bluuebunny/crossref_metadata_2025_split huggingface dataset:
What happens to our amputees? The Darling Downs experience
Authors: Vasudeva Varun , Parr Adam , Loch Alan , Wall Chris 
Published: October 2020

Background: Major lower limb amputation is occasionally required in the management of end-stage pathology where other treatment options have failed. The primary aim of this study was to determine the 30-day and 1-year mortality rates of patients undergoing nontraumatic major lower limb amputation. Secondary aims were to investigate risk factors for poor outcomes, incidence of previous minor amputation, and the rate of subsequent major amputation. Methods: All nontraumatic, major lower limb amputations performed at Toowoomba Hospital during an 18-year period were retrospectively reviewed. Mortality data were obtained from the Queensland Registry of Births, Deaths and Marriages. Kaplan–Meier analysis was performed to determine survival after amputation. Results: A total of 147 patients were included in the study, with 104 undergoing below knee and 43 undergoing above knee amputations. Ten patients identified as having an Aboriginal and Torres Strait Islander background. For all patients, the 30-day mortality was 4.1% and 1-year mortality was 21.1%. For Indigenous patients, 30-day mortality was 10%. Previous minor amputation had occurred in 40 patients. Twenty-nine patients underwent further minor surgery after their initial major amputation, with thirteen requiring subsequent major amputation. Factors that increased mortality risk were the presence of peripheral vascular disease, an American Society of Anesthesiologists score of four and age greater than 65 years. Conclusion: The morbidity and mortality following major lower limb amputation is significant. The findings of this study highlight the importance of preventative measures to minimize the incidence of lower limb amputations in the future.
Advancements in Legal Education in India: Challenges and Opportunities for Interdisciplinary Research
Authors: Rajashree K. , Singai Chetan , Shimray Shimreichon Awungshi 
Published: October 2020

Social, economic and political changes have brought new challenges and divergent views to twenty-first-century legal education. Law is an expression of the social idea, and more creative solutions evolve from interdisciplinary collaborations. The resolution by legal luminaries to elevate legal research to a high standing, on par with other disciplines, is yet to find a foothold even after the introduction of reforms to legal education in the past two decades. This article makes an attempt to explore the emerging interdisciplinary trends, with the innumerable challenges that require exploration, identification, analysis and quality enhancement while conducting legal research in order to strike a fine balance between teaching and research, as they supplement each other. Law is a mechanism for ushering in social change, and the fact that it can never be studied in isolation demands the convergence and divergence of multiple disciplines. Yet, the traditional conceptualization of legal research is largely confined to the judicial process and the exclusion of social process. Keeping in mind the benefits of interdisciplinary association of law with other areas/disciplines and of research being a continuum, the article emphasizes law’s collaboration with other disciplines. The article accentuates the role of law schools to undertake and encourage interdisciplinary legal scholarship to diversify the learning experiences of students in conjunction with other disciplines. Learning through such experiences enables students to find solutions beyond the strict academic discipline of law and at the same time offers ample opportunities for them to explore a wide array of possibilities that interface with legal profession but transcend courtroom practice. A comparative analysis of two educational institutions imparting legal education, taken as cases in point, is performed for the present study.
Ion microprobe dating of fissure monazite in the Western Alps: insights from the Argentera Massif and the Piemontais and Briançonnais Zones
Authors: Ricchi Emmanuelle , Gnos Edwin , Rubatto Daniela , Whitehouse Martin John , Pettke Thomas 
Published: October 2020

