bluuebunny/crossref_metadata_2025_split huggingface dataset:
Long-term follow-up analysis of a highly characterized arrhythmogenic cardiomyopathy cohort with classical and non-classical phenotypes–a real-world assessment of a novel prediction model: does the subtype really matter
Authors: Casella Michela , Gasperetti Alessio , Gaetano Fassini , Busana Mattia , Sommariva Elena , Catto Valentina , Sicuso Rita , Rizzo Stefania , Conte Edoardo , Mushtaq Saima , Andreini Daniele , Di Biase Luigi , Carbucicchio Corrado , Natale Andrea , Basso Cristina , Tondo Claudio , Dello Russo Antonio 
Published: December 2019

Abstract

Aims
To provide long-term outcome data on arrhythmogenic cardiomyopathy (ACM) patients with non-classical forms [left dominant ACM (LD-ACM) and biventricular ACM (Bi-ACM)] and an external validation of a recently proposed algorithm for ventricular arrhythmia (VA) prediction in ACM patients.

Methods and results
Demographic, clinical, and outcome data were retrieved from all ACM patients encountered at our institution. Patients were classified according to disease phenotype (R-ACM; Bi-ACM; LD-ACM). Overall and by phenotype long-term survival were calculated; the novel Cadrin-Tourigny et al. algorithm was used to calculate the a priori predicted VA risk, and it was compared with the observed outcome to test its reliability. One hundred and one patients were enrolled; three subgroups were defined (R-ACM, n = 68; Bi-ACM, n = 14; LD-ACM, n = 19). Over a median of 5.41 (2.59–8.37) years, the non-classical form cohort experienced higher rates of VAs than the classical form [5-year freedom from VAs: 0.58 (0.43–0.78) vs. 0.76 (0.66–0.89), P = 0.04]. The Cadrin-Tourigny et al. predictive model adequately described the overall cohort risk [mean observed-predicted risk difference (O-PRD): +6.7 (−4.3, +17.7) %, P = 0.19]; strafing by subgroup, excellent goodness-of-fit was demonstrated for the R-ACM subgroup (mean O-PRD, P = 0.99), while in the Bi-ACM and LD-ACM ones the real observed risk appeared to be underestimated [mean O-PRD: −20.0 (−1.1, −38.9) %, P &lt; 0.0001; −22.6 (−7.8, −37.5) %, P &lt; 0.0001, respectively].

Conclusion
Non-classical ACM forms appear more prone to VAs than classical forms. The novel prediction model effectively predicted arrhythmic risk in the classical R-ACM cohort, but seemed to underestimate it in non-classical forms.
Anaplerotic reactions active during growth of Saccharomyces cerevisiae on glycerol
Authors: Xiberras Joeline , Klein Mathias , Prosch Celina , Malubhoy Zahabiya , Nevoigt Elke 
Published: December 2019

ABSTRACT
Anaplerotic reactions replenish TCA cycle intermediates during growth. In Saccharomyces cerevisiae, pyruvate carboxylase and the glyoxylate cycle have been experimentally identified to be the main anaplerotic routes during growth on glucose (C6) and ethanol (C2), respectively. The current study investigates the importance of the two isoenzymes of pyruvate carboxylase (PYC1 and PYC2) and one of the key enzymes of the glyoxylate cycle (ICL1) for growth on glycerol (C3) as a sole carbon source. As the wild-type strains of the CEN.PK family are unable to grow in pure synthetic glycerol medium, a reverse engineered derivative showing a maximum specific growth rate of 0.14 h−1 was used as the reference strain. While the deletion of PYC1 reduced the maximum specific growth rate by about 38%, the deletion of PYC2 had no significant impact, neither in the reference strain nor in the pyc1Δ mutant. The deletion of ICL1 only marginally reduced growth of the reference strain but further decreased the growth rate of the pyc1 deletion strain by 20%. Interestingly, the triple deletion (pyc1Δ pyc2Δ icl1Δ) did not show any growth. Therefore, both the pyruvate carboxylase and the glyoxylate cycle are involved in anaplerosis during growth on glycerol.
Yoga, Health-Related Quality of Life and Mental Well-Being: A Re-analysis of a Meta-analysis Using the Quality Effects Model
Authors: Kelley George A , Kelley Kristi S 
Published: December 2019

Abstract

Background
Provide robust and practically relevant information regarding the association between yoga, health-related quality-of-life (HRQOL), and mental well-being (MWB) in older adults.

