bluuebunny/crossref_metadata_2025_split huggingface dataset:
Intimal Surface Suture Line (End-Product) Assessment of End-to-Side Microvascular Anastomosis
Authors: Pafitanis Georgios , Veljanoski Damjan , Ghanem Ali M. , Myers Simon 
Published: July 2017

Summary:
Microsurgery simulation courses increasingly use assessment methodologies to evaluate the quality of microvascular anastomosis and to provide constructive feedback in competency-based training. Assessment tools evaluating the “journey” of skill acquisition in anastomosis have evolved, including global rating scores, hand motion analysis, and evaluation of the final outcome, that is, “end-product” assessment. Anastomotic patency is the gold standard end-product in clinical microvascular surgery, and in vivo end-to-side anastomosis, which can be confirmed using the Acland-test. Microsurgery simulation training is moving to include nonliving models, where possible, according to the principles of the replacement, reduction, and refinement of the use of animals in research. While a standardized end-product assessment tool for nonliving end-to-end anastomosis exists, there is no similar tool for end-to-side anastomosis. Intimal surface suture line assessment is an error list-based tool, which involves exposing the intimal surface of a vessel and analysis of the quality of suture placement. Errors in end-to side anastomosis were classified according to the potential clinical significance (high, medium, or low) perceived by the senior authors. Intimal surface suture line assessment provides constructive feedback during microsurgery training, helping to minimize technical errors, which are likely to impact on the final outcome in a clinical environment. Intimal surface suture line assessment lends itself to nonliving simulation training courses as an end-product self-assessment tool, especially during the early learning curve, to demonstrate progression. It has intraoperative relevance by assessment of the intimal surface suture line as the final sutures are placed in an end-to-side anastomosis to provide objective feedback to trainees in relation to likely physiological anastomotic outcome.
Trunk Side Strain Has a High Incidence in First-Class Cricket Fast Bowlers in Australia and England
Authors: Nealon Andrew R. , Cook Jill L. 
Published: July 2017

Objective:
To investigate the past incidence of side strain injury and its associated factors in first-class cricket fast bowlers in Australia and England.

Design:
Retrospective case series.

Setting:
Professional cricket.

Participants:
Cricket fast bowlers who were professionally contracted full time at first-class level in Australia and England in 2011. All bowlers were male and aged 18 or older. A bowler was defined as a fast bowler if the wicketkeeper would take their stance back from the stumps. There were 207 participants.

Interventions:
Not applicable.

Main Outcome Measures:
The association between bowling arm, player height, active trunk lateral flexion range of motion, side bridge endurance, volume of first-class cricket played, and the history of injury was determined.

Results:
Over half of the bowlers had sustained at least 1 side strain in their career. Seventy-seven percent of primary injuries occurred in bowlers aged 24 or under. A higher proportion of injured bowlers had reached first-class volume in their career. Recurrence occurred in 30% of bowlers, with over 30% of these bowlers sustaining at least 1 further recurrence. Nearly half of all recurrences occurred within 2 years with a further quarter in the next year. The injury was not associated with any measured factors.

Conclusions:
Side strain is a common injury among first-class cricket fast bowlers, especially at younger ages. It was associated with the volume of first-class cricket played. Recurrence was common and occurred most frequently in the first 2 years after primary injury.
Strengths, Limitations, and Geographical Discrepancies in the Eligibility Criteria for Sport Participation in Young Patients With Congenital Heart Disease
Authors: Cantinotti Massimiliano , Giordano Raffaele , Assanta Nadia , Murzi Bruno , Melo Manuel , Franchi Eliana , Crocetti Maura , Iervasi Giorgio , Kutty Shelby 
Published: July 2017

Objective:
Benefits of physical activity has been shown in children with congenital heart disease (CHD). In several forms of CHD, the risk of sudden death remains a major concern both for parents and clinicians, who in turn will have to consider the risk–benefit ratio of sport participation versus restriction.

Data source:
A literature search was performed within the National Library of Medicine using the keywords: Sport, CHD, and Eligibility. The search was further refined by adding the keywords: Children, Adult, and Criteria.

Main Results:
Fifteen published studies evaluating sport eligibility criteria in CHD were included. Seven documents from various scientific societies have been published in the past decade but which of them should be adopted remains unclear. Our research highlighted accuracy and consistency of the latest documents; however, differences have emerged between the US and European recommendations. Eligibility criteria were consistent between countries for simple congenital heart defects, whereas there are discrepancies for borderline conditions including moderate valvular lesions and mild or moderate residual defects after CHD repair. Furthermore, some of the more severe defects were not evaluated. Multiple recommendations have been made for the same CHD, and cut-off values used to define disease severity have varied. Published eligibility criteria have mainly focused on competitive sports. Little attention was paid to recreational activities, and the psychosocial consequences of activity restriction were seldom evaluated.

