bluuebunny/crossref_metadata_2025_split huggingface dataset:
The effect of perceived streakiness on the shot‐taking behaviour of basketball players
Authors: Csapo Peter , Avugos Simcha , Raab Markus , Bar‐Eli Michael 
Published: November 2014

AbstractWe examine behavioural changes of basketball players arising from the hot‐hand belief and use data of 1216 National Basketball Association games to measure the effect of cold and hot streaks on three proxies of shot difficulty. We find that the more consecutive shots players make (miss), the more difficult (easier) shots become along the three dimensions. Furthermore, most players' performance seems to improve during hot streaks because they attempt more difficult shots while no significant decrease in shooting accuracy takes place. This might explain why most previous studies could not find empirical evidence for the hot‐hand belief in basketball when considering in‐game field goal shooting.
Sport: A Very Short Introduction
Authors: Cronin Mike 
Published: November 2014

Abstract
Sport is big business, international in nature, and the focus of much media and cultural attention. Sport: A Very Short Introduction charts the history of sport, from its traditional origins in folk football and cock fighting to its position as a global phenomenon today. Looking at a variety of sports from team games such as rugby, cricket, and football to games for individuals such as golf, tennis, and skiing, it considers how these first emerged and captivated the interest of ordinary people, and how sport has been transformed within our daily lives. This VSI also explores the relationship between sport and class, gender, commerce, identity, and ethics.
Revisiting the Supplemental Nutrition Assistance Program cycle of food intake: Investigating heterogeneity, diet quality, and a large boost in benefit amounts
Authors: Todd Jessica E. 
Published: November 2014

AbstractThe monthly cycle of daily food intake among adult participants in the Supplemental Nutrition Assistance Program is examined using data from the 2007–10 National Health and Nutrition Examination Survey. Exogenous variation in interview and benefit receipt dates provides means for identification, and a difference‐in‐differences specification is used to account for the large boost in benefits that began in April 2009 via the American Recovery and Reinvestment Act (ARRA). Caloric intake declined as much as 25% at the end of the month prior to ARRA, but not after implementation. Few differences were observed for diet quality measures or among subgroups. Increases in SNAP benefit amounts may help smooth food intake over the benefit month.
Mechanotransduction map: simulation model, molecular pathway, gene set
Authors: Dent Jennifer E. , Devescovi Valentina , Li Han , Di Lena Pietro , Lu Youtao , Liu Yuanhua , Nardini Christine 
Published: November 2014

AbstractMotivation: Mechanotransduction—the ability to output a biochemical signal from a mechanical input—is related to the initiation and progression of a broad spectrum of molecular events. Yet, the characterization of mechanotransduction lacks some of the most basic tools as, for instance, it can hardly be recognized by enrichment analysis tools, nor could we find any pathway representation. This greatly limits computational testing and hypothesis generation on mechanotransduction biological relevance and involvement in disease or physiological mechanisms.Results: We here present a molecular map of mechanotransduction, built in CellDesigner to warrant that maximum information is embedded in a compact network format. To validate the map’s necessity we tested its redundancy in comparison with existing pathways, and to estimate its sufficiency, we quantified its ability to reproduce biological events with dynamic simulations, using Signaling Petri Networks.Availability and implementation: SMBL language map is available in the Supplementary Data: core_map.xml, basic_map.xml.Contact: christine.nardini.rsrc@gmail.comSupplementary information: Supplementary data are available at Bioinformatics online.
Promiscuous mRNA splicing under the control of AIRE in medullary thymic epithelial cells
Authors: Keane Peter , Ceredig Rhodri , Seoighe Cathal 
Published: November 2014

