bluuebunny/crossref_metadata_2025_split huggingface dataset:
Pitfalls in the interpretation of blood tests used to assess and monitor micronutrient nutrition status
Authors: Berger Mette M. , Talwar Dinesh , Shenkin Alan 
Published: November 2022

AbstractAssessment of micronutrient (MN) status is of particular importance in patients who require medical nutrition therapy, especially those requiring parenteral nutrition. Blood testing is generally the only tool available in clinical settings to assess MN status. However, using plasma or serum concentration faces pitfalls mainly because of the impact of inflammation that diverts the MNs from the circulating compartment. This review aims to review the blood tests that are useful and provide information about how to integrate functional markers of status to reach a clinically relevant diagnosis. Most impacted, with a significant and proportional decrease in plasma concentrations, are iron, selenium, zinc, thiamin, folic acid, cobalamin, and vitamins A, C, and D; copper is the only MN for which the plasma concentration increases. Therefore, a surrogate marker of inflammation, C‐reactive protein, must always be determined simultaneously. Validated intracellular and functional tests are proposed to improve status assessment. A protocol is suggested for tests required both on commencing and during nutrition support. A timely turnaround of analysis is essential for results to be clinically useful. In some cases, the appropriate provision of MNs should be commenced before results have been obtained to confirm the clinical assessment. Laboratory tests of MN status are an area prone to misuse and misinterpretation. The appropriate use and interpretation of such tests are essential to ensure the correct management of nutrition problems.
Computational modeling studies reveal the origin of the binding preference of 3‐(3,4‐di hydroisoquinolin‐2(1H)‐ylsulfonyl)benzoic acids for AKR1C3 over its isoforms
Authors: Kong Xiaotian , Xing Enming , Wu Sijin , Zhuang Tony , Li Pui‐Kai , Li Chunhua , Cheng Xiaolin 
Published: November 2022

AbstractAs a key regulator for hormone activity, human aldo‐keto reductase family 1 member C3 (AKR1C3) plays crucial roles in the occurrence of various hormone‐dependent or independent malignancies. It is a promising target for treating castration‐resistant prostate cancer (CRPC). However, the development of AKR1C3 specific inhibitors remains challenging due to the high sequence similarity to its isoform AKR1C2. Here, we performed a combined in silico study to illuminate the inhibitory preference of 3‐(3,4‐dihydroisoquinolin‐2(1H)‐ylsulfonyl)benzoic acids for AKR1C3 over AKR1C2, of which compound 38 can achieve up to 5000‐fold anti‐AKR1C3 selectivity. Our umbrella sampling (US) simulations together with end‐point binding free energy calculation MM/GBSA uncover that the high inhibition selectivity originates from the different binding modes, namely “Inward” and “Outward,” of this compound series in AKR1C3 and AKR1C2, respectively. In AKR1C3/38, the tetrahydroquinoline moiety of 38 is accommodated inside the SP1 pocket and interacts favorably with surrounding residues, while, in AKR1C2/38, the SP1 pocket is too small to hold the bulky tetrahydroquinoline group that instead moves out of the pocket with 38 transitioning from an “Inward” to an “Outward” state. Further 3D‐QSAR and energy decomposition analyses suggest that SP1 in AKR1C3 prefers to bind with a rigid bicyclic moiety and the modification of the R3 group has important implication for the compound's activity. This work is the first attempt to elucidate the selectivity mechanism of inhibitors toward AKR1C3 at the atomic level, which is anticipated to propel the development of next‐generation AKR1C3 inhibitors with enhanced efficacy and reduced “off‐target” effect for CRPC therapy.
Data‐driven predictive control for a class of uncertain control‐affine systems
Authors: Li Dan , Fooladivanda Dariush , Martínez Sonia 
Published: November 2022

AbstractThis article studies a data‐driven predictive control for a class of control‐affine systems which is subject to uncertainty. With the accessibility to finite sample measurements of the uncertain variables, we aim to find controls which are feasible and provide superior performance guarantees with high probability. This results into the formulation of a stochastic optimization problem (P), which is intractable due to the unknown distribution of the uncertainty variables. By developing a distributionally robust optimization framework, we present an equivalent and yet tractable reformulation of (P). Further, we propose an efficient algorithm that provides online suboptimal data‐driven solutions and guarantees performance with high probability. To illustrate the effectiveness of the proposed approach, we consider a highway speed‐limit control problem. We then develop a set of data‐driven speed controls that allow us to prevent traffic congestion with high probability. Finally, we employ the resulting control method on a traffic simulator to illustrate the effectiveness of this approach numerically.
Klebsiella-Induced Acute Infectious Purpura Fulminans in a Thai Woman: Case Report and Review of Literature
Authors: Temnithikul Bhakinai , Rungrunanghiranya Suthat , Limtanyakul Piyakan , Angkananard Teeranan , Wessagowit Vesarat 
Published: November 2022

