bluuebunny/crossref_metadata_2025_split huggingface dataset:
Requirements and challenges of hospital dashboards: a systematic literature review
Authors: Rabiei Reza , Almasi Sohrab 
Published: November 2022

Abstract
Background
Today, the use of data in administrative and clinical processes is quite challenging due to the large volume of data, data collection from various sources, and lack of data structure. As a data management tool, dashboards play an important role in timely visual display of critical information on key performances.

Objectives
This systematic review aimed to identify functional and non-functional requirements, as well as challenges of using dashboards in hospitals.

Methods
In this systematic review, four databases, including the Web of Science, PubMed, EMBASE, and Scopus, were searched to find relevant articles from 2000 until May 30, 2020. The final search was conducted on May 30, 2020. Data collection was performed using a data extraction form and reviewing the content of relevant studies on the potentials and challenges of dashboard implementation.

Results
Fifty-four out of 1254 retrieved articles were selected for this study based on the inclusion and exclusion criteria. The functional requirements for dashboards included reporting, reminders, customization, tracking, alert creation, and assessment of performance indicators. On the other hand, the non-functional requirements included the dashboard speed, security, ease of use, installation on different devices (e.g., PCs and laptops), integration with other systems, web-based design, inclusion of a data warehouse, being up-to-data, and use of data visualization elements based on the user’s needs. Moreover, the identified challenges were categorized into four groups: data sources, dashboard content, dashboard design, implementation, and integration in other systems at the hospital level.

Conclusion
Dashboards, by providing information in an appropriate manner, can lead to the proper use of information by users. In order for a dashboard to be effective in clinical and managerial processes, particular attention must be paid to its capabilities, and the challenges of its implementation need to be addressed.
Compliance with hand hygiene practices among nursing staff in secondary healthcare hospitals in Kuwait
Authors: Al-Anazi Sarah , Al-Dhefeery Nora , Al-Hjaili Rawan , Al-Duwaihees Awsaf , Al-Mutairi Ahad , Al-Saeedi Reem , Al-Dhaen Retaj , Al-Rabiah Sara , Sharaf-Alddin Reem 
Published: November 2022

Abstract
Background
Hand hygiene (HH) among healthcare workers, especially nurses, is the main preventive measure to control healthcare associated infections but compliance with hand hygiene (CwHH) remains low in various settings including Kuwait. This study aimed to assess the knowledge of, attitudes towards, and CwHH among nursing staff in secondary care hospitals in Kuwait.

Methods
A cross-sectional study was conducted on nursing staff in all six secondary care hospitals in Kuwait. Data on knowledge of, attitudes towards, and self-reported CwHH were collected through a self-administered questionnaire that was developed based on WHO’s questionnaire, while the data on actual compliance were objectively collected through direct observation of nurses during routine care by two independent observers using WHO’s observation form.

Results
Of 829 nurses approached, 765 (92.2%) responded and participated. Of all participants, 524 (68.5%) were able to list “My Five Moments for Hand Hygiene” fully and appropriately. However, several misconceptions (e.g. air circulation in hospital is the main route of infection) about HH were found among the nurses. CwHH was (25.0%) by direct observation while self-reported compliance was (69.5%) each varied significantly (p < 0.001) between different hospitals. Female nurses compared to male nurses and non-Arab compared to Arab nationalities were more likely to report CwHH in multivariable analysis. Several items on knowledge of and attitudes towards HH were also associated with self-reported CwHH.

Conclusion
Observed CwHH among nursing staff in secondary care hospitals in Kuwait was low, which highlights the need to make more efforts to improve HH practices. Interventions that have been used elsewhere and found to be effective may be tested in Kuwait. Despite the good overall knowledge on HH among nurses, there are several misconceptions that need to be corrected.
Preparing for pandemics: a systematic review of pandemic influenza clinical management guidelines
Authors: Rigby Ishmeala , Michelen Melina , Cheng Vincent , Dagens Andrew , Dahmash Dania , Lipworth Samuel , Harriss Eli , Cai Erhui , Balan Valeria , Oti Alexandra , Joseph Reena , Groves Helen , Hart Peter , Jacob Shevin , Blumberg Lucille , Horby Peter W. , Sigfrid Louise 
Published: November 2022

Abstract
Background
The COVID-19 pandemic has highlighted the importance of evidence-based clinical decision-making. Clinical management guidelines (CMGs) may help reduce morbidity and mortality by improving the quality of clinical decisions. This systematic review aims to evaluate the availability, inclusivity, and quality of pandemic influenza CMGs, to identify gaps that can be addressed to strengthen pandemic preparedness in this area.

