yield. Significantly, examination of the protein content in the seeds of crop plants shows a distinct difference between monocots and dicots. Thus, it is expected that there are different evolutionary patterns in the genes underlying protein synthesis in the seeds of these two groups of plants.

Results
Gene duplication, evolutionary rate and positive selection of a major gene family of seed storage proteins (the 11S globulin genes), were compared in dicots and monocots. The results, obtained from five species in each group, show more gene duplications, a higher evolutionary rate and positive selections of this gene family in dicots, which are rich in 11S globulins, but not in the monocots.

Conclusion
Our findings provide evidence to support the suggestion that gene duplication and an accelerated evolutionary rate may be associated with higher protein synthesis in dicots as compared to monocots.
Xanthomonas oryzae pv oryzae triggers immediate transcriptomic modulations in rice
Authors: Grewal Rumdeep K , Gupta Sumanti , Das Sampa 
Published: January 2012

AbstractBackgroundXanthomonas oryzaepvoryzaeis a devastating pathogen of rice and has been extensively studied as a model pathogen of monocotyledons. Expressional studies in both the contenders have been undertaken in past to understand the molecular mechanism underlying the compatible and incompatible interactions in the pathosystem. Continuous update on database and gene annotations necessitates constant updating on the roles of the new entities as well as reinterpretation of regulations of the previous ones. Moreover the past endeavors have addressed the middle or late defense responses of the rice plant whereas in the present study an attempt has been made to investigate the early defense responses taking place immediately after inoculation.ResultsMicroarray was used to study the transcriptional modulations in eighteen days old rice seedling leaves of both susceptible and resistant genotypes one hour after inoculation. In resistant plants as compared to susceptible ones 274 genes were found to be differentially expressed. Annotations could be assigned to 112 up- and 73 down-regulated transcripts and gene interaction maps were generated for 86 transcripts. Expressional data and interaction maps were used to develop a hypothetical scheme of the molecular events taking place during early defense response. Network analysis with the differential transcripts showed up-regulation of major clusters of cell signaling proteins and transcription factors while growth and basal metabolic components were largely found to be down-regulated.ConclusionsThis study provides an understanding of the early defense signaling in rice cells. Components of the calcium and lipid signaling as well as MAPK cascade were modulated, by signals from surface receptors and cytosolic R-proteins, to arouse jasmonic acid and ethylene signaling and suppress auxin signaling through various transcription factors. Abscisic acid modulation was also evident through the expression regulation of transcription factors involved with its functions. Moreover adjustments in expression levels of components of primary as well as secondary metabolism, protein trafficking and turnout were apparent, highlighting the complexity of defense response.
Improvement of maternal Aboriginality in NSW birth data
Authors: Xu Fenglian , Sullivan Elizabeth A , Madden Richard C , Black Deborah , Jackson Pulver Lisa R 
Published: January 2012

Abstract

Background
The Indigenous population of Australia was estimated as 2.5% and under-reported. The aim of this study is to improve statistical ascertainment of Aboriginal women giving birth in New South Wales.

Methods
This study was based on linked birth data from the Midwives Data Collection (MDC) and the Registry of Births Deaths and Marriages (RBDM) of New South Wales (NSW). Data linkage was performed by the Centre for Health Record Linkage (CHeReL) for births in NSW for the period January 2001 to December 2005. The accuracy of maternal Aboriginal status in the MDC and RBDM was assessed by consistency, sensitivity and specificity. A new statistical variable, ASV, or Aboriginal Statistical Variable, was constructed based on Indigenous identification in both datasets. The ASV was assessed by comparing numbers and percentages of births to Aboriginal mothers with the estimates by capture-recapture analysis.

Results
Maternal Aboriginal status was under-ascertained in both the MDC and RBDM. The ASV significantly increased ascertainment of Aboriginal women giving birth and decreased the number of missing cases. The proportion of births to Aboriginal mothers in the non-registered birth group was significantly higher than in the registered group.