Conclusions:
Comprehensive consensus recommendations for sport eligibility evaluating all CHD types and stages of repair are needed. These should include competitive and recreational activities, use standardized classifications to grade disease severity, and address the consequences of restriction.
Reductions in Readmission Rates Are Associated With Modest Improvements in Patient-reported Health Gains Following Hip and Knee Replacement in England
Authors: Friebel Rocco , Dharmarajan Kumar , Krumholz Harlan M. , Steventon Adam 
Published: July 2017

Background:
Although many hospital readmission reduction initiatives have been introduced globally, health care systems ultimately aim to improve patients’ health and well-being. We examined whether the hospitals that report greater success in reducing readmissions also see greater improvements in patient-reported outcomes.

Research Design:
We examined hospital groups (Trusts) that provided hip replacement or knee replacement surgery in England between April 2010 and February 2013. For each Trust, we calculated risk-adjusted 30-day readmission rates from administrative datasets. We also obtained changes in patient-reported health between presurgical assessment and 6-month follow-up, using general health EuroQuol five dimensions questionaire (EQ-5D) and EuroQuol visual analogue scales (EQ-VAS) and procedure-specific (Oxford Hip and Knee Scores) measures. Panel models were used to assess whether changes over time in risk-adjusted readmission rates were associated with changes over time in risk-adjusted health gains.

Results:
Each percentage point reduction in the risk-adjusted readmission rate for hip replacement was associated with an additional health gain of 0.004 for EQ-5D [95% confidence interval (CI), 0.002–0.006], 0.39 for EQ-VAS (95% CI, 0.26–0.52), and 0.32 for Oxford Hip Score (95% CI, 0.15–0.27). Corresponding figures for knee replacement were 0.003 for EQ-5D (95% CI, 0.001–0.004), 0.21 for EQ-VAS (95% CI, 0.12–0.30), and 0.14 in the Oxford Knee Score (95% CI, 0.09–0.20).

Conclusions:
Reductions in readmission rates were associated with modest improvements in patients’ sense of their health and well-being at the hospital group level. In particular, fears that efforts to reduce readmission rates have had unintended consequences for patients appear to be unfounded.
Postoperative Delirium as a Target for Surgical Quality Improvement
Authors: Berian Julia R. , Zhou Lynn , Russell Marcia M. , Hornor Melissa A. , Cohen Mark E. , Finlayson Emily , Ko Clifford Y. , Rosenthal Ronnie A. , Robinson Thomas N. 
Published: July 2017

Objective:
To explore hospital-level variation in postoperative delirium using a multi-institutional data source.

Background:
Postoperative delirium is closely related to serious morbidity, disability, and death in older adults. Yet, surgeons and hospitals rarely measure delirium rates, which limits quality improvement efforts.

Methods:
The American College of Surgeons National Surgical Quality Improvement Program (ACS NSQIP) Geriatric Surgery Pilot (2014 to 2015) collects geriatric-specific variables, including postoperative delirium using a standardized definition. Hierarchical logistic regression models, adjusted for case mix [Current Procedural Terminology (CPT) code] and patient risk factors, yielded risk-adjusted and smoothed odds ratios (ORs) for hospital performance. Model performance was assessed with Hosmer-Lemeshow (HL) statistic and c-statistics, and compared across surgical specialties.

Results:
Twenty thousand two hundred twelve older adults (≥65 years) underwent inpatient operations at 30 hospitals. Postoperative delirium occurred in 2427 patients (12.0%) with variation across specialties, from 4.7% in gynecology to 13.7% in cardiothoracic surgery. Hierarchical modeling with 20 risk factors (HL = 9.423, P = 0.31; c-statistic 0.86) identified 13 hospitals as statistical outliers (5 good, 8 poor performers). Per hospital, the median risk-adjusted delirium rate was 10.4% (range 3.2% to 27.5%). Operation-specific risk and preoperative cognitive impairment (OR 2.9, 95% confidence interval 2.5–3.5) were the strongest predictors. The model performed well across surgical specialties (orthopedic, general surgery, and vascular surgery).

Conclusion:
Rates of postoperative delirium varied 8.5-fold across hospitals, and can feasibly be measured in surgical quality datasets. The model performed well with 10 to 12 variables and demonstrated applicability across surgical specialties. Such efforts are critical to better tailor quality improvement to older surgical patients.
Organ Preservation in cT2N0 Rectal Cancer After Neoadjuvant Chemoradiation Therapy
Authors: Habr-Gama Angelita , São Julião Guilherme Pagin , Vailati Bruna Borba , Sabbaga Jorge , Aguilar Patricia Bailão , Fernandez Laura Melina , Araújo Sergio Eduardo Alonso , Perez Rodrigo Oliva 
Published: July 2017

Objective:
To demonstrate the difference in organ-preservation rates and avoidance of definitive surgery among cT2N0 rectal cancer patients undergoing 2 different chemoradiation (CRT) regimens.

