bluuebunny/crossref_metadata_2025_split huggingface dataset:
The Significance of Physical Activity Education: A Survey of Medical Students
Authors: Panton Zachary A. , Smith Shannon , Duggan Michael , Kodali Anahita , Donaghue Jack F. , Riew Grant J. , Seward Michael , Briggs Logan G. 
Published: August 2023

Introduction Less than 20% of US adults meet physical activity (PA) recommendations, yet few physicians provide consistent PA counseling. There is limited research on the state of education of PA counseling in medical school curricula. The purpose of this study was to analyze medical students’ perspectives on the current state and perceived quality of PA education in medical school. Methods An online survey was administered to the students of nine United States medical schools in January 2021. Descriptive statistics were used to analyze results. Results Of 5500 invited students, 1182 (21.5%) responded. Only 8% of students received any formal training on PA counseling for patient or self-use throughout their medical education. The majority (64% and 85%, respectively) of respondents felt that both learning more about the benefits of PA and gaining more practical skills in counseling on PA should be requirements to graduate. Students across all medical school years agreed that formal training on patient counseling for PA should be taught more in-depth. Conclusions Medical students believe that PA and exercise physiology should comprise more of medical education curricula. Such training may equip students with the tools they believe they need to adequately treat patients effectively throughout their careers.
The brain functional connectivity alterations in traumatic patients with olfactory disorder after low-level laser therapy demonstrated by fMRI
Authors: Hosseini Seyedeh Fahimeh , Farhadi Mohammad , Alizadeh Rafieh , Ghanbari Hadi , Maleki Shayan , Zare-Sadeghi Arash , Kamrava Seyed Kamran 
Published: August 2023

Background Low-level laser therapy (LLLT) has been clinically accepted to accelerate the nerve regeneration process after a nerve injury or transection. We aimed to investigate the neuronal basis and the influence of LLLT on brain functional networks in traumatic patients with olfactory dysfunction. Methods Twenty-four Patients with traumatic anosmia/hyposmia were exposed to pleasant olfactory stimuli during a block-designed fMRI session. After a 10-week period, patients as control group and patients who had completed the sessions of LLLT were invited for follow-up testing using the same fMRI protocol. Two-sample t-tests were conducted to explore group differences in activation responding to odorants ( p-FDR-corrected <0.05). Differences of functional connectivity were compared between the two groups and the topological features of the olfactory network were calculated. Correlation analysis was performed between graph parameters and TDI score. Results Compared to controls, laser-treated patients showed increased activation in the cingulate, rectus gyrus, and some parts of the frontal gyrus. Shorter pathlength ( p = 0.047) and increased local efficiency ( p = 0.043) within the olfactory network, as well as decreased inter-network connectivity within the whole brain were observed in patients after laser surgery. Moreover, higher clustering and local efficiency were related to higher TDI score, as manifested in increased sensitivity to identify odors. Conclusions The results support that low-level laser induces neural reorganization process and make new connections in the olfactory structures. Furthermore, the connectivity parameters may serve as potential biomarkers for traumatic anosmia or hyposmia by revealing the underlying neural mechanisms of LLLT.
Interaction of porous substrate and vegetable oil-based hydrophobic thermoset coatings during UV-polymerization
Authors: Husić Indira , Mahendran Arunjunai Raj , Sinic Judith , Jocham Christoph , Lammer Herfried 
Published: August 2023

In the current study, we report the progress in developing new UV polymerizable hydrophobic biobased coatings from modified vegetable oil for porous substrates like paper and wood. The aim was to produce novel hydrophobic coatings on porous substrates and investigate how the porous nature of the substrates will be affected by different chemical formulations that penetrate into the interior of the substrate during the exposure to different intensities of UV light, and what hydrophobic properties that interaction will result in. The curing formulations were based on acrylated epoxidized linseed oil (AELO) as a prepolymer. For the UV polymerization, 1-hydroxycyclohexyl phenyl ketone (Irgacure 184) was used as a photoinitiator; isobornyl acrylate (IBA) and isosorbide methacrylate (IM) were used as bio-based diluents; hexadecyltrimethoxysilane (HDTMS), vinyl-polydimethylsiloxane (v-PDMS), triethoxyoctylsilane (TEOS) were used as hydrophobic additives and they were added in different concentrations to the AELO curing formulations. The formulations were then cured under UV light on wood and paper substrates. FT-IR analysis showed that the AELO resin was successfully polymerized on both paper and wood substrates, and by contact angle measurements it was found that the highest hydrophobicity was achieved for the coatings that contain HDTMS (108° in average). The layer thickness on wood substrates was in between 9 and 20 µm, and on paper substrates between 8 and 24 µm. Only about a 5° difference in contact angle was observed between the coatings with respect to change in diluents and different UV light intensity. All cured samples showed a good chemical resistance to acetic acid, citric acid and ethyl alcohol after 1 hour exposure; to acetone and ethylbutyl acetate after 10 s, and to benzine after 2 minutes. Outstanding hydrophobic behavior was observed for the HDTMS coatings, however, better physical properties were determined for the coatings containing v-PDMS and TEOS, on which the scratching was observed after the applied force of 1.5 and 0.6 N in comparison to HDTMS coatings (0.4 N). The resulting properties achieved for the AELO coatings indicated that it has a potential to be used for wood coating and packaging application.
Vaccine-elicited B- and T-cell immunity to SARS-CoV-2 is impaired in chronic lung disease patients
Authors: Liu Haolin , Aviszus Katja , Zelarney Pearlanne , Liao Shu-Yi , Gerber Anthony N. , Make Barry , Wechsler Michael E. , Marrack Philippa , Reinhardt R. Lee 
Published: August 2023