Conclusions
Linking birth data collections is a feasible method to improve the statistical ascertainment of Aboriginal women giving birth in NSW. This has ramifications for the ascertainment of babies of Aboriginal mothers and the targeting of appropriate services in pregnancy and early childhood.
VIP in construction: systematic development and evaluation of a multifaceted health programme aiming to improve physical activity levels and dietary patterns among construction workers
Authors: Viester Laura , Verhagen Evert ALM , Proper Karin I , van Dongen Johanna M , Bongers Paulien M , van der Beek Allard J 
Published: January 2012

AbstractBackgroundThe prevalence of both overweight and musculoskeletal disorders (MSD) in the construction industry is high. Many interventions in the occupational setting aim at the prevention and reduction of these health problems, but it is still unclear how these programmes should be designed. To determine the effectiveness of interventions on these health outcomes randomised controlled trials (RCTs) are needed. The aim of this study is to systematically develop a tailored intervention for prevention and reduction of overweight and MSD among construction workers and to describe the evaluation study regarding its (cost-)effectiveness.Methods/DesignThe Intervention Mapping (IM) protocol was applied to develop and implement a tailored programme aimed at the prevention and reduction of overweight and MSD. The (cost-) effectiveness of the intervention programme will be evaluated using an RCT. Furthermore, a process evaluation will be conducted. The research population will consist of blue collar workers of a large construction company in the Netherlands.InterventionThe intervention programme will be aimed at improving (vigorous) physical activity levels and healthy dietary behaviour and will consist of tailored information, face-to-face and telephone counselling, training instruction (a fitness "card" to be used for exercises), and materials designed for the intervention (overview of the company health promoting facilities, waist circumference measuring tape, pedometer, BMI card, calorie guide, recipes, and knowledge test).Main study parameters/endpointsThe intervention effect on body weight and waist circumference (primary outcome measures), as well as on lifestyle behaviour, MSD, fitness, CVD risk indicators, and work-related outcomes (i.e. productivity, sick leave) (secondary outcome measures) will be assessed.DiscussionThe development of the VIP in construction intervention led to a health programme tailored to the needs of construction workers. This programme, if proven effective, can be directly implemented.Trial registrationNetherlands Trial Register (NTR):NTR2095
Molecular relationship between field and vaccine strain of measles virus and its persistence in Pakistan
Authors: Shah Masaud , Shams Sulaiman , Rahman Ziaur 
Published: January 2012

AbstractBackgroundCountrywide 5.9 million, 0-11 Month old children are immunized annually by EPI (Expended Program on Immunization) against 8 vaccine preventable diseases including measles and so on. Unfortunately the basic immunity centers are not uniform throughout the country. Each center provides services to about 27000 people which is inadequate. The purpose of this study was to explore the development of EPI Pakistan in terms of immunization of measles.MethodsNucleotide sequences were analyzed by neighbor joining method (bootstrap test) using Bio- edit and MEGA-5 software to find evolutionary relationship between wild type measles strain and vaccine strain (Edmonston strain) used in Pakistan. For statistical analysis of data SPSS 16 was used.ResultsCurrently 1.3 vaccinators are working at each U C (union council) which according to national EPI policy should be at least 2. About 56% and 44% children of age 0-11 months did not received second dose of measles in the last two years respectively. Out of these 4231 cases which were reported last year, 1370 have received their first dose of measles vaccine.ConclusionSeroconversion and seroprevalence study of the vaccine and field strain of measles virus is needed to confirm whether its failure is due to service unavailability or vaccine in-affectivity.
Facile synthesis of uniform large-sized InP nanocrystal quantum dots using tris(tert-butyldimethylsilyl)phosphine
Authors: Joung SoMyoung , Yoon Sungwoo , Han Chang-Soo , Kim Youngjo , Jeong Sohee 
Published: January 2012

Abstract
Colloidal III-V semiconductor nanocrystal quantum dots [NQDs] have attracted interest because they have reduced toxicity compared with II-VI compounds. However, the study and application of III-V semiconductor nanocrystals are limited by difficulties in their synthesis. In particular, it is difficult to control nucleation because the molecular bonds in III-V semiconductors are highly covalent. A synthetic approach of InP NQDs was presented using newly synthesized organometallic phosphorus [P] precursors with different functional moieties while preserving the P-Si bond. Introducing bulky side chains in our study improved the stability while facilitating InP formation with strong confinement at a readily low temperature regime (210°C to 300°C). Further shell coating with ZnS resulted in highly luminescent core-shell materials. The design and synthesis of P precursors for high-quality InP NQDs were conducted for the first time, and we were able to control the nucleation by varying the reactivity of P precursors, therefore achieving uniform large-sized InP NQDs. This opens the way for the large-scale production of high-quality Cd-free nanocrystal quantum dots.