AbstractIon probe 208Pb/232Th fissure monazite ages from the Argentera External Massif and from the high-pressure units of the Western Alps provide new insights on its Cenozoic tectonic evolution. Hydrothermal monazite crystallizes during cooling/exhumation in Alpine fissures, an environment where monazite is highly susceptible to fluid-mediated dissolution-(re)crystallization. Monazite growth domains visualized by BSE imaging all show a negative Eu anomaly, positive correlation of Sr and Ca and increasing cheralite component (Ca + Th replacing 2REE) with decreasing xenotime (Y) component. The huttonite component (Th + Si replacing REE and P) is very low. Growth domains record crystallization following chemical disequilibrium in a fissure environment, and growing evidence indicates that they register tectonic activity. Fissure monazite ages obtained in this study corroborate previous ages, recording crystallization at ~ 36 Ma, ~ 32–30 Ma, and ~ 25–23 Ma in the high-pressure regions of the Western Alps, interpreted to be respectively related to top-NNW, top-WNW and top-SW thrusting in association with strike-slip faulting. During this latter transpressive phase, younger fissure monazite crystallization is recorded between ~ 20.6 and 14 Ma in the Argentera Massif, interpreted to have occurred in association with dextral strike-slip faulting related to anticlockwise rotation of the Corsica-Sardinia Block. This strike-slip activity is predating orogen-parallel dextral strike-slip movements along and through the internal part of all other External Crystalline Massifs (ECM), starting only at ~ 12 Ma. Our combined compositional and age data for hydrothermal monazite track crystallization related to tectonic activity during unroofing of the Western Alps for over more than 20 million years, offering chronologic insights into how different tectonic blocks were exhumed. The data show that fissures in the high-pressure units formed during greenschist to amphibolite facies retrograde deformation, and later in association with strike-slip faulting.
Printable, Highly Sensitive Flexible Temperature Sensors for Human Body Temperature Monitoring: A Review
Authors: Su Yi , Ma Chunsheng , Chen Jing , Wu Huiping , Luo Weixiang , Peng Yueming , Luo Zebang , Li Lin , Tan Yongsong , Omisore Olatunji Mumini , Zhu Zhengfang , Wang Lei , Li Hui 
Published: October 2020

AbstractIn recent years, the development and research of flexible sensors have gradually deepened, and the performance of wearable, flexible devices for monitoring body temperature has also improved. For the human body, body temperature changes reflect much information about human health, and abnormal body temperature changes usually indicate poor health. Although body temperature is independent of the environment, the body surface temperature is easily affected by the surrounding environment, bringing challenges to body temperature monitoring equipment. To achieve real-time and sensitive detection of various parts temperature of the human body, researchers have developed many different types of high-sensitivity flexible temperature sensors, perfecting the function of electronic skin, and also proposed many practical applications. This article reviews the current research status of highly sensitive patterned flexible temperature sensors used to monitor body temperature changes. First, commonly used substrates and active materials for flexible temperature sensors have been summarized. Second, patterned fabricating methods and processes of flexible temperature sensors are introduced. Then, flexible temperature sensing performance are comprehensively discussed, including temperature measurement range, sensitivity, response time, temperature resolution. Finally, the application of flexible temperature sensors based on highly delicate patterning are demonstrated, and the future challenges of flexible temperature sensors have prospected.
Expression and functions of N-type Cav2.2 and T-type Cav3.1 channels in rat vasopressin neurons under normotonic conditions
Authors: Sato-Numata Kaori , Numata Tomohiro , Ueta Yoichi , Okada Yasunobu 
Published: October 2020

AbstractArginine vasopressin (AVP) neurons play essential roles in sensing the change in systemic osmolarity and regulating AVP release from their neuronal terminals to maintain the plasma osmolarity. AVP exocytosis depends on the Ca2+ entry via voltage-gated Ca2+ channels (VGCCs) in AVP neurons. In this study, suppression by siRNA-mediated knockdown and pharmacological sensitivity of VGCC currents evidenced molecular and functional expression of N-type Cav2.2 and T-type Cav3.1 in AVP neurons under normotonic conditions. Also, both the Cav2.2 and Cav3.1 currents were found to be sensitive to flufenamic acid (FFA). TTX-insensitive spontaneous action potentials were suppressed by FFA and T-type VGCC blocker Ni2+. However, Cav2.2-selective ω-conotoxin GVIA failed to suppress the firing activity. Taken together, it is concluded that Cav2.2 and Cav3.1 are molecularly and functionally expressed and both are sensitive to FFA in unstimulated rat AVP neurons. Also, it is suggested that Cav3.1 is primarily involved in their action potential generation.
EMU: reconfigurable graphical user interfaces for Micro-Manager
Authors: Deschamps Joran , Ries Jonas 
Published: October 2020

Abstract
Background
Advanced light microscopy methods are key to many biological studies. Their ease of use depends, besides experimental aspects, on intuitive graphical user interfaces (GUI). The open-source software Micro-Manager offers a universal GUI for microscope control but requires implementing plugins to further tailor it to specific systems. However, GUIs are often tailored to a single system. Since even similar devices can have different Micro-Manager device properties, such as power percentage versus absolute power, directly transferring a GUI to another instrument usually requires changing the source-code.