Abstract
Motivation: The expression of tissue-restricted antigens (TRAs) in the thymus is required to ensure efficient negative selection of potentially auto-reactive T lymphocytes and avoid autoimmune disease. This promiscuous expression is under the control of the autoimmune regulator (AIRE), a transcription factor expressed in medullary thymic epithelial cells (mTECs). Tissue-specific alternative splicing may also produce TRAs but the extent to which splice isoforms that are restricted to specific tissues are expressed in mTECs is yet to be investigated.
Results: We reanalyzed microarray and RNA-Seq datasets from mouse mTECs and other epithelial and non-epithelial cell types and found that the diversity of splice isoforms in mTECs was greater than in any of the other cell types or tissues studied. We identified tissue-specific isoforms from a panel of mouse tissues and found several examples of such isoforms that are expressed in mTECs. The number of isoforms with restricted expression found in mTECs was significantly higher than for comparable cell types. Furthermore, we found evidence that AIRE influences the increased splicing diversity observed in mTECs as the genes for which tissue restricted isoforms are produced in mTECs were significantly more likely than other genes to be differentially spliced between AIRE knock-out and wild-type samples. Our results suggest that developing T lymphocytes are exposed to diverse tissue-restricted splice isoforms in the thymus and that AIRE has a direct or indirect role in this process, representing a novel aspect of its role in the maintenance of immune self-tolerance.
Contact: cathal.seoighe@nuigalway.ie
Supplementary information: Supplementary data are available at Bioinformatics online.
LuciPHOr2: site localization of generic post-translational modifications from tandem mass spectrometry data
Authors: Fermin Damian , Avtonomov Dmitry , Choi Hyungwon , Nesvizhskii Alexey I. 
Published: November 2014

Abstract
We present LuciPHOr2, a site localization tool for generic post-translational modifications (PTMs) using tandem mass spectrometry data. As an extension of the original LuciPHOr (version 1) for phosphorylation site localization, the new software provides a site-level localization score for generic PTMs and associated false discovery rate called the false localization rate. We describe several novel features such as operating system independence and reduced computation time through multiple threading. We also discuss optimal parameters for different types of data and illustrate the new tool on a human skeletal muscle dataset for lysine-acetylation.
Availability and implementation: The software is freely available on the SourceForge website http://luciphor2.sourceforge.net.
Contact: hyung_won_choi@nuhs.edu.sg, nesvi@med.umich.edu
Supplementary information: Supplementary data are available at Bioinformatics online.
Decreasing predation levels and increasing landings challenge the paradigm of non-management of North Sea brown shrimp (Crangon crangon)
Authors: Temming Axel , Hufnagl Marc 
Published: November 2014

Abstract
The North Sea brown shrimp fishery is currently regulated neither with quotas nor with effort management. The current paradigm of non-management was based on an analysis of the total predation by cod and whiting in relation to commercial catches for the period 1970–1995 and the estimated total dominance of natural mortality. However, since this period, the North Sea ecosystem has undergone pronounced changes with overfishing and climate change causing a substantial decline in predator stocks, namely cod and whiting. In addition, both predators have shifted their range of distribution causing a reduced overlap with brown shrimp. Here, we extend the previous assessment of brown shrimp predation for the years 1996–2011 using updated stock assessment and predator distribution data. For the first time, predation estimates are used together with commercial landings to partition independent estimates of total mortality into fishing and predation mortality. We demonstrate that the decline of key predators of brown shrimp in combination with a shift in the distributional range of the predators has caused a new situation, in which the fishery has become the main mortality source of adult brown shrimp (&gt;50 mm). Average landings since 2000 have been ∼40% higher than in the 1980s and 1990s, indicating that humans have at least partly taken over the share previously taken by juvenile whiting and cod. We discuss that this situation is likely to continue, because three marine mammal species have built up a combined population of over 80 000 individuals, which hunt for potential brown shrimp predators mainly in the distribution area of brown shrimp. The application of two yield-per-recruit models of different complexity indicates potential growth overfishing of brown shrimp and reopens the discussion of management.
Interactive effects of temperature and light during deep convection: a case study on growth and condition of the diatom Thalassiosira weissflogii
Authors: Walter B. , Peters J. , van Beusekom J. E. E. , St. John M. A. 
Published: November 2014