Abstract
Purpura fulminans (PF) is an uncommon syndrome of acute purplish skin eruption characterized by coagulation of the microvasculature, which leads to purplish lesions and skin necrosis. There are three subtypes; idiopathic PF, neonatal PF and, the most common subtype, acute infectious PF (AIPF). Acute infectious PF is related to the thrombotic subtype of disseminated intravascular coagulation (DIC) and usually is superimposed on sepsis. This can rapidly lead to multi-organ failure from thrombotic occlusion of small and medium-sized blood vessels. We report a case of Klebsiella-induced AIPF in a 78-year-old Thai woman and also review other published cases.
Targeted Locus Amplification and Haplotyping
Authors: Lefferts Juliet W. , Boersma Vera , Hagemeijer Marne C. , Hajo Karima , Beekman Jeffrey M. , Splinter Erik 
Published: November 2022

AbstractTargeted locus amplification (TLA) allows for the detection of all genetic variation (including structural variation) in a genomic region of interest. As TLA is based on proximity ligation, variants can be linked to each other, thereby enabling allelic phasing and the generation of haplotypes. This allows for the study of genetic variants in an allele-specific manner. Here, we provide a step-by-step protocol for TLA sample preparation and a complete bioinformatics pipeline for the allelic phasing of TLA data. Additionally, to illustrate the protocol, we show the ability of TLA to re-sequence and haplotype the complete cystic fibrosis transmembrane (CFTR) gene (> 200 kb in size) from patient-derived intestinal organoids.
Read-Based Phasing and Analysis of Phased Variants with WhatsHap
Authors: Martin Marcel , Ebert Peter , Marschall Tobias 
Published: November 2022

AbstractWhatsHap is a command-line tool for phasing and phasing-related tasks. It allows to infer haplotypes in diploid and polyploid samples based on (preferably long) reads covering at least two heterozygous variants. It offers additional tools for working with phased variant calls such as computing statistics, comparing different phasings and assigning reads in alignment files to their haplotype.
Causal diamonds, cluster polytopes and scattering amplitudes
Authors: Arkani-Hamed N. , He S. , Salvatori G. , Thomas H. 
Published: November 2022

Abstract
The “amplituhedron” for tree-level scattering amplitudes in the bi-adjoint ϕ3 theory is given by the ABHY associahedron in kinematic space, which has been generalized to give a realization for all finite-type cluster algebra polytopes, labelled by Dynkin diagrams. In this letter we identify a simple physical origin for these polytopes, associated with an interesting (1 + 1)-dimensional causal structure in kinematic space, along with solutions to the wave equation in this kinematic “spacetime” with a natural positivity property. The notion of time evolution in this kinematic spacetime can be abstracted away to a certain “walk”, associated with any acyclic quiver, remarkably yielding a finite cluster polytope for the case of Dynkin quivers. The $$ \mathcal{A} $$
A
n−3,$$ \mathcal{B} $$
B
n−1/$$ \mathcal{C} $$
C
n−1 and $$ \mathcal{D} $$
D
n polytopes are the amplituhedra for n-point tree amplitudes, one-loop tadpole diagrams, and full integrand of one-loop amplitudes. We also introduce a polytope $$ \overline{\mathcal{D}} $$

D
¯

n, which chops the $$ \mathcal{D} $$
D
n polytope in half along a symmetry plane, capturing one-loop amplitudes in a more efficient way.
Probability of Occurrence of Some Planar Random Quasi-homogeneous Vector Fields
Authors: Coll B. , Gasull A. , Prohens R. 
Published: November 2022

AbstractThe objective of this work is the study of the probability of occurrence of phase portraits in a family of planar quasi-homogeneous vector fields of quasi degree q, that is a natural extension of planar linear vector fields, which correspond to $$q=1.$$

q
=
1
.

We obtain the exact values of the corresponding probabilities in terms of a simple one-variable definite integral that only depends on q. This integral is explicitly computable in the linear case, recovering known results, and it can be expressed in terms of either complete elliptic integrals or of generalized hypergeometric functions in the non-linear one. Moreover, it appears a remarkable phenomenon when q is even: the probability to have a center is positive, in contrast with what happens in the linear case, or also when q is odd, where this probability is zero.
Those who speak survive: the value of the verbal component of GCS in trauma
Authors: Cevik Arif Alper , Alao David Olukolade , Alyafei Eman , Abu-Zidan Fikri 
Published: November 2022

Abstract
Aim
To evaluate the value of the individual components of GCS in predicting the survival of trauma patients in the Emergency Department.

