bluuebunny/crossref_metadata_2025_split huggingface dataset:
Why are we performing fewer cholecystectomies for mild acute biliary pancreatitis? Trends and predictors of cholecystectomy from the National Readmissions Database (2010–2014)
Authors: Garg Sushil Kumar , Bazerbachi Fateh , Sarvepalli Shashank , Majumder Shounak , Vege Shanthi Swaroop 
Published: August 2019

Abstract

Background
Current guidelines recommend cholecystectomy for patients with mild acute biliary pancreatitis (MABP) during the index admission because it is associated with better outcomes. In this study, we aimed to assess national trends in cholecystectomy during index admissions for MABP and to identify factors associated with cholecystectomy completion and 30-day readmission.

Methods
Using diagnostic codes and the National Readmissions Database, we identified patients admitted with MABP between 2010 and 2014. Differences in cholecystectomy rates were computed on the basis of various characteristics. We conducted a multivariable analysis to identify factors associated with 30-day readmission and cholecystectomy during the same admission.

Results
We identified 255,695 unique index MABP cases (41.3% male) and the 30-day readmission rate was 12.6%. Overall, 43.8% underwent cholecystectomy and 25% underwent endoscopic retrograde cholangiopancreatography (ERCP) with sphincterotomy. We observed a decreasing trend in both procedures during the study period (P < 0.001). In multivariate analysis, odds of 30-day readmission were reduced for patients undergoing ERCP with sphincterotomy (odds ratio, 0.78; 95% confidence interval, 0.74–0.84) or cholecystectomy (odds ratio, 0.37; 95% confidence interval, 0.35–0.39).

Conclusions
For patients with MABP, cholecystectomy or ERCP with sphincterotomy during the index admission decreased the risk of 30-day readmission. Despite this benefit and national guidelines recommending cholecystectomy during the index MABP admission, the rate of cholecystectomies performed nationally decreased during the study period. Further research is needed to understand the implications and reasons underlying this deviation from guidelines.
Understanding Racial/Ethnic Disparities in Physical Performance in Midlife Women: Findings From SWAN (Study of Women’s Health Across the Nation)
Authors: Sternfeld Barbara , Colvin Alicia , Stewart Andrea , Appelhans Bradley M , Cauley Jane A , Dugan Sheila A , El Khoudary Samar R , Greendale Gail A , Strotmeyer Elsa , Karvonen-Gutierrez Carrie 
Published: August 2019

Abstract

Objectives
Evaluate degree to which racial/ethnic differences in physical performance are mediated by sociodemographic, health, behavioral, and psychosocial factors.

Methods
Physical performance was evaluated using a decile score derived from grip strength, timed 4 m walk, and timed repeat chair stand in 1,855 African American, Caucasian, Chinese, Hispanic, and Japanese women, mean age = 61.8 (SD = 2.7) in the Study of Women’s Health Across the Nation. Mediators included education, financial strain, comorbidities, pain, body mass index (BMI), physical activity, and perceived stress. Structural equation models provided estimates of the total difference in physical performance between Caucasians and each race/ethnic groups and differences due to direct effects of race/ethnicity and indirect effects through mediators.

Results
The mean decile score for Caucasian women was 16.9 (SD = 5.6), 1.8, 2.6, and 2.1 points higher than the model-estimated scores in African Americans, Hispanics and Chinese, respectively, and 1.3 points lower than the Japanese. Differences between Caucasians and the Chinese and Japanese were direct effects of race/ethnicity whereas in African Americans and Hispanics 75% or more of that disparity was through mediators, particularly education, financial strain, BMI, physical activity, and pain.

Discussion
Addressing issues of poverty, racial inequality, pain, and obesity could reduce some racial/ethnic disparity in functional limitations as women age.
Diet-Induced Plasticity of Linear Static Allometry Is Not So Simple for Grasshoppers: Genotype–Environment Interaction in Ontogeny Is Masked by Convergent Growth
Authors: Thompson Daniel B 
Published: August 2019