Methods
Ovid Medline, Ovid Embase, TRIP (Turning Research Into Practice), and Guideline Central were searched systematically from January 2008 to 23rd June 2022, complemented by a grey literature search till 16th June 2022. Pandemic influenza CMGs including supportive care or empirical treatment recommendations were included. Two reviewers independently extracted data from the included studies and assessed their quality using AGREE II (Appraisal of Guidelines for Research & Evaluation). The findings are presented narratively.

Results
Forty-eight CMGs were included. They were produced in high- (42%, 20/48), upper-middle- (40%, 19/48), and lower-middle (8%, 4/48) income countries, or by international organisations (10%, 5/48). Most CMGs (81%, 39/48) were over 5 years old. Guidelines included treatment recommendations for children (75%, 36/48), pregnant women (54%, 26/48), people with immunosuppression (33%, 16/48), and older adults (29%, 14/48). Many CMGs were of low quality (median overall score: 3 out of 7 (range 1–7). All recommended oseltamivir; recommendations for other neuraminidase inhibitors and supportive care were limited and at times contradictory. Only 56% (27/48) and 27% (13/48) addressed oxygen and fluid therapy, respectively.

Conclusions
Our data highlights the limited availability of up-to-date pandemic influenza CMGs globally. Of those identified, many were limited in scope and quality and several lacked recommendations for specific at-risk populations. Recommendations on supportive care, the mainstay of treatment, were limited and heterogeneous. The most recent guideline highlighted that the evidence-base to support antiviral treatment recommendations is still limited. There is an urgent need for trials into treatment and supportive care strategies including for different risk populations. New evidence should be incorporated into globally accessible guidelines, to benefit patient outcomes. A ‘living guideline’ framework is recommended and further research into guideline implementation in different resourced settings, particularly low- and middle-income countries.
Collection of peripheral blood mononucleated cells for chronic graft-versus-host disease immunology research: safety and effectiveness of leukapheresis in 132 patients
Authors: Mina Alain , Curtis Lauren , West Kamille , Yau Yu Ying , Cowen Edward W. , Hakim Frances , Pavletic Steven Z. 
Published: November 2022

Abstract
Background
Chronic graft-versus-host disease (GVHD) is a major cause of late morbidity and non-relapse mortality in recipients of allogeneic hematopoietic cell transplantation (HCT). Its biology, however, remains poorly understood, making the studies of its biology and immunomodulatory therapies a difficult task. Such research is often hampered by lymphopenia which is common in these patients and precludes studies of critical cellular subsets across the spectrum of severity of disease. This study explores the potential of leukapheresis to safely acquire and efficiently store immune cells for immunology research in chronic GVHD.

Methods
This is a cross-sectional study in which 132 consecutively accrued patients undergo optional research leukapheresis and a one-week comprehensive outpatient evaluation. Baseline clinical and laboratory data and efficiency of the procedure were reported.

Results
Ninety-four of 132 patients (71%) achieved the goal collection of 2 × 10^9 PBMNCs with a mean volume processed of 4.6 L. Only mild decreases in hemoglobin, platelet, lymphocyte and monocytes were observed. All adverse events were mild (grade 1) and had resolved by the time of discharge from the apheresis unit.

Conclusion
This study demonstrates feasibility, safety, and efficiency of research leukapheresis in a frail patient population. Results presented promote leukapheresis as a standard research practice option in studies of chronic GVHD in humans which may expedite advances in our understanding of this complex multisystem disease.
Evolution and function of developmentally dynamic pseudogenes in mammals
Authors: Qian Sheng Hu , Chen Lu , Xiong Yu-Li , Chen Zhen-Xia 
Published: November 2022

Abstract
Background
Pseudogenes are excellent markers for genome evolution, which are emerging as crucial regulators of development and disease, especially cancer. However, systematic functional characterization and evolution of pseudogenes remain largely unexplored.