Background:
Patients with cT2N0 rectal cancer are more likely to develop complete response to neoadjuvant CRT. Organ preservation has been considered an alternative treatment strategy for selected patients. Radiation dose-escalation and consolidation chemotherapy have been associated with increased rates of response and may improve chances of organ preservation among these patients.

Methods:
Patients with distal and nonmetastatic cT2N0 rectal cancer managed by neoadjuvant CRT were retrospectively reviewed. Patients undergoing standard CRT (50.4 Gy and 2 cycles of 5-FU-based chemotherapy) were compared with those undergoing extended CRT (54 Gy and 6 cycles of 5-FU-based chemotherapy). Patients were assessed for tumor response at 8 to 10 weeks. Patients with complete clinical response (cCR) underwent organ-preservation strategy (“Watch and Wait”). Patients were referred to salvage surgery in the event of local recurrence during follow-up.

Results:
Thirty-five patients underwent standard and 46 patients extended CRT. Patients undergoing extended CRT were more likely to undergo organ preservation and avoid definitive surgical resection at 5years (67% vs 30%; P = 0.001). After development of a cCR, surgery-free survival is similar between extended and standard CRT groups at 5 years (78% vs 56%; P = 0.12).

Conclusions:
Dose-escalation and consolidation chemotherapy leads to increased long-term organ-preservation rates among cT2N0 rectal cancer. After achievement of a cCR, the risk for local recurrence and need for salvage surgery is similar, irrespective of the CRT regimen.
On the hydrogen activation by frustrated Lewis pairs in the solid state: benchmark studies and theoretical insights
Authors: Liu Lei , Brandenburg Jan Gerit , Grimme Stefan 
Published: July 2017

Recently, the concept of small molecule activation by frustrated Lewis pairs (FLPs) has been expanded to the solid state showing a variety of interesting reactivities. Therefore, there is a need to establish a computational protocol to investigate such systems theoretically. In the present study, we selected several FLPs and applied multiple levels of theory, ranging from a semi-empirical tight-binding Hamiltonian to dispersion corrected hybrid density functionals. Their performance is benchmarked for the computation of crystal geometries, thermostatistical contributions, and reaction energies. We show that the computationally efficient HF-3c method gives accurate crystal structures and is numerically stable and sufficiently fast for routine applications. This method also gives reliable values for the thermostatistical contributions to Gibbs free energies. The meta-generalized gradient approximated TPSS-D3 evaluated in a projector augmented plane wave basis set is able to produce sufficiently accurate reaction electronic energies. The established protocol is intended to support experimental studies and to predict new reactions in the emerging field of solid-state FLPs.
This article is part of the themed issue ‘Frustrated Lewis pair chemistry’.
Correcting for batch effects in case-control microbiome studies
Authors: Gibbons Sean M. , Duvallet Claire , Alm Eric J. 
Published: July 2017

AbstractHigh-throughput data generation platforms, like mass-spectrometry, microarrays, and second-generation sequencing are susceptible to batch effects due to run-to-run variation in reagents, equipment, protocols, or personnel. Currently, batch correction methods are not commonly applied to microbiome sequencing datasets. In this paper, we compare different batch-correction methods applied to microbiome case-control studies. We introduce a model-free normalization procedure where features (i.e. bacterial taxa) in case samples are converted to percentiles of the equivalent features in control samples within a study prior to pooling data across studies. We look at how this percentile-normalization method compares to traditional meta-analysis methods for combining independent p-values and to limma and ComBat, widely used batch-correction models developed for RNA microarray data. Overall, we show that percentile-normalization is a simple, non-parametric approach for correcting batch effects and improving sensitivity in case-control meta-analyses.Author SummaryBatch effects are obstacles to comparing results across studies. Traditional meta-analysis techniques for combining p-values from independent studies, like Fisher’s method, are effective but statistically conservative. If batch-effects can be corrected, then statistical tests can be performed on data pooled across studies, increasing sensitivity to detect differences between treatment groups. Here, we show how a simple, model-free approach corrects for batch effects in case-control microbiome datasets.
Grid-based computational methods for the design of constraint-based parsimonious chemical reaction networks to simulate metabolite production: GridProd
Authors: Tamura Takeyuki 
Published: July 2017