Methods
Trauma patients who were admitted for more than 24 h or died after arrival at Al-Ain Hospital from January 2014 to December 2017 were studied. Children < 16 years, elderly > 80 years, patients with facial injuries, those intubated in the ER, and those with missing primary outcomes were excluded. Demography, vital signs, Glasgow Coma Scale (GCS), GCS components, Injury Severity Score (ISS), head AIS, and death were compared between those who died and those who survived. Factors with a p value of < 0.1 were entered into a backward likelihood logistic regression model to define factors that predict death.

Results
A total of 2548 patients were studied, out of whom 11 (0.4%) died. The verbal component of GCS (p < 0.001) and the ISS (p = 0.047) were the only significant predictors for death in the logistic regression model. The AUC (95% CI) of the GCS-VR was 0.763 (0.58–0.95), p = 0.003. The best point of GCS-VR that predicted survival was 5, having a sensitivity of 97%, a specificity of 54.5%, positive predictive value of 99. 8%, negative predictive value of 7.3%, and likelihood ratio of 2.13.

Conclusion
In general trauma patients, acute trauma care professionals can use GCS-VR to predict survival when clinical condition permits instead of the total GCS score or ISS.
The role of REBOA in patients in traumatic cardiac arrest subsequent to hemorrhagic shock: a scoping review
Authors: Slot S. A. S. , van Oostendorp S. E. , Schoonmade L. J. , Geeraedts L. M. G. 
Published: November 2022

Abstract
Purpose
Resuscitative endovascular balloon occlusion of the aorta (REBOA) is a useful adjunct in treatment of patients in severe hemorrhagic shock. Hypothetically, REBOA could benefit patients in traumatic cardiac arrest (TCA) as balloon occlusion of the aorta increases afterload and may improve myocardial performance leading to return of spontaneous circulation (ROSC). This scoping review was conducted to examine the effect of REBOA on patients in TCA.

Methods
This scoping review was conducted using the Preferred Reporting Items for Systematic Reviews and Meta-Analysis Extension for Scoping Reviews (PRISMA-ScR) Statement. PubMed, EMBASE.com and the Web of Science Core Collection were searched. Articles were included if they reported any data on patients that underwent REBOA and were in TCA. Of the included articles, data regarding SBP, ROSC and survival were extracted and summarized.

Results
Of 854 identified studies, 26 articles met criteria for inclusion. These identified a total of 785 patients in TCA that received REBOA (presumably less because of potential overlap in patients). This review shows REBOA elevates mean SBP in patients in TCA. The achievement of ROSC after REBOA deployment ranged from 18.2% to 67.7%. Survival to discharge ranged from 3.5% to 12.1%.

Conclusion
Overall, weak evidence is available on the use of REBOA in patients in TCA. This review, limited by selection bias, indicates that REBOA elevates SBP and may benefit ROSC and potentially survival to discharge in patients in TCA. Extensive further research is necessary to further clarify the role of REBOA during TCA.
Ten-year follow-up of a total knee prosthesis combining multi-radius, ultra-congruency, posterior-stabilization and mobile-bearing insert shows long-lasting clinically relevant improvements in pain, stiffness, function and stability
Authors: Cosendey Killian , Eudier Antoine , Fleury Nicole , Pereira Luis C. , Favre Julien , Jolles Brigitte M. 
Published: November 2022

Abstract
Purpose
There is a paucity of data available on total knee prostheses combining dual-radius, ultra-congruency, posterior-stabilization and mobile-bearing insert. This prospective cohort study aimed to assess the clinical evolution of the FIRST® prosthesis (Symbios Orthopédie, Yverdon, CH), the earliest prosthesis with this particular design. It was hypothesized that the primary outcomes, evaluating pain, stiffness, function and stability, would improve following arthroplasty and remain improved during the follow-up period of 10 years.

Methods
All patients programmed for a total knee arthroplasty using a FIRST® prosthesis at our university hospital between 2006 and 2008 were invited to participate. Study knees were evaluated pre-operatively as well as one, five and ten years post-operatively. Patients filled out questionnaires at each evaluation point and had a radiographic assessment at the five-year and ten-year follow-ups. Primary outcomes were the total, pain, stiffness and function measures of the Western Ontario and McMaster Universities Osteoarthritis questionnaire (WOMAC) and the knee and function measures of the Knee Society Score (KSS). Friedman and Wilcoxon’s rank-sum tests were used to compare measures across time points.