Results
We developed Easier Micro-Manager User interface (EMU), a Micro-Manager plugin, to simplify building flexible and reconfigurable GUIs. EMU can be seamlessly used with the Java Swing library to create device-independent GUIs for Micro-Manager. Such GUIs are easily transferred to another microscope thanks to an intuitive configuration menu that includes mapping of the device properties to the GUI functionalities and customization of the graphical elements. We also provide resources such as user and programming guides, a tutorial and code examples.

Conclusions
Micro-Manager users now have a powerful tool to improve the user experience on their instruments. EMU GUIs can be easily configured for new microscopes and shared with other research groups. In the future, newly developed GUIs will be added to EMU to benefit the whole community.
Latent-space embedding of expression data identifies gene signatures from sputum samples of asthmatic patients
Authors: Lou Shaoke , Li Tianxiao , Spakowicz Daniel , Yan Xiting , Chupp Geoffrey Lowell , Gerstein Mark 
Published: October 2020

Abstract
Background
The pathogenesis of asthma is a complex process involving multiple genes and pathways. Identifying biomarkers from asthma datasets, especially those that include heterogeneous subpopulations, is challenging. Potentially, autoencoders provide ideal frameworks for such tasks as they can embed complex, noisy high-dimensional gene expression data into a low-dimensional latent space in an unsupervised fashion, enabling us to extract distinguishing features from expression data.

Results
Here, we developed a framework combining a denoising autoencoder and a supervised learning classifier to identify gene signatures related to asthma severity. Using the trained autoencoder with 50 hidden units, we found that hierarchical clustering on the low-dimensional embedding corresponds well with previously defined and clinically relevant clusters of patients. Moreover, each hidden unit has contributions from each of the genes, and pathway analysis of these contributions shows that the hidden units are significantly enriched in known asthma-related pathways. We then used genes that contribute most to the hidden units to develop a secondary random-forest classifier for directly predicting asthma severity. The feature importance metric from this classifier identified a signature based on 50 key genes, which are associated with severity. Furthermore, we can use these key genes to successfully estimate FEV1/FVC ratios across patients, via support-vector-machine regression.

Conclusion
We found that the denoising autoencoder framework can extract meaningful patterns corresponding to functional gene groups and patient clusters from the gene expression of asthma patients.
In silico benchmarking of metagenomic tools for coding sequence detection reveals the limits of sensitivity and precision
Authors: Golob Jonathan Louis , Minot Samuel Schwartz 
Published: October 2020

Abstract
Background
High-throughput sequencing can establish the functional capacity of a microbial community by cataloging the protein-coding sequences (CDS) present in the metagenome of the community. The relative performance of different computational methods for identifying CDS from whole-genome shotgun sequencing is not fully established.

Results
Here we present an automated benchmarking workflow, using synthetic shotgun sequencing reads for which we know the true CDS content of the underlying communities, to determine the relative performance (sensitivity, positive predictive value or PPV, and computational efficiency) of different metagenome analysis tools for extracting the CDS content of a microbial community. Assembly-based methods are limited by coverage depth, with poor sensitivity for CDS at < 5X depth of sequencing, but have excellent PPV. Mapping-based techniques are more sensitive at low coverage depths, but can struggle with PPV. We additionally describe an expectation maximization based iterative algorithmic approach which we show to successfully improve the PPV of a mapping based technique while retaining improved sensitivity and computational efficiency.