Background
While vaccination against severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) provides significant protection from coronavirus disease 2019, the protection afforded to individuals with chronic lung disease is less well established. This study seeks to understand how chronic lung disease impacts SARS-CoV-2 vaccine-elicited immunity.

Methods
Deep immune phenotyping of humoral and cell-mediated responses to the SARS-CoV-2 vaccine was performed in patients with asthma, COPD and interstitial lung disease (ILD) compared to healthy controls.

Results

48% of vaccinated patients with chronic lung diseases had reduced antibody titres to the SARS-CoV-2 vaccine antigen relative to healthy controls. Vaccine antibody titres were significantly reduced among asthma (p<0.035), COPD (p<0.022) and a subset of ILD patients as early as 3–4 months after vaccination, correlating with decreased vaccine-specific memory B-cells in circulation. Vaccine-specific memory T-cells were significantly reduced in patients with asthma (CD8
+
p<0.004; CD4
+
p<0.023) and COPD (CD8
+
p<0.008) compared to healthy controls. Impaired T-cell responsiveness was also observed in a subset of ILD patients (CD8
+
21.4%; CD4
+
42.9%). Additional heterogeneity between healthy and disease cohorts was observed among bulk and vaccine-specific follicular T-helper cells.

Conclusions
Deep immune phenotyping of the SARS-CoV-2 vaccine response revealed the complex nature of vaccine-elicited immunity and highlights the need for more personalised vaccination schemes in patients with underlying lung conditions.
Real-world effectiveness, satisfaction, and optimization of ubrogepant for the acute treatment of migraine in combination with onabotulinumtoxinA: results from the COURAGE Study
Authors: Manack Adams Aubrey , Hutchinson Susan , Engstrom Ella , Ayasse Nicolai D. , Serrano Daniel , Davis Linda , Sommer Katherine , Contreras-De Lama Janette , Lipton Richard B. 
Published: August 2023

Abstract
Background
Individuals using onabotulinumtoxinA as a preventive migraine treatment often use acute treatments for breakthrough attacks. Data on real-world effectiveness of the small-molecule calcitonin gene–related peptide (CGRP) receptor antagonist ubrogepant in combination with onabotulinumtoxinA are limited.

Methods
COURAGE, a prospective, multiple attack, observational study, evaluated the real-world effectiveness of ubrogepant (50 or 100 mg) for acute treatment of migraine in people receiving onabotulinumtoxinA, an anti-CGRP monoclonal antibody (mAb), or both. This analysis focused only on onabotulinumtoxinA users. The Migraine Buddy app was used to identify eligible participants and track response to treated attacks. For each ubrogepant-treated attack, meaningful pain relief (MPR) and return to normal function (RNF) at 2 and 4 h post-dose over 30 days was assessed. MPR was defined as a level of relief that is meaningful to the participant, usually occurring before the pain is all gone. After 30 days, satisfaction was reported on a 7-point scale and overall acute treatment optimization was evaluated using the migraine Treatment Optimization Questionnaire-4 (mTOQ-4).

Results
This analysis included 122 participants who received ubrogepant and onabotulinumtoxinA and reported on 599 ubrogepant-treated attacks. Following the first ubrogepant-treated attack, MPR was achieved in 53.3% of participants 2 h post-dose and in 76.2% of participants 4 h post-dose. RNF was achieved in 25.4% of participants 2 h post-dose and in 45.9% of participants 4 h post-dose. MPR and RNF results were similar across up to 10 ubrogepant-treated