AbstractConstraint-based metabolic flux analysis of knockout strategies is an efficient method to simulate the production of useful metabolites in microbes. Owing to the recent development of technologies for artificial DNA synthesis, it may become important in the near future to mathematically design minimum metabolic networks to simulate metabolite production. Accordingly, we have developed a computational method where parsimonious metabolic flux distribution is computed for designated constraints on growth and production rates which are represented by grids. When the growth rate of this obtained parsimonious metabolic network is maximized, higher production rates compared to those noted using existing methods are observed for many target metabolites. The set of reactions used in this parsimonious flux distribution consists of reactions included in the original genome scale model iAF1260. The computational experiments show that the grid size affects the obtained production rates. Under the conditions that the growth rate is maximized and the minimum cases of flux variability analysis are considered, the developed method produced more than 90% of metabolites, while the existing methods produced less than 50%. Mathematical explanations using examples are provided to demonstrate potential reasons for the ability of the proposed algorithm to identify design strategies that the existing methods could not identify. The source code is freely available, and is implemented in MATLAB and COBRA toolbox.Author summaryMetabolic networks represent the relationships between biochemical reactions and compounds in living cells. By computationally modifying a given metabolic network of microbes, we can simulate the effect of knockouts and estimate the production of valuable metabolites. A common mathematical model of metabolic networks is the constraint-based flux model. In constraint-based flux balance analysis, a pseudo-steady state is assumed to predict the metabolic profile where the sum of all incoming fluxes is equal to the sum of all outgoing fluxes for each internal metabolite. Based on these constraints, the biomass objective function, written as a linear combination of fluxes, is maximized. In this study, we developed an efficient method for computing the design of minimum metabolic networks by using constraint-based flux balance analysis to simulate the production of useful metabolites.
Estimating Muricid abundances from trapping methods used in Mediterranean Tyrian Purple industry
Authors: Coston-Guarini J , Guarini JM , Boehm Frederike Ricarda , Kerkhove Thomas R. H. , Rivera Frances Camille , Erzini Karim , Charles François , Deprez Tim , Chauvaud Laurent 
Published: July 2017

AbstractA new statistical method based on a stochastic dynamic model is proposed to assess population abundances of murcid species at scales relevant to both Ancient and Modern artisanal, coastal fisheries. Motivated by the long-term goal of reconstructing the dynamics of exploited murex populations during Antiquity, the objective was to quantify the population density of the banded-dye murex,Hexaplex trunculus(Linnaeus, 1758) from successive captures with baited traps, using a method similar to the technique employed in the Mediterranean purple dye industry. A stochastic model simulating cumulative captures while taking into account high variability was developed and calibrated with data acquired during a field experiment conducted on Crete Island, near Heraklion. Sampling devices were deployed in two shallow water habitats. The traps’ catchability and the Effective Area of Attraction were estimated using the individual speed and behavioural response toward the bait observed during independent laboratory experiments. The average density ofH. trunculuswas estimated at 2.2 ± 1.4 SE individuals per square meter, with no significant differences between seagrass and rocky habitats, respectively. The clearing time (the time to catch all individuals within reach of the trap) of the successive experiments was 84 ± 6 SE hours, on average. This means that clearingca. 0.4 ha of subtidal area would be necessary to produceca. 1.0 g of pure dye pigment. While the method is discussed here with respect to a particular historical context, it is generalizable to making population abundance estimates for other species such as whelks, in modern fisheries.
Best Practice Data Life Cycle Approaches for the Life Sciences
Authors: Griffin Philippa C. , Khadake Jyoti , LeMay Kate S. , Lewis Suzanna E. , Orchard Sandra , Pask Andrew , Pope Bernard , Roessner Ute , Russell Keith , Seemann Torsten , Treloar Andrew , Tyagi Sonika , Christiansen Jeffrey H. , Dayalan Saravanan , Gladman Simon , Hangartner Sandra B. , Hayden Helen L. , Ho William W. H. , Keeble-Gagnère Gabriel , Korhonen Pasi K. , Neish Peter , Prestes Priscilla R. , Richardson Mark F. , Watson-Haigh Nathan S. , Wyres Kelly L. , Young Neil D. , Schneider Maria Victoria 
Published: July 2017

AbstractThroughout history, the life sciences have been revolutionised by technological advances; in our era this is manifested by advances in instrumentation for data generation, and consequently researchers now routinely handle large amounts of heterogeneous data in digital formats. The simultaneous transitions towards biology as a data science and towards a ‘life cycle’ view of research data pose new challenges. Researchers face a bewildering landscape of data management requirements, recommendations and regulations, without necessarily being able to access data management training or possessing a clear understanding of practical approaches that can assist in data management in their particular research domain.Here we provide an overview of best practice data life cycle approaches for researchers in the life sciences/bioinformatics space with a particular focus on ‘omics’ datasets and computer-based data processing and analysis. We discuss the different stages of the data life cycle and provide practical suggestions for useful tools and resources to improve data management practices.