Conclusion
Our benchmarking approach reveals the trade-offs of assembly versus alignment-based approaches and the relative performance of specific implementations when one wishes to extract the protein coding capacity of microbial communities.
An R package for an integrated evaluation of statistical approaches to cancer incidence projection
Authors: Knoll Maximilian , Furkel Jennifer , Debus Jürgen , Abdollahi Amir , Karch André , Stock Christian 
Published: October 2020

Abstract
Background
Projection of future cancer incidence is an important task in cancer epidemiology. The results are of interest also for biomedical research and public health policy. Age-Period-Cohort (APC) models, usually based on long-term cancer registry data (> 20 yrs), are established for such projections. In many countries (including Germany), however, nationwide long-term data are not yet available. General guidance on statistical approaches for projections using rather short-term data is challenging and software to enable researchers to easily compare approaches is lacking.

Methods
To enable a comparative analysis of the performance of statistical approaches to cancer incidence projection, we developed an R package (incAnalysis), supporting in particular Bayesian models fitted by Integrated Nested Laplace Approximations (INLA). Its use is demonstrated by an extensive empirical evaluation of operating characteristics (bias, coverage and precision) of potentially applicable models differing by complexity. Observed long-term data from three cancer registries (SEER-9, NORDCAN, Saarland) was used for benchmarking.

Results
Overall, coverage was high (mostly > 90%) for Bayesian APC models (BAPC), whereas less complex models showed differences in coverage dependent on projection-period. Intercept-only models yielded values below 20% for coverage. Bias increased and precision decreased for longer projection periods (> 15 years) for all except intercept-only models. Precision was lowest for complex models such as BAPC models, generalized additive models with multivariate smoothers and generalized linear models with age x period interaction effects.

Conclusion
The incAnalysis R package allows a straightforward comparison of cancer incidence rate projection approaches. Further detailed and targeted investigations into model performance in addition to the presented empirical results are recommended to derive guidance on appropriate statistical projection methods in a given setting.
Genotype-phenotype correlation of HbH disease in northern Iraq
Authors: Shamoon Rawand P. , Yassin Ahmed K. , Polus Ranan K. , Ali Mohamad D. 
Published: October 2020

AbstractBackgroundHbH disease results from dysfunction of three, less commonly two, α-globin genes through various combinations of deletion and non-deletion mutations. Characterization of the mutations and the underlying genotypes is fundamental for proper screening and prevention of thalassaemia in any region. The aim of this study was to explore the genetic arrangements of HbH disease and to correlate the genotypes with the clinical phenotypes.MethodsA total of 44 HbH disease patients were enrolled in this study. They were clinically and haematologically assessed. The patients were tested for 21 common α-globin gene mutations using multiplex PCR and reverse hybridization. According to the genotype, the patients were categorized into two separate sub-groups, deletion and non-deletion types HbH disease.ResultsWithin the studied HbH disease patients, eight different α-globin gene mutations were detected in nine different genetic arrangements. The --MEDand -α3.7deletions were the two most frequently encountered mutations (37.5 and 35.2% respectively). Patients with deletion genotypes constituted 70.4%. The most common detected genotype was --MED/−α3.7(59.1%), followed by αpoly-A1α/αpoly-A1α (13.6%). For the first time, coinheritance of two relatively mild mutations (−α3.7/ααAdana) was unpredictably detected in a 1.5 year-old child with Hb of 7.1 g/dL.ConclusionThe HbH disease patients’ clinical characteristics were variable with no ample difference between the deletion and non-deletion types. These results can be of benefit for the screening and management of thalassaemia in this region.
A novel Vi-diphtheria toxoid typhoid conjugate vaccine is safe and can induce immunogenicity in healthy Indonesian children 2–11 years: a phase II preliminary report
Authors: Medise Bernie Endyarni , Soedjatmiko Soedjatmiko , Gunardi Hartono , Sekartini Rini , Satari Hindra Irawan , Hadinegoro Sri Rezeki , Wirahmadi Angga , Puspita Mita , Sari Rini Mulia , Yang Jae Seung , Sil Arijit , Sahastrabuddhe Sushant , Bachtiar Novilia Sjafri 
Published: October 2020