Methods
Data were derived from a recent meta-analysis of 12 randomized controlled yoga trials representing 752 adults ≥60 years of age. Standardized mean difference effect sizes (ESs) were pooled using the recently developed quality effects model and 95% compatibility intervals (CI). Small-study effects were examined using the Doi plot and Luis Furuya-Kanamori (LFK) index. Sensitivity and cumulative meta-analyses were conducted as well as percentile improvement, number needed to treat (NNT), and number to benefit. The grading of recommendations assessment, development, and evaluation (GRADE) instrument was used to assess the strength of the evidence.

Results
Yoga was associated with improvements in both HRQOL (ES = 0.51, 95% CI, 0.25–0.77, I2 = 63.1%) and MWB (ES = 0.39, 95% CI, 0.15–0.63, I2 =56.2%). Percentile improvements were 19.5 for HRQOL and 15.3 for MWB whereas the NNT was 4 for HRQOL and 5 for MWB. An estimated 378,222 and 302,578 U.S. yoga-practicing adults ≥65 years of age could potentially improve their HRQOL and MWB, respectively. Major asymmetry suggestive of small-study effects was observed for MWB but not HRQOL. Further examination for asymmetry revealed that greater improvements in MWB were associated with more (151 vs. 68) minutes of yoga per week (p = .007). Overall strength of evidence was considered “high” for HRQOL and “moderate” for MWB.

Conclusions
Yoga is associated with improvements in HRQOL and MWB among older adults, with approximately 150 minutes or more per week possibly optimal.
Accessible and reproducible mass spectrometry imaging data analysis in Galaxy
Authors: Föll Melanie Christine , Moritz Lennart , Wollmann Thomas , Stillger Maren Nicole , Vockert Niklas , Werner Martin , Bronsert Peter , Rohr Karl , Grüning Björn Andreas , Schilling Oliver 
Published: December 2019

Abstract

Background
Mass spectrometry imaging is increasingly used in biological and translational research because it has the ability to determine the spatial distribution of hundreds of analytes in a sample. Being at the interface of proteomics/metabolomics and imaging, the acquired datasets are large and complex and often analyzed with proprietary software or in-house scripts, which hinders reproducibility. Open source software solutions that enable reproducible data analysis often require programming skills and are therefore not accessible to many mass spectrometry imaging (MSI) researchers.

Findings
We have integrated 18 dedicated mass spectrometry imaging tools into the Galaxy framework to allow accessible, reproducible, and transparent data analysis. Our tools are based on Cardinal, MALDIquant, and scikit-image and enable all major MSI analysis steps such as quality control, visualization, preprocessing, statistical analysis, and image co-registration. Furthermore, we created hands-on training material for use cases in proteomics and metabolomics. To demonstrate the utility of our tools, we re-analyzed a publicly available N-linked glycan imaging dataset. By providing the entire analysis history online, we highlight how the Galaxy framework fosters transparent and reproducible research.

Conclusion
The Galaxy framework has emerged as a powerful analysis platform for the analysis of MSI data with ease of use and access, together with high levels of reproducibility and transparency.
A Dignified Death for All: How a Relational Conceptualisation of Dignity Strengthens the Case for Legalising Assisted Dying in England and Wales
Authors: Reichstein Angelika 
Published: December 2019

Abstract
Criminalising assisted dying is irreconcilable with human dignity and condemns a small number of individuals to significant suffering. Human rights law requires the protection of privacy, but States are given some flexibility in terms of balancing the right to respect for private life with the need to safeguard life itself. The recurring cases of suffering individuals who seek legal recognition of a right to die demonstrate the need for legal change to make the law more compassionate. After introducing conflicting definitions of dignity and the human rights conflict behind a right to die, this article engages with a new idea, which strengthens the claim for the legalisation of assisted dying: relational dignity. While the permissibility of assistance to die is a global issue, this article will specifically focus on England and Wales.
Self-Contracted Curves in Spaces With Weak Lower Curvature Bound
Authors: Lebedeva Nina , Ohta Shin-ichi , Zolotov Vladimir 
Published: December 2019