Results
Hundred and twenty four prostheses were included (baseline demographics: 69.9 ± 8.3 years old, 28.1 ± 4.3 kg/m2, 54% male) and 68 could be followed during ten years. Five prostheses underwent a revision. All other prostheses lost at follow-up were lost for reasons unrelated to the prosthesis. All primary measures reported statistically and clinically significant improvements between baseline and the three follow-up evaluations. Statistically significant improvements at the three follow-up evaluations were also observed for most secondary measures. There was no implant loosening. At ten-year follow-up, radiolucent lines were observed in 2.9% femoral implants and 1.5% tibial implants.

Conclusion
The positive results observed in all domains of assessment and the small revision rate demonstrated an effective functioning of the FIRST® prosthesis during the ten-year follow-up period. The results, globally similar to those previously published for other prosthesis designs, encourage the development of assistive methods to select the most appropriate designs on an individual basis.

Level of evidence
IV, prospective cohort study.
Artificial Intelligence for Pre‐operative Diagnosis of Malignant Thyroid Nodules Based on Sonographic Features and Cytology Category
Authors: Jassal Karishma , Koohestani Afsanesh , Kiu Andrew , Strong April , Ravintharan Nandhini , Yeung Meei , Grodski Simon , Serpell Jonathan W. , Lee James C. 
Published: November 2022

AbstractBackgroundCurrent diagnosis and classification of thyroid nodules are susceptible to subjective factors. Despite widespread use of ultrasonography (USG) and fine needle aspiration cytology (FNAC) to assess thyroid nodules, the interpretation of results is nuanced and requires specialist endocrine surgery input. Using readily available pre‐operative data, the aims of this study were to develop artificial intelligence (AI) models to classify nodules into likely benign or malignant and to compare the diagnostic performance of the models.MethodsPatients undergoing surgery for thyroid nodules between 2010 and 2020 were recruited from our institution's database into training and testing groups. Demographics, serum TSH level, cytology, ultrasonography features and histopathology data were extracted. The training group USG images were re‐reviewed by a study radiologist experienced in thyroid USG, who reported the relevant features and supplemented with data extracted from existing reports to reduce sampling bias. Testing group USG features were extracted solely from existing reports to reflect real‐life practice of a non‐thyroid specialist. We developed four AI models based on classification algorithms (k‐Nearest Neighbour, Support Vector Machine, Decision Tree, Naïve Bayes) and evaluated their diagnostic performance of thyroid malignancy.ResultsIn the training group (n = 857), 75% were female and 27% of cases were malignant. The testing group (n = 198) consisted of 77% females and 17% malignant cases. Mean age was 54.7 ± 16.2 years for the training group and 50.1 ± 17.4 years for the testing group. Following validation with the testing group, support vector machine classifier was found to perform best in predicting final histopathology with an accuracy of 89%, sensitivity 89%, specificity 83%, F‐score 94% and AUROC 0.86.ConclusionWe have developed a first of its kind, pilot AI model that can accurately predict malignancy in thyroid nodules using USG features, FNAC, demographics and serum TSH. There is potential for a model like this to be used as a decision support tool in under‐resourced areas as well as by non‐thyroid specialists.
Energy expenditure and body composition in a hibernator, the alpine marmot
Authors: Ruf Thomas , Michel M. , Frey-Roos F. , Flatz S. , Tataruch F. 
Published: November 2022

AbstractVisceral organs and tissues of 89 free-living alpine marmots (Marmota marmota) shot during a population control program in Switzerland, were collected. Between emergence from hibernation in April to July, the gastrointestinal tract (stomach to colon) gained 51% of mass and the liver mass increased by 24%. At the same time, the basal metabolic rate (BMR), determined with a portable oxygen analyzer, increased by 18%. The organ masses of the digestive system (stomach, small intestine, caecum, large intestine) were all significantly correlated with BMR. Interestingly, the mass of abdominal white adipose tissue (WAT) and of the remaining carcass (mainly skin and bones) were also significantly correlated with BMR. These results indicate that the gastrointestinal tract and organs involved in digestive function are metabolically expensive. They also show that it is costly to maintain even tissues with low metabolic rate such as WAT, especially if they are large. Heart and kidneys and especially brain and lungs did not explain a large proportion of the variance in BMR. Marmots increased the uptake of fat prior to hibernation, both by selective feeding and enhanced gastrointestinal capacity. Large fat reserves enable marmots to hibernate without food intake and to reproduce in spring, but at the cost of an elevated BMR. We predict that climate changes that disturb energy accumulation in summer, increase energy expenditure in winter, or delay the emergence from hibernation in spring, such as the occurrence of storms with increasing frequency, will increase mortality in alpine marmots.
Intake of prebiotic fibers and the risk of laryngeal cancer: the PrebiotiCa study
Authors: Turati Federica , Concina Federica , Bertuccio Paola , Fiori Federica , Parpinel Maria , Taborelli Martina , Rosato Valentina , Garavello Werner , Negri Eva , La Vecchia Carlo 
Published: November 2022