AbstractAim of this study was to expose phytoplankton to growth conditions simulating deep winter convection in the North Atlantic and thereby to assess changes in physiology enabling their survival. Growth rate, biochemical composition, and photosynthetic activity of the diatom Thalassiosira weissflogii were determined under two different light scenarios over a temperature range of 5–15°C to simulate conditions experienced by cells during winter deep convection. These metrics were examined under a low light scenario (20 µmol m−2 s−1, 12/12 h light/dark), and compared with a scenario of short light pulses of a higher light intensity (120 µmol m−2 s−1, 2/22 h light/dark). Both experimental light conditions offered the same daily light dose. No growth was observed at temperatures below 8°C. Above 8°C, growth rates were significantly higher under low light conditions compared with those of short pulsed light exposures, indicating a higher efficiency of light utilization. This could be related to (i) a higher content of Chl a per cell in the low light trial and/or (ii) a more efficient transfer of light energy into growth as indicated by constantly low carbohydrate levels. In contrast, pulsed intense light led to an accumulation of carbohydrates, which were catabolized during the longer dark period for maintaining metabolism. Light curves measured via Chl a fluorescence indicated low light assimilation for the algae exposed to short pulsed light. We postulate that our trial with short light pluses did not provide sufficient light to reach full light saturation. In general, photosynthesis was more strongly affected by temperature under pulsed light than under low light conditions. Our results indicate that model estimates of primary production in relation to deep convection, which are based on average low light conditions, not considering vertical transportation of algae will lead to an overestimation of in situ primary production.
Aggressive behaviour of spotted spiny lobsters (Panulirus guttatus) in different social contexts: the influence of sex, size, and missing limbs
Authors: Briones-Fourzán Patricia , Domínguez-Gallegos Roberto , Lozano-Álvarez Enrique 
Published: November 2014

AbstractPanulirus guttatus is a sedentary spiny lobster that exhibits cryptic behaviour and a low degree of gregariousness. Because these lobsters are obligate coral reef-dwellers and avoid sandy expanses, they are potentially distributed in relatively small, discrete populations with variable social contexts, which can strongly influence the expression of aggression. The present study examined the relative importance of sex, size, and the number of missing limbs in the shelter-related aggressive behaviour of replicated groups of four lobsters that differed in social context (i.e. same-sex and mixed-sex groups). Each group was held in a seawater tank with a single artificial cave-like shelter. The interior of the cave was video-recorded for 72 h and the number of aggressions performed by each individual was quantified in a 10-min segment of video per hour. Most aggressions were related to occupancy of the shelter inner space and tended to end when individuals were sufficiently spaced out. In general, per-capita rates of aggression were higher at night and size was an important predictor of aggressiveness among individuals of the same sex. Males were substantially more aggressive than females, but the number of missing limbs significantly impacted the degree of aggressiveness in males. In mixed-sex groups, fewer aggressions occurred when the largest individual was a male than when it was a female, suggesting that it may take longer for smaller males to assert themselves. Our results provide insights into some potential consequences of increase in fishing pressure and loss of habitat complexity in Caribbean reefs for the social behaviour and population dynamics of these lobsters.
Evaluation of the eazyplex® SuperBug CRE system for rapid detection of carbapenemases and ESBLs in clinical Enterobacteriaceae isolates recovered at two Spanish hospitals
Authors: García-Fernández Sergio , Morosini María-Isabel , Marco Francesc , Gijón Desirèe , Vergara Andrea , Vila Jordi , Ruiz-Garbajosa Patricia , Cantón Rafael 
Published: November 2014

Abstract

Objectives
To evaluate the performance of the eazyplex® SuperBug CRE system, a loop-mediated isothermal amplification (LAMP)-based system, for confirming the presence of carbapenemases in addition to CTX-M-type ESBLs in previously genotypically and/or phenotypically characterized clinical Enterobacteriaceae isolates recovered in two centres in Spain.

Methods
A collection of 94 carbapenemase-producing strains previously characterized by conventional PCR and sequencing and a total of 45 prospectively collected isolates with phenotypes compatible with the presence of a carbapenemase were tested with the eazyplex® SuperBug CRE system. In both cases, the presence of an ESBL was also assessed. Results were evaluated to establish the accuracy of this rapid LAMP-based system as well as to determine the concordance between all approaches.