Abstract
We show that bounded self-contracted curves are rectifiable in metric spaces with weak lower curvature bound in a sense we introduce in this article. This class of spaces is wide and includes, for example, finite-dimensional Alexandrov spaces of curvature bounded below and Berwald spaces of nonnegative flag curvature. (To be more precise, our condition is regarded as a strengthened doubling condition and holds also for a certain class of metric spaces with upper curvature bound.) We also provide the non-embeddability of large snowflakes into (balls in) metric spaces in the same class. We follow the strategy of the last author’s previous paper based on the small rough angle condition, where spaces with upper curvature bound are considered. Here we apply this strategy to spaces with lower curvature bound.
Endofunctors and Poincaré–Birkhoff–Witt Theorems
Authors: Dotsenko Vladimir , Tamaroff Pedro 
Published: December 2019

AbstractWe determine what appears to be the bare-bones categorical framework for Poincaré–Birkhoff–Witt (PBW)-type theorems about universal enveloping algebras of various algebraic structures. Our language is that of endofunctors; we establish that a natural transformation of monads enjoys a PBW property only if that transformation makes its codomain a free right module over its domain. We conclude with a number of applications to show how this unified approach proves various old and new PBW-type theorems. In particular, we prove a PBW-type result for universal enveloping dendriform algebras of pre-Lie algebras, answering a question of Loday.
Pharmacokinetic profile and safety of adjusted doses of darunavir/ritonavir with rifampicin in people living with HIV
Authors: Ebrahim Ismaeel , Maartens Gary , Wiesner Lubbe , Orrell Catherine , Smythe Wynand , McIlleron Helen 
Published: December 2019

Abstract

Background
Darunavir/ritonavir is better tolerated than lopinavir/ritonavir and has a higher genetic barrier to resistance. Co-administration with rifampicin has been contraindicated as a significant reduction in darunavir exposure is expected. This is a barrier to darunavir/ritonavir use where TB is endemic.

Objectives
To evaluate the safety and pharmacokinetic profile of adjusted doses of darunavir/ritonavir with rifampicin.

Methods
Virally suppressed participants on second-line lopinavir/ritonavir-based ART were switched to darunavir/ritonavir 800/100 mg q24h. In sequence: rifampicin was added; the dose of ritonavir was escalated; and darunavir was increased (darunavir/ritonavir 1600/200 mg q24h and 800/100 mg q12h were given in randomized sequence with rifampicin). Darunavir plasma concentrations were measured on the seventh/last day of each treatment period. To prevent viral rebound, dolutegravir (50 mg q12h) was added during rifampicin administration and for 1 week thereafter. Clinical events, ALT and bilirubin were monitored every 2–3 days during rifampicin administration.

Results
A total of 17/28 participants started study treatment. Six (35.3%) were withdrawn for symptomatic hepatitis with severe ALT elevations, developing after 9–11 days of rifampicin and 2–4 days of ritonavir 200 mg. The study was stopped prematurely due to this high rate of hepatotoxicity. Only four participants completed the study. All hepatotoxicity resolved on withdrawal of study treatment. All participants were successfully re-established on their lopinavir/ritonavir-based regimen. After doubling the darunavir/ritonavir doses on rifampicin, darunavir pre-dose concentrations approached those on standard doses without rifampicin for q12h doses, but not for q24h doses.

Conclusions
Adjusted doses of darunavir/ritonavir with rifampicin had unacceptable risk of hepatotoxicity. Darunavir trough concentrations were markedly reduced with the daily adjusted dose.
Research data management in health and biomedical citizen science: practices and prospects
Authors: Borda Ann , Gray Kathleen , Fu Yuqing 
Published: December 2019

AbstractBackgroundPublic engagement in health and biomedical research is being influenced by the paradigm of citizen science. However, conventional health and biomedical research relies on sophisticated research data management tools and methods. Considering these, what contribution can citizen science make in this field of research? How can it follow research protocols and produce reliable results?ObjectiveThe aim of this article is to analyze research data management practices in existing biomedical citizen science studies, so as to provide insights for members of the public and of the research community considering this approach to research.MethodsA scoping review was conducted on this topic to determine data management characteristics of health and bio medical citizen science research. From this review and related web searching, we chose five online platforms and a specific research project associated with each, to understand their research data management approaches and enablers.ResultsHealth and biomedical citizen science platforms and projects are diverse in terms of types of work with data and data management activities that in themselves may have scientific merit. However, consistent approaches in the use of research data management models or practices seem lacking, or at least are not prevalent in the review.ConclusionsThere is potential for important data collection and analysis activities to be opaque or irreproducible in health and biomedical citizen science initiatives without the implementation of a research data management model that is transparent and accessible to team members and to external audiences. This situation might be improved with participatory development of standards that can be applied to diverse projects and platforms, across the research data life cycle.
PSIV-3 Effect of winter-feeding system and roughage level in feedlot ration on subsequent spring grazing behavior and dry matter intake of beef growing heifers
Authors: Burjel María Victoria , Simeone Alvaro , Bentancur Oscar , Zabalveytia Natalia , Beretta Virginia 
Published: December 2019