Results
To systematically characterize pseudogenes, we date the origin of human and mouse pseudogenes across vertebrates and observe a burst of pseudogene gain in these two lineages. Based on a hybrid sequencing dataset combining full-length PacBio sequencing, sample-matched Illumina sequencing, and public time-course transcriptome data, we observe that abundant mammalian pseudogenes could be transcribed, which contribute to the establishment of organ identity. Our analyses reveal that developmentally dynamic pseudogenes are evolutionarily conserved and show an increasing weight during development. Besides, they are involved in complex transcriptional and post-transcriptional modulation, exhibiting the signatures of functional enrichment. Coding potential evaluation suggests that 19% of human pseudogenes could be translated, thus serving as a new way for protein innovation. Moreover, pseudogenes carry disease-associated SNPs and conduce to cancer transcriptome perturbation.

Conclusions
Our discovery reveals an unexpectedly high abundance of mammalian pseudogenes that can be transcribed and translated, and these pseudogenes represent a novel regulatory layer. Our study also prioritizes developmentally dynamic pseudogenes with signatures of functional enrichment and provides a hybrid sequencing dataset for further unraveling their biological mechanisms in organ development and carcinogenesis in the future.
Application of maple on computing strong fuzzy chromatic polynomial of fuzzy graphs
Authors: Ashebo Mamo Abebe , Rathour Laxmi , Repalle V. N. SrinivasaRao 
Published: November 2022

Abstract
Objective
In the field of graph theory, maple is a technical computation form that is used for solving problems. In this article, we apply maple to find the strong fuzzy chromatic polynomial of fuzzy graphs and related. Moreover, we apply maple to obtain strong fuzzy chromatic numbers of fuzzy graphs using their strong fuzzy chromatic polynomials.

Results
The strong fuzzy chromatic polynomials for fuzzy graphs, strong fuzzy graphs and complete fuzzy graphs are determined using maple. Furthermore, the strong fuzzy chromatic numbers for the fuzzy graphs are obtained.
Sex differences in the medial prefrontal cortical glutamate system
Authors: Knouse Melissa C. , McGrath Anna G. , Deutschmann Andre U. , Rich Matthew T. , Zallar Lia J. , Rajadhyaksha Anjali M. , Briand Lisa A. 
Published: November 2022

Abstract
Background
Dysregulation in the prefrontal cortex underlies a variety of psychiatric illnesses, including substance use disorder, depression, and anxiety. Despite the established sex differences in prevalence and presentation of these illnesses, the neural mechanisms driving these differences are largely unexplored. Here, we investigate potential sex differences in glutamatergic transmission within the medial prefrontal cortex (mPFC). The goal of these experiments was to determine if there are baseline sex differences in transmission within this region that may underlie sex differences in diseases that involve dysregulation in the prefrontal cortex.

Methods
Adult male and female C57Bl/6J mice were used for all experiments. Mice were killed and bilateral tissue samples were taken from the medial prefrontal cortex for western blotting. Both synaptosomal and total GluA1 and GluA2 levels were measured. In a second set of experiments, mice were killed and ex vivo slice electrophysiology was performed on prepared tissue from the medial prefrontal cortex. Spontaneous excitatory postsynaptic currents and rectification indices were measured.

Results
Females exhibit higher levels of synaptosomal GluA1 and GluA2 in the mPFC compared to males. Despite similar trends, no statistically significant differences are seen in total levels of GluA1 and GluA2. Females also exhibit both a higher amplitude and higher frequency of spontaneous excitatory postsynaptic currents and greater inward rectification in the mPFC compared to males.

Conclusions
Overall, we conclude that there are sex differences in glutamatergic transmission in the mPFC. Our data suggest that females have higher levels of glutamatergic transmission in this region. This provides evidence that the development of sex-specific pharmacotherapies for various psychiatric diseases is important to create more effective treatments.
RAGE displays sex-specific differences in obesity-induced adipose tissue insulin resistance
Authors: Du Zuoqin , Wu Jiaqi , Feng Ziqian , Ma Xiaoyu , Zhang Tao , Shu Xin , Xu Jin , Wang Liqun , Luo Mao , Wu Jianbo 
Published: November 2022

Abstract
Background
The receptor for advanced glycation end products (RAGE) plays an important role in obesity-associated insulin sensitivity. We have also previously reported that RAGE deficiency improved insulin resistance in obesity-induced adipose tissue. The current study was aimed to elucidate the sex-specific mechanism of RAGE deficiency in adipose tissue metabolic regulation and systemic glucose homeostasis.