Results
The eazyplex® SuperBug CRE system correctly detected bla carbapenemase genes with or without blaCTX-M genes in 100% of the molecularly characterized strains. Absolute concordance (100%) was also observed in the case of isolates with phenotypes compatible with the presence of a carbapenemase with or without an ESBL inferred by susceptibility patterns and phenotypic inhibitory profiles. Determinations performed with the eazyplex® SuperBug CRE system took 15 min.

Conclusions
The eazyplex® SuperBug CRE system proved to be a powerful tool for the detection of different carbapenemases as well as CTX-M-type ESBLs in Enterobacteriaceae with a rapid resolution time. The test has the high-performance parameters attributable to the sensitivity and specificity already demonstrated by LAMP-based assays. These results assure the usefulness of this test for routine rapid confirmation of carbapenemase-producing Enterobacteriaceae.
BreaKmer: detection of structural variation in targeted massively parallel sequencing data using kmers
Authors: Abo Ryan P. , Ducar Matthew , Garcia Elizabeth P. , Thorner Aaron R. , Rojas-Rudilla Vanesa , Lin Ling , Sholl Lynette M. , Hahn William C. , Meyerson Matthew , Lindeman Neal I. , Van Hummelen Paul , MacConaill Laura E. 
Published: November 2014

Abstract
Genomic structural variation (SV), a common hallmark of cancer, has important predictive and therapeutic implications. However, accurately detecting SV using high-throughput sequencing data remains challenging, especially for ‘targeted’ resequencing efforts. This is critically important in the clinical setting where targeted resequencing is frequently being applied to rapidly assess clinically actionable mutations in tumor biopsies in a cost-effective manner. We present BreaKmer, a novel approach that uses a ‘kmer’ strategy to assemble misaligned sequence reads for predicting insertions, deletions, inversions, tandem duplications and translocations at base-pair resolution in targeted resequencing data. Variants are predicted by realigning an assembled consensus sequence created from sequence reads that were abnormally aligned to the reference genome. Using targeted resequencing data from tumor specimens with orthogonally validated SV, non-tumor samples and whole-genome sequencing data, BreaKmer had a 97.4% overall sensitivity for known events and predicted 17 positively validated, novel variants. Relative to four publically available algorithms, BreaKmer detected SV with increased sensitivity and limited calls in non-tumor samples, key features for variant analysis of tumor specimens in both the clinical and research settings.
Do Markets Erode Social Responsibility? *
Authors: Bartling Björn , Weber Roberto A. , Yao Lan 
Published: November 2014

AbstractThis article studies socially responsible behavior in markets. We develop a laboratory product market in which low-cost production creates a negative externality for third parties, but where alternative production with higher costs mitigates the externality. Our first study, conducted in Switzerland, reveals a persistent preference among many consumers and firms for avoiding negative social impact in the market, reflected both in the composition of product types and in a price premium for socially responsible products. Socially responsible behavior is generally robust to varying market characteristics, such as increased seller competition and limited consumer information, and it responds to prices in a manner consistent with a model in which positive social impact is a utility-enhancing feature of a consumer product. In a second study, we investigate whether market social responsibility varies across societies by comparing market behavior in Switzerland and China. While subjects in Switzerland and China do not differ in their degree of social concern in nonmarket contexts, we find that low-cost production that creates negative externalities is significantly more prevalent in markets in China. Across both studies, consumers in markets exhibit less social concern than subjects in a comparable individual choice context.
Very Long-Run Discount Rates *
Authors: Giglio Stefano , Maggiori Matteo , Stroebel Johannes 
Published: November 2014