Abstract
Purpose
To evaluate whether the intake of specific fibers with prebiotic activity, e.g., inulin-type fructans (ITFs), fructo-oligosaccharides (FOSs), and galacto-oligosaccharides (GOSs), is associated with laryngeal cancer risk.

Methods
Within the PrebiotiCa study, we used data from a case–control study (Italy, 1992–2009) with 689 incident, histologically confirmed laryngeal cancer cases and 1605 controls. Six prebiotic molecules (ITFs, nystose [FOS], kestose [FOS], 1F-β-fructofuranosylnystose [FOS], raffinose [GOS] and stachyose [GOS]) were quantified in various foods via ad hoc conducted laboratory analyses. Subjects’ prebiotic fiber intake was calculated by multiplying food frequency questionnaire intake by the prebiotic content of each food item. The odds ratios (OR) of laryngeal cancer for prebiotic fiber intake were calculated using logistic regression models, including, among others, terms for tobacco, alcohol, and total energy intake.

Results
The intakes of kestose, raffinose and stachyose were inversely associated with laryngeal cancer, with ORs for the highest versus the lowest quartile of 0.70 (95% confidence interval, CI 0.50–0.99) for kestose, 0.65 (95% CI 0.45–0.93) for raffinose and 0.61 (95% CI 0.45–0.83) for stachyose. ITFs, nystose and 1F-β-fructofuranosylnystose were not associated with laryngeal cancer risk. Current smokers and heavy drinkers with medium–low intakes of such prebiotic fibers had, respectively, an over 15-fold increased risk versus never smokers with medium–high intakes and a five to sevenfold increased risk versus never/moderate drinkers with medium–high intakes.

Conclusion
Although disentangling the effects of the various components of fiber-rich foods is complex, our results support a favorable role of selected prebiotic fibers on laryngeal cancers risk.
Prevalence and determinants of Italian physicians’ burnout in the “post-COVID-19” era
Authors: Fiabane Elena , Margheritti Simona , Aiello Edoardo Nicolò , Magnone Stefano , Miglioretti Massimo , Gabanelli Paola , Giorgi Ines 
Published: November 2022

Abstract
Purpose
Several studies investigated prevalence and determinants of physicians’ burnout during the peak of the COVID-19 pandemic, but only a few during the chronic phase of the pandemic. This study thus aimed to examine this topic referring to the “post-COVID-19 era”, defined as a chronic and likely-to-be endemic status quo.

Methods
A cross-sectional, online survey (November 2021–January 2022) was addressed to physicians in Lombardia (Northern Italy). Besides socio-demographic and COVID-19-related data, measures of personal, work- and patient-related burnout (Copenhagen Burnout Inventory; CBI), depression (Patient Health Questionnaire-8), anxiety (General Anxiety Disorder-7), and self-efficacy (General Self-Efficacy Scale) were collected. Linear/generalized linear models were run to test associations/predictions of interest.

Results
Among the 958 respondents, burnout symptoms were clinically significant in 18.5% of them. Predictive models showed that female sex (OR = 0.73, 95% CI 0.42–1.27), younger age (OR = 0.94, 95% CI 0.59–1.48), shorter job tenure (OR = 1.01, 95% CI 0.62–1.65), trainee status (OR = 1.41, 95% CI 1.16–7.10), higher PHQ-8 (OR = 1.260, 95% CI 1.16–1.37), and GAD-7 scores (OR = 1.19, 95% CI 1.10–1.30) increased the risk to suffer from clinical burnout. COVID-19-related variables were mostly not related/associated to burnout levels.

Conclusion
In Italy, physicians’ burnout is moderately prevalent also in the chronic phase of the pandemic, with its determinants being more intrinsic than environmental. The development of effective interventions is needed to help physicians cope with the new challenges of their job.