AbstractGrasshoppers, Melanoplus sanguinipes (Orthoptera: Acrididae), develop larger head width (HW) and shorter leg length, relative to body size, when fed low nutrient, lignin-rich grasses compared to sibs fed a diet of high nutrient grasses. To elucidate how underlying genetic variation and plasticity of growth generate plasticity of this linear static allometry within coarse-grained environments, I measured head and leg size of three nymphal instars and adult grasshoppers raised on either a low or high nutrient diet within a half-sib quantitative genetic experiment. Doubly-multivariate repeated measures multiple analysis of variance (MANOVA) of head, mandible, and hind leg size and their rate of growth (mm/period) and growth period (days) through ontogeny were used to analyze how the ontogeny of diet-induced plasticity for these variables and additive genetic variation for plasticity (genotype × environment interaction [G×E]) contribute to plasticity in functional linear static allometry. Genetic variation for diet-induced plasticity (G×E) of head and leg size varied through ontogeny, as did genetic variation for plasticity of growth in third and fourth instar nymphs. Despite extensive genetic variation in plasticity of HW and leg length in fourth instar nymphs, the static allometry between head and leg was stable within each diet because the patterns of G×E were similar for HW, leg length and their coordinated growth. Nutrient sensitive plasticity in growth shifted the intercept but not the slope of static allometry, a result consistent with one outcome of a graphical model of the relationships between G× E and plasticity of within environment static allometry. In addition, G×E of fourth instar head and leg size was reduced in adults by negatively size-dependent, convergent growth in the last period of ontogeny. Consequently, the bivariate reaction norms of head and leg size for adults exhibited no G×E and, again, plasticity in the intercept but not in the slope of static allometry. The ontogeny of seemingly simple diet-induced linear static allometry between functional body parts in grasshoppers arises from a complex combination of differing patterns of nutrient-sensitive growth, duration of growth, convergent growth, and G×E, all relevant to understanding the development and evolution of functional allometry in hemimetabolous insects.
Do patients with the centrifugal flow HeartMate 3 or HeartWare left ventricular assist device have better outcomes compared to those with axial flow HeartMate II?
Authors: Florisson Daniel S , Conte Sean M , De Bono Joshua A , Newcomb Andrew E 
Published: August 2019

Abstract
A best evidence topic was written according to a structured protocol. The question addressed was ‘Do patients with centrifugal flow HeartMate 3 (HM3) or HeartWare left ventricular assist device (HVAD) have better outcomes compared to those with the axial flow HeartMate II (HMII)?’ Altogether 1791 papers were found using the reported search, of which 21 represented the best evidence to answer the clinical question. The authors, journal, date and country of publication, patient group studied, study type, relevant outcomes and results of these papers are tabulated. In publications reporting on MOMENTUM 3 randomized control trial (RCT), HM3 had better outcomes compared to HMII with a lower rate of pump thrombosis (1.1% vs 15.7%), stroke events (10.1% vs 19.2%) and ischaemic stroke (6.3% vs 13.4%) at 2-year follow-up. Markers of quality of life and functional capacity were comparable between the 2 devices at 6 months. In publications reporting on ENDURANCE RCTs, compared to HMII, patients with HVAD had poorer outcomes with an increased rate of sepsis (23.6% vs 15.4%), stroke (29.7% vs 12.1%) and right heart failure (38.5% vs 26.8%) postoperatively. Outcomes were improved for the HVAD group in a more recent RCT where strict blood pressure control was instigated postoperatively. Outcomes from retrospective studies comparing HMII with HVAD varied, with some publications reporting higher rates of right ventricular assist device use (29% vs 15%), gastrointestinal bleeding (30% vs 0%), cerebrovascular accident (44% vs 10%), transient ischaemic attack (5% vs 2%) and higher cumulative risk of infection and haemorrhagic cerebrovascular accident with HVAD. This is not consistent across these studies, and 9 studies including a systematic review reported no difference in any outcomes. In conclusion, patients with centrifugal flow HM3 have better outcomes than those with axial flow HMII. Although there is some variability in outcomes in retrospective studies, patients with centrifugal flow HeartWare HVAD have similar outcomes to those with axial flow HMII when strict blood pressure control is instigated postoperatively. By inference, centrifugal flow HM3 would appear to be the superior device, although all conclusions are based on 1 large (industry-sponsored) RCT.
Emergent spatiotemporal dynamics of the actomyosin network in the presence of chemical gradients
Authors: Miller Callie J , LaFosse Paul K , Asokan Sreeja B , Haugh Jason M , Bear James E , Elston Timothy C 
Published: August 2019