Methods
RAGE-deficient (RAGE−/−) mice were fed a high-fat diet (HFD) and subjected to glucose and insulin tolerance tests. Subcutaneous adipose tissue (sAT) was collected, and macrophage polarization was assessed by quantitative real-time PCR. Immunoblotting was performed to evaluate the insulin signaling in adipose tissues.

Results
Under HFD feeding conditions, body weight and adipocyte size of female RAGE deficient (RAGE−/−) were markedly lower than that of male mice. Female RAGE−/− mice showed significantly improved glucose and insulin tolerance compared to male RAGE−/− mice, accompanied with increased M2 macrophages polarization. Expressions of genes involved in anti-oxidant and browning were up-regulated in adipose tissues of female RAGE−/− mice. Moreover, insulin-induced AKT phosphorylation was significantly elevated in adipose tissue in female RAGE−/− mice compared to male RAGE−/− mice.

Conclusions
Our findings suggest that RAGE-mediated adipose tissue insulin resistance is sex-specific, which is associated with different expression of genes involved in anti-oxidant and browning and insulin-induced AKT phosphorylation.
Naturally-meaningful and efficient descriptors: machine learning of material properties based on robust one-shot ab initio descriptors
Authors: Tawfik Sherif Abdulkader , Russo Salvy P. 
Published: November 2022

AbstractEstablishing a data-driven pipeline for the discovery of novel materials requires the engineering of material features that can be feasibly calculated and can be applied to predict a material’s target properties. Here we propose a new class of descriptors for describing crystal structures, which we term Robust One-Shot Ab initio (ROSA) descriptors. ROSA is computationally cheap and is shown to accurately predict a range of material properties. These simple and intuitive class of descriptors are generated from the energetics of a material at a low level of theory using an incomplete ab initio calculation. We demonstrate how the incorporation of ROSA descriptors in ML-based property prediction leads to accurate predictions over a wide range of crystals, amorphized crystals, metal–organic frameworks and molecules. We believe that the low computational cost and ease of use of these descriptors will significantly improve ML-based predictions.
Drug characteristics derived from kinetic modeling: combined 11C-UCB-J human PET imaging with levetiracetam and brivaracetam occupancy of SV2A
Authors: Naganawa Mika , Gallezot Jean-Dominique , Finnema Sjoerd J. , Maguire Ralph Paul , Mercier Joël , Nabulsi Nabeel B. , Kervyn Sophie , Henry Shannan , Nicolas Jean-Marie , Huang Yiyun , Chen Ming-Kai , Hannestad Jonas , Klitgaard Henrik , Stockis Armel , Carson Richard E. 
Published: November 2022

AbstractBackgroundAntiepileptic drugs, levetiracetam (LEV) and brivaracetam (BRV), bind to synaptic vesicle glycoprotein 2A (SV2A). In their anti-seizure activity, speed of brain entry may be an important factor. BRV showed faster entry into the human and non-human primate brain, based on more rapid displacement of SV2A tracer11C-UCB-J. To extract additional information from previous human studies, we developed a nonlinear model that accounted for drug entry into the brain and binding to SV2A using brain11C-UCB-J positron emission tomography (PET) data and the time-varying plasma drug concentration, to assess the kinetic parameterK1(brain entry rate) of the drugs.MethodDisplacement (LEV or BRV p.i. 60 min post-tracer injection) and post-dose scans were conducted in five healthy subjects. Blood samples were collected for measurement of drug concentration and the tracer arterial input function. Fitting of nonlinear differential equations was applied simultaneously to time-activity curves (TACs) from displacement and post-dose scans to estimate 5 parameters:K1(drug),K1(11C-UCB-J, displacement),K1(11C-UCB-J, post-dose), free fraction of11C-UCB-J in brain (fND(11C-UCB-J)), and distribution volume of11C-UCB-J (VT(UCB-J)). Other parameters (KD(drug),KD(11C-UCB-J),fP(drug),fP(11C-UCB-J, displacement),fP(11C-UCB-J, post-dose),fND(drug),koff(drug),koff(11C-UCB-J)) were fixed to literature or measured values.ResultsThe proposed model described well the TACs in all subjects; however, estimates of drugK1were unstable in comparison with11C-UCB-JK1estimation. To provide a conservative estimate of the relative speed of brain entry for BRV vs. LEV, we determined a lower bound on the ratio BRVK1/LEVK1, by finding the lowest BRVK1or highest LEVK1that were statistically consistent with the data. Specifically, we used theFtest to compare the residual sum of squares with fixed BRVK1to that with floating BRVK1to obtain the lowest possible BRVK1; the same analysis was performed to find the highest LEVK1. The lower bound of the ratio BRVK1/LEVK1was ~ 7.ConclusionsUnder appropriate conditions, this advanced nonlinear model can directly estimate entry rates of drugs into tissue by analysis of PET TACs. Using a conservative statistical cutoff, BRV enters the brain at least sevenfold faster than LEV.
An increase in Semaphorin 3A biases the axonal direction and induces an aberrant dendritic arborization in an in vitro model of human neural progenitor differentiation
Authors: Ferretti Gabriella , Romano Alessia , Sirabella Rossana , Serafini Sara , Maier Thorsten Jürgen , Matrone Carmela 
Published: November 2022