Abstract
This study aimed to evaluate the effect of winter-feeding system (grazing, GFS vs. feedlot, FFS) and ration roughage level (RL), on subsequent spring grazing behavior and forage dry matter intake (DMI). Thirty-two Hereford female calves (149 ± 13 kg) were assigned to four winter dietary treatments (110 days) in a randomized block design (n = 2/treatment): three feedlot rations differing RL (Setaria italica) (0%, 35% or 70% DM) or oats grazing (5 kg DM/100 kg LW). In spring (84 days) all treatments grazed a mixed grass-legume pastures (4317 ± 1009 kg DM/ha; 6 kg DM/100 kg LW). During weeks 1, 3 and 5 after changing diets, diurnal behavior activity (effective/search grazing, rumination, idling or water intake) was visually recorded and DMI estimated from the in vivo DM digestibility (DMD) and fecal production. Data were analyzed according to a block design with repeated measures, with general model including block, treatment (T), week (W) and T×W effects. Means were compared through orthogonal contrasts (Table 1). Spring DMI varied with T (P = 0.0084) regardless of W effect (P = 0.1619), with higher values for GFS compared to FFS (1.55 vs. 1.16 kg/100 kg LW, P = 0.0034) and for 70RL compared to 35RL (P = 0.0286). DMD did not differ between treatments (P = 0.2488) but was lower on W1 than W5 (55 vs. 64 %, P = 0.0150). T×W was significant (P &lt; 0.0001) for effective grazing, rumination and idling. On W1, heifers from GFS grazed less (0.40 vs. 0.49, P = 0.0268) but tended to ruminate more (0.26 vs. 0.18, P = 0.0591) than FFS. As pasture DMD improved (W5) GFS grazed more (0.64 vs. 0.51, P = 0.0020) but ruminated less (0.14 vs. 0.21, P = 0.0450) than FFS. Transition from FFS to spring grazing might reduce pasture DMI modifying animal ingestive behavior compare to animals from GFS. Impact could be higher when ration RL is below 70%.
PSXI-37 Differences in thermoregulation ability and genetic parameters of skin traits in Angus, Brahman and their Crossbreds
Authors: Dikmen Serdal , Mateescu Raluca G 
Published: December 2019

Abstract
Thermoregulation is important for beef cattle but tends to be negatively correlated with production traits. The objective of this study was to determine the variation in core body temperature and to estimate genetic parameters of skin traits in Angus, Brahman, and different levels of crossbred heifers (n = 337) reared in hot and humid conditions. Core body temperature was recorded as vaginal temperature every 15 minutes for 5 consecutive days. Dry bulb temperature and relative humidity in the pasture were also measured every 15 min and used to calculate a temperature-humidity index (THI). Five mm skin biopsies were collected from the right side of sixth thoracic bone of each heifer. Cross-sections of biopsy samples with a thickness of 7 µm were stained with Hematoxilin–Eosin technique. The number and area of sweat and sebaceous glands, and the thickness of dermis and epidermis were determined using the ImageJ program. Data were analysed using PROC MIXED in SAS 9.4 with a model including the effect of breed, year, and their interaction. Genetic parameters were estimated using WOMBAT. Average core body temperature of Angus, 25%, 37.5%, 50%,75% and 100% Brahman were 39.50±0.05, 39.30±0.04, 39.15±0.05, 39.2±0.0, 39.03±0.05, 39.04±0.05, respectively. Brahman heifers had lower core body temperature compared to Angus heifers (P = 0.0006). Heifers with smaller and more numerous sweat glands had higher (P &lt; 0.01) and more variable core body temperature (P &lt; 0.0001). Heritability of core body temperature under high and low THI was 0.44±0.006 and 0.61±0.003, respectively. Dermis and epidermis thickness had the lowest heritability (0.231±0.002) and the highest heritability (0.75±0.007), respectively. Heritabilities for the number of sweat glands and total sweat gland area were 0.375±0.02 and 0.432±0.006, respectively. In conclusion, thermoregulation was highly correlated with breed composition, number of sweat glands and the average size of sweat glands.
PSIX-5 Effects of live yeast on functional attributes of rumen microbiota in beef cattle
Authors: Ogunade Ibukun M , Lay Jerusha , Andries Kenneth 
Published: December 2019