AbstractWe used particle-based computer simulations to study the emergent properties of the actomyosin cytoskeleton. Our model accounted for biophysical interactions between filamentous actin and non-muscle myosin II and was motivated by recent experiments demonstrating that spatial regulation of myosin activity is required for fibroblasts responding to spatial gradients of platelet derived growth factor (PDGF) to undergo chemotaxis. Our simulations revealed the spontaneous formation of actin asters, consistent with the punctate actin structures observed in chemotacting fibroblasts. We performed a systematic analysis of model parameters to identify biochemical steps in myosin activity that significantly affect aster formation and performed simulations in which model parameter values vary spatially to investigate how the model responds to chemical gradients. Interestingly, spatial variations in motor stiffness generated time-dependent behavior of the actomyosin network, in which actin asters continued to spontaneously form and dissociate in different regions of the gradient. Our results should serve as a guide for future experimental investigations.
Transnational Advocacy and NGOs in the Digital Era: New Forms of Networked Power
Authors: Hall Nina , Schmitz Hans Peter , Dedmon J Michael 
Published: August 2019

AbstractInternational relations (IR) scholars have recognized the importance of technology in enabling nongovernmental organizations (NGOs) to build transnational networks and enhance their influence. However, IR scholars have typically focused on elite networks across NGOs, states, and international organizations. This article considers how digital technologies generate new types of networked power between NGOs and their members. Digital tools allow for fast feedback from supporters, rapid surges in mobilization, and more decentralized campaigns. Importantly, in the digital era, NGOs must decide not only which digital platforms to use, but also whether to devolve decision-making to their supporters. Two questions arise: First, do NGO staff or supporters primarily define and produce advocacy content? Second, is the goal of digital activism to broaden or intensify participation? Answers to these questions generate four digital strategies: proselytizing, testing, conversing, and facilitating. These strategies change advocacy practices, but only facilitating strategies open up new forms of networked power based on supporter-to-supporter connections. Digital strategies have profound ramifications for individual organizations, the nature of the advocacy sector, and its power in relation to states, corporations, and other nonstate actors. Digital adoption patterns shape how NGOs choose campaigns, how they legitimate their claims, and what strategies they rely on.
Feeding a reduced protein diet with a near ideal amino acid profile improves amino acid efficiency and nitrogen utilization for milk production in sows1,2
Authors: Zhang Sai , Qiao Mu , Trottier Nathalie L 
Published: August 2019

Abstract
Fifty-four lactating multiparous Yorkshire sows were used to test the hypothesis that feeding a reduced protein diet with a near ideal AA (NIAA) profile increases the biological utilization efficiency of N and essential AA (EAA) for milk production in part as a result of reduced dietary Leu concentration. Sows were fed 1 of 3 isocaloric diets containing the following concentration of CP (% as-fed, analyzed): 18.74 (Control: CON), 13.78 (Optimal: OPT), and 14.25 (Optimal + Leu: OPTLEU). The OPT and OPTLEU diets contained the same concentration of crystalline AA (CAA) to meet requirements of the limiting AA. Crystalline Leu was added to OPTLEU to contain the same SID Leu concentration as that of CON. Sows were weighed on days 1 and 21 of lactation and piglets on days 1, 4, 8, 14, 18, and 21 of lactation. Nitrogen retention was measured for 48 or 72 h between days 4 and 8 (early) and days 14 and 18 (peak) of lactation. Sow BW change and ADFI did not differ between diets. Litter growth rate (LGR) during early lactation did not differ between diets. At peak lactation, LGR was higher in sows fed OPT compared with CON (P &lt; 0.05) and lower in sows fed OPTLEU compared with OPT (P &lt; 0.05). In early and peak lactation, total N retention, and milk N output efficiency were greater in OPT (P &lt; 0.01) and OPTLEU (P &lt; 0.05) than CON. Compared with CON, overall biological efficiency of N, Arg, His, Ile, Leu, Phe, and Trp were greater (P &lt; 0.05), whereas those of Lys, Met, Thr, and Val did not differ in sows fed OPT and OPTLEU, except for Leu which did not differ between OPTLEU and CON. Compared with OPT, only Leu and Met efficiency were lower (P &lt; 0.01) and tended to be lower (P = 0.10), respectively, in sows fed OPTLEU. Reducing CP with a NIAA profile to attain the minimum Leu requirement maintained overall lactation performance, improved utilization efficiency of N, Arg, His, Ile, Leu, Phe + Tyr, and Trp for milk production, and maximized efficiency of Ile, Leu, Lys, Met + Cys, Phe + Tyr, Thr, Trp, and Val. Addition of Leu did not reduce N and EAA utilization efficiency. This study provides revised and novel maximum biological efficiency value (MBEV) for Ile (65.4), Leu (75.1), Lys (63.2), Met + Cys (78.2), Phe + Tyr (69.5), Thr (71.0), Trp (70.1), and Val (57.0). These MBEV can be used to more accurately predict the requirement for those AA during lactation.
Trissolcus japonicus (Hymenoptera: Scelionidae) Causes Low Levels of Parasitism in Three North American Pentatomids Under Field Conditions
Authors: Milnes Joshua M , Beers Elizabeth H 
Published: August 2019