Abstract
Background
Typhoid fever caused by Salmonella enteric serovar Typhi (S. Typhi) is a common cause of morbidity in the world. In 2017, 14.3 million cases of Typhoid and paratyphoid fever occurred globally. School age children between 3 to 19 years old are the most affected. Poor sanitation and multi drug resistance have increased the need for vaccines to reduce the global burden of disease. Based on previous trials, typhoid conjugate vaccines have longer- lasting protection, higher efficacy, require fewer doses and are suitable from infancy that allows them to be incorporated into the routine immunization program. Our previous phase I trial proved that a novel Vi-DT typhoid conjugate vaccine is safe and immunogenic in subjects 2–5 and 18–40 years. Our phase II trial consisted of subjects 6 months to 40 years. Our previously published paper on subjects 6 to < 24 months proved that this vaccine is safe and immunogenic for this age group. Therefore, with this paper we aimed to evaluate the safety and immunogenicity in children 2–11 years.

Methods
A randomized, observer-blind, superiority design of Vi-DT Typhoid conjugate vaccine compared to Vi-polysaccharide vaccine (Vi-PS) phase II study was conducted from October 2018 to December 2018 where 200 subjects aged 2–11 years were recruited. A blood sample prior to vaccination was taken, followed by administration of a single dose of either test vaccine (Vi-DT) or control vaccine (Vi-PS) and then a second blood sample was collected 28 days post vaccination. Adverse reactions were assessed and antibody increment was evaluated at 28 days post vaccination through collected serum sample.

Results
Pain was the most common local reaction. Fever and muscle pain were the most common systemic reactions. Both Vi-DT and Vi-PS groups had roughly the same number of adverse reactions. At 28 days post vaccination, 100% of subjects in the Vi-DT group and 93% of subjects in the Vi-PS group produced antibody increment ≥4 times. The Vi-DT group produced a higher GMT as compared to Vi-PS.

Conclusion
Vi-DT vaccine is safe and immunogenic in children 2–11 years old.

Trial registration
Trial registration number: NCT03460405.
Geospatial patterns of comorbidity prevalence among people with osteoarthritis in Alberta Canada
Authors: Liu Xiaoxiao , Shahid Rizwan , Patel Alka B. , McDonald Terrence , Bertazzon Stefania , Waters Nigel , Seidel Judy E. , Marshall Deborah A. 
Published: October 2020

Abstract
Background
Knowledge of geospatial pattern in comorbidities prevalence is critical to an understanding of the local health needs among people with osteoarthritis (OA). It provides valuable information for targeting optimal OA treatment and management at the local level. However, there is, at present, limited evidence about the geospatial pattern of comorbidity prevalence in Alberta, Canada.

Methods
Five administrative health datasets were linked to identify OA cases and comorbidities using validated case definitions. We explored the geospatial pattern in comorbidity prevalence at two standard geographic areas levels defined by the Alberta Health Services: descriptive analysis at rural-urban continuum level; spatial analysis (global Moran’s I, hot spot analysis, cluster and outlier analysis) at the local geographic area (LGA) level. We compared area-level indicators in comorbidities hotspots to those in the rest of Alberta (non-hotspots).

Results
Among 359,638 OA cases in 2013, approximately 60% of people resided in Metro and Urban areas, compared to 2% in Rural Remote areas. All comorbidity groups exhibited statistically significant spatial autocorrelation (hypertension: Moran’s I index 0.24, z score 4.61). Comorbidity hotspots, except depression, were located primarily in Rural and Rural Remote areas. Depression was more prevalent in Metro (Edmonton-Abbottsfield: 194 cases per 1000 population, 95%CI 192–195) and Urban LGAs (Lethbridge-North: 169, 95%CI 168–171) compared to Rural areas (Fox Creek: 65, 95%CI 63–68). Comorbidities hotspots included a higher percentage of First Nations or Inuit people. People with OA living in hotspots had lower socioeconomic status and less access to care compared to non-hotspots.

Conclusions
The findings highlight notable rural-urban disparities in comorbidities prevalence among people with OA in Alberta, Canada. Our study provides valuable evidence for policy and decision makers to design programs that ensure patients with OA receive optimal health management tailored to their local needs and a reduction in current OA health disparities.