Abstract
This study applied whole-metagenomics shotgun sequencing to evaluate the effects of live yeast supplementation on functional potential of rumen microbiota in beef cattle. Eight rumen-cannulated Holstein steers were assigned randomly to 1 of 2 treatments in cross-over design with two 25-d experimental periods and a 10-d wash-out between the two periods. The steers were housed in individual pens and were fed 50% concentrate and 50% red clover hay ad libitum. Dietary treatments were (1) control (CON; basal diet) and (2) yeast (YEA; basal diet plus 15 g/d of yeast product; PMI, Arden Hills, MN, USA). Rumen fluid samples were collected at 3, 6 and 9 h after feeding on the last day of each period. Sequencing was done on an Illumina HiSeq 2500. Differences in the relative abundance of taxa at the species level were analyzed using the GLIMMIX procedure of SAS using a model that included the effects of treatment, period, and their interaction. Dietary yeast supplementation increased (P &lt; 0.05) the relative abundance of carbohydrate-fermenting bacteria, such as Ruminococcus albus, R. champanellensis, R. bromii, and R. obeum, and lactate-utilizing bacteria, such as Megasphera elsdenii, Desulfovibrio desulfuricans, and D. vulgaris. A total of 154 differentially abundant microbial genes (DAGs) were obtained (false discovery rate &lt; 0.01). Kyoto Encyclopedia of Genes and Genomes annotation analysis of the DAGs revealed that pathways involving amino sugar and nucleotide sugar metabolism, oxidative phosphorylation, pantothenate and CoA biosynthesis, beta-alanine metabolism, and polyketide sugar unit biosynthesis were enriched in steers fed YEA. Annotation of the DAGs in carbohydrate-active enzymes database revealed that genes coding for enzymes belonging to glycoside hydrolases, glycosyltransferases, and carbohydrate binding modules were enriched in steers fed YEA. These findings confirm the efficacy of live S. cerevisiae product at reducing redox potential and increasing cellulolytic and lactate-utilizing activities in the rumen.
Comparing Prophylactic Versus Threshold-Based Insecticide Programs for Striped Cucumber Beetle (Coleoptera: Chrysomelidae) Management in Watermelon
Authors: Ternest John J , Ingwell L L , Foster R E , Kaplan I 
Published: December 2019

Abstract
In cucurbit crops such as watermelon, implementation of integrated pest management (IPM) is important due to the high reliance on bees for fruit set, along with mounting evidence of the risks of insecticide use associated with pollinator health. Yet, IPM adoption, on-farm pesticide use behaviors, their costs, and impacts on the primary insect pest (striped cucumber beetle, Acalymma vittatum F.) are poorly known in one of the key watermelon-growing regions, the Midwestern United States. To better understand how to implement IPM into watermelon production, we assessed pest management practices on commercial watermelon farms using 30 field sites in Indiana and Illinois over 2 yr in 2017 and 2018. Across all sampling dates, beetles never crossed the economic threshold of five beetles/plant at any farm and most were maintained at densities far below this level (i.e., &lt;1 beetle/plant). Moreover, we documented a wide range of insecticide inputs (mean ca. 5 applications per field per season; max. 10 applications) that were largely dominated by inexpensive foliar pyrethroid sprays; however, insecticide application frequency was poorly correlated with pest counts, suggesting that most of these applications were unnecessary. We calculated that the cost of the average insecticide program far exceeds the cost of scouting, and thus IPM is estimated to save growers ca. $1,000 per field under average conditions (i.e., field size, insecticide cost). These data strongly indicate that current management practices on commercial farms in the Midwest would benefit from implementing more threshold-based IPM programs with potential increases in both farm profitability and pollination services.