Abstract
Trissolcus japonicus (Ashmead), an Asian parasitoid of Halyomorpha halys (Stål) (Hemiptera: Pentatomidae), was first detected in North America in 2014. Although testing in quarantine facilities as a candidate for classical biological control is ongoing, adventive populations have appeared in multiple sites in the United States, Canada, and Europe. Extensive laboratory testing of T. japonicus against other North American pentatomids and H. halys has revealed a higher rate of parasitism of H. halys, but not complete host specificity. However, laboratory tests are necessarily artificial, in which many host finding and acceptance cues may be circumvented. We offered sentinel egg masses of three native pentatomid (Hemiptera: Pentatomidae) pest species (Chinavia hilaris (Say), Euschistus conspersus Uhler, and Chlorochroa ligata (Say)) in a field paired-host assay in an area with a well-established adventive population of T. japonicus near Vancouver, WA. Overall, 67% of the H. halys egg masses were parasitized by T. japonicus during the 2-yr study. Despite the ‘worst case’ scenario for a field test (close proximity of the paired egg masses), the rate of parasitism (% eggs producing adult wasps) on all three native species was significantly less (0.4–8%) than that on H. halys eggs (77%). The levels of successful parasitism of T. japonicus of the three species are C. hilaris > E. conspersus > C. ligata. The potential impact of T. japonicus on these pentatomids is probably minimal.
MicroRNA Gene Regulation in Extremely Young and Parallel Adaptive Radiations of Crater Lake Cichlid Fish
Authors: Franchini Paolo , Xiong Peiwen , Fruciano Carmelo , Schneider Ralf F , Woltering Joost M , Hulsey Christopher Darrin , Meyer Axel 
Published: August 2019

AbstractCichlid fishes provide textbook examples of explosive phenotypic diversification and sympatric speciation, thereby making them ideal systems for studying the molecular mechanisms underlying rapid lineage divergence. Despite the fact that gene regulation provides a critical link between diversification in gene function and speciation, many genomic regulatory mechanisms such as microRNAs (miRNAs) have received little attention in these rapidly diversifying groups. Therefore, we investigated the posttranscriptional regulatory role of miRNAs in the repeated sympatric divergence of Midas cichlids (Amphilophus spp.) from Nicaraguan crater lakes. Using miRNA and mRNA sequencing of embryos from five Midas species, we first identified miRNA binding sites in mRNAs and highlighted the presences of a surprising number of novel miRNAs in these adaptively radiating species. Then, through analyses of expression levels, we identified putative miRNA/gene target pairs with negatively correlated expression level that were consistent with the role of miRNA in downregulating mRNA. Furthermore, we determined that several miRNA/gene pairs show convergent expression patterns associated with the repeated benthic/limnetic sympatric species divergence implicating these miRNAs as potential molecular mechanisms underlying replicated sympatric divergence. Finally, as these candidate miRNA/gene pairs may play a central role in phenotypic diversification in these cichlids, we characterized the expression domains of selected miRNAs and their target genes via in situ hybridization, providing further evidence that miRNA regulation likely plays a role in the Midas cichlid adaptive radiation. These results provide support for the hypothesis that extremely quickly evolving miRNA regulation can contribute to rapid evolutionary divergence even in the presence of gene flow.
GEMME: A Simple and Fast Global Epistatic Model Predicting Mutational Effects
Authors: Laine Elodie , Karami Yasaman , Carbone Alessandra 
Published: August 2019