AbstractWe estimate how households trade off immediate costs and uncertain future benefits that occur in the very long run, 100 or more years away. We exploit a unique feature of housing markets in the United Kingdom and Singapore, where residential property ownership takes the form of either leaseholds or freeholds. Leaseholds are temporary, prepaid, and tradable ownership contracts with maturities between 99 and 999 years, while freeholds are perpetual ownership contracts. The price difference between leaseholds and freeholds reflects the present value of perpetual rental income starting at leasehold expiration, and is thus informative about very long-run discount rates. We estimate the price discounts for varying leasehold maturities compared to freeholds and extremely long-run leaseholds via hedonic regressions using proprietary data sets of the universe of transactions in each country. Households discount very long-run cash flows at low rates, assigning high present value to cash flows hundreds of years in the future. For example, 100-year leaseholds are valued at more than 10% less than otherwise identical freeholds, implying discount rates below 2.6% for 100-year claims.
Regulating Consumer Financial Products: Evidence from Credit Cards
*
Authors: Agarwal Sumit , Chomsisengphet Souphala , Mahoney Neale , Stroebel Johannes 
Published: November 2014

Abstract
We analyze the effectiveness of consumer financial regulation by considering the 2009 Credit Card Accountability Responsibility and Disclosure (CARD) Act. We use a panel data set covering 160 million credit card accounts and a difference-in-differences research design that compares changes in outcomes over time for consumer credit cards, which were subject to the regulations, to changes for small business credit cards, which the law did not cover. We estimate that regulatory limits on credit card fees reduced overall borrowing costs by an annualized 1.6% of average daily balances, with a decline of more than 5.3% for consumers with FICO scores below 660. We find no evidence of an offsetting increase in interest charges or a reduction in the volume of credit. Taken together, we estimate that the CARD Act saved consumers $11.9 billion a year. We also analyze a nudge that disclosed the interest savings from paying off balances in 36 months rather than making minimum payments. We detect a small increase in the share of accounts making the 36-month payment value but no evidence of a change in overall payments.
Incidence of Intraoperative Hypersensitivity Reactions: A Registry Analysis
Authors: Saager Leif , Turan Alparslan , Egan Cameron , Mascha Edward J. , Kurz Andrea , Bauer Maria , Besson Hervé , Sessler Daniel I. , Hesler Brian D. 
Published: November 2014

AbstractAbstract
A novel methodology combining electronic search strategies and clinical adjudication was used to identify occurrences of hypersensitivity reactions. The overall incidence of hypersensitivity reactions identified from the electronic records of 178,746 procedures performed on 120,242 patients was 1 in 677 and that of anaphylaxis was 1 in 4,583. The incidence of anaphylaxis was similar to that reported in previous studies but that of hypersensitivity reactions was nearly seven times higher.

Background:
Previously reported incidences for intraoperative hypersensitivity reactions vary more than 15-fold. The goal was to determine the incidence of intraoperative hypersensitivity events at a U.S. surgical center.

Methods:
With institutional review board (Cleveland, Ohio) approval and waiver of written/informed consent, the anesthesia records of adult patients undergoing noncardiac surgery from 2005 to 2011 at the Cleveland Clinic were queried using a novel electronic search protocol developed to identify potential hypersensitivity reactions: cardiovascular collapse defined as systolic arterial blood pressure less than 50 mmHg; administration of epinephrine; administration of diphenhydramine; physician comments in the anesthesia record suggestive of hypersensitivity reactions; laboratory tests for histamine, tryptase, or immunoglobulin-E within 24 h of surgery; and International Classification of Diseases, Ninth Revision, codes suggestive of hypersensitivity reactions. Each electronically identified candidate chart was evaluated by an adjudication committee. Hypersensitivity reactions were graded on a 5-point severity scale. From these data, the authors determined the proportion of operations having adjudicated hypersensitivity reactions, and calculated the 95% exact binomial CI.

Results:
Among 178,746 records, 4,008 charts were identified by the search strategies. After adjudication, 264 hypersensitivity cases were identified. The overall incidence of hypersensitivity reactions was 1:677 surgeries, corresponding to 15 (95% CI, 13 to 17) cases per 10,000 operations. The incidence of severe hypersensitivity reactions (grades 3 to 5) was 1:4,583, corresponding to 2 (95% CI, 2 to 3) cases per 10,000 operations.

Conclusions:
The incidence of severe hypersensitivity reactions was similar to previous reports. However, the overall incidence of hypersensitivity reactions was much greater than reported elsewhere, possibly because of a comprehensive search strategy.