Abstract
Background
Semaphorins (Sema) belong to a large family of repellent guidance cues instrumental in guiding axons during development. In particular, Class 3 Sema (Sema 3) is among the best characterized Sema family members and the only produced as secreted proteins in mammals, thereby exerting both autocrine and paracrine functions. Intriguingly, an increasing number of studies supports the crucial role of the Sema 3A in hippocampal and cortical neurodevelopment. This means that alterations in Sema 3A signaling might compromise hippocampal and cortical circuits and predispose to disorders such as autism and schizophrenia. Consistently, increased Sema 3A levels have been detected in brain of patients with schizophrenia and many polymorphisms in Sema 3A or in the Sema 3A receptors, Neuropilins (Npn 1 and 2) and Plexin As (Plxn As), have been associated to autism.

Results
Here we present data indicating that when overexpressed, Sema 3A causes human neural progenitors (NP) axonal retraction and an aberrant dendritic arborization. Similarly, Sema 3A, when overexpressed in human microglia, triggers proinflammatory processes that are highly detrimental to themselves as well as NP. Indeed, NP incubated in microglia overexpressing Sema 3A media retract axons within an hour and then start suffering and finally die. Sema 3A mediated retraction appears to be related to its binding to Npn 1 and Plxn A2 receptors, thus activating the downstream Fyn tyrosine kinase pathway that promotes the threonine-serine kinase cyclin-dependent kinase 5, CDK5, phosphorylation at the Tyr15 residue and the CDK5 processing to generate the active fragment p35.

Conclusions
All together this study identifies Sema 3A as a critical regulator of human NP differentiation. This may imply that an insult due to Sema 3A overexpression during the early phases of neuronal development might compromise neuronal organization and connectivity and make neurons perhaps more vulnerable to other insults across their lifespan.
Semi-supervised underwater acoustic source localization based on residual convolutional autoencoder
Authors: Jin Pian , Wang Biao , Li Lebo , Chao Peng , Xie Fangtong 
Published: November 2022

AbstractPassive localization of underwater targets was a thorny problem in underwater acoustics. For traditional model-driven passive localization methods, the main challenges are the inevitable environmental mismatch and the presence of interference and noise everywhere. In recent years, data-driven machine learning approaches have opened up new possibilities for passive localization of underwater acoustics. However, the acquisition and processing of underwater acoustics data are more restricted than other scenarios, and the lack of data is one of the most enormous difficulties in the application of machine learning to underwater acoustics. To take full advantage of the relatively easy accessed unlabeled data, this paper proposes a framework for underwater acoustic source localization based on a two-step semi-supervised learning classification model. The first step is trained in unsupervised mode with the whole available dataset (labeled and unlabeled dataset), and it consists of a convolutional autoencoder (CAE) for feature extraction and self-attention (RA) mechanism for picking more useful features by applying constraints on the CAE. The second step is trained in supervised mode with the labeled dataset, and it consists of a multilayer perceptron connected to an encoder from the first step and is used to perform the source location task. The proposed framework is validated on uniform vertical line array data of SWellEx-96 event S5. Compared with the supervised model and the model without the RA, the proposed framework maintains good localization performance with the reduced labeled dataset, and the proposed framework is more robust when the training dataset and the test dataset of the second step are distributed differently, which is called “data mismatch.”