Abstract
The systematic and accurate description of protein mutational landscapes is a question of utmost importance in biology, bioengineering, and medicine. Recent progress has been achieved by leveraging on the increasing wealth of genomic data and by modeling intersite dependencies within biological sequences. However, state-of-the-art methods remain time consuming. Here, we present Global Epistatic Model for predicting Mutational Effects (GEMME) (www.lcqb.upmc.fr/GEMME), an original and fast method that predicts mutational outcomes by explicitly modeling the evolutionary history of natural sequences. This allows accounting for all positions in a sequence when estimating the effect of a given mutation. GEMME uses only a few biologically meaningful and interpretable parameters. Assessed against 50 high- and low-throughput mutational experiments, it overall performs similarly or better than existing methods. It accurately predicts the mutational landscapes of a wide range of protein families, including viral ones and, more generally, of much conserved families. Given an input alignment, it generates the full mutational landscape of a protein in a matter of minutes. It is freely available as a package and a webserver at www.lcqb.upmc.fr/GEMME/.
Ularcirc: visualization and enhanced analysis of circular RNAs via back and canonical forward splicing
Authors: Humphreys David T , Fossat Nicolas , Demuth Madeleine , Tam Patrick P L , Ho Joshua W K 
Published: August 2019

Abstract
Circular RNAs (circRNA) are a unique class of transcripts that can only be identified from sequence alignments spanning discordant junctions, commonly referred to as backsplice junctions (BSJ). Canonical splicing is also linked with circRNA biogenesis either from the parental transcript or internal to the circRNA, and is not fully utilized in circRNA software. Here we present Ularcirc, a software tool that integrates the visualization of both BSJ and forward splicing junctions and provides downstream analysis of selected circRNA candidates. Ularcirc utilizes the output of CIRI, circExplorer, or raw chimeric output of the STAR aligner and assembles BSJ count table to allow multi-sample analysis. We used Ularcirc to identify and characterize circRNA from public and in-house generated data sets and demonstrate how it can be used to (i) discover novel splicing patterns of parental transcripts, (ii) detect internal splicing patterns of circRNA, and (iii) reveal the complexity of BSJ formation. Furthermore, we identify circRNA that have potential open reading frames longer than their linear sequence. Finally, we detected and validated the presence of a novel class of circRNA generated from ApoA4 transcripts whose BSJ derive from multiple non-canonical splicing sites within coding exons. Ularcirc is accessed via https://github.com/VCCRI/Ularcirc.
Varicella Virus Vaccine Live: A 22-Year Review of Postmarketing Safety Data
Authors: Woodward Meredith , Marko Ann , Galea Susan , Eagel Barry , Straus Walter 
Published: August 2019

Abstract

Background
Varicella, a contagious infectious disease caused by varicella zoster virus (VZV), can result in hospitalization and, occasionally, death. Varicella virus vaccine live (VVVL [VARIVAX]) was introduced in the United States in 1995.

Methods
This comprehensive review of the VVVL safety profile is based on 22 years of postmarketing adverse event (AE) data received through spontaneous and noninterventional study reports submitted by health care providers and on a review of the published literature (cumulatively from March 17, 1995, through March 16, 2017, during which period &gt;212 million doses were distributed globally).

Results
The VVVL safety profile was consistent with previous publications, with common AEs including varicella, rash, and pyrexia. AE reports have decreased over time, from ~500 per million doses in 1995 to ~40 per million doses in 2016; serious AEs comprise 0.8 reports per million doses. Secondary transmission was rare (8 confirmed cases); polymerase chain reaction analysis indicated that 38 of the 66 reported potential secondary transmission cases of varicella were attributable to wild-type VZV. The prevalence of major birth defects in the Pregnancy Registry was similar to that in the general US population. In total, 86 cases of death were reported after vaccination with VVVL; immunocompromised individuals appeared to be most at risk for a fatal varicella- or herpes zoster–related outcome.

Conclusions
This comprehensive 22-year review confirms the overall safety profile for VVVL, with no new safety concerns identified. Since VVVL’s introduction in 1995, notable declines in varicella cases and in varicella-related deaths have occurred compared with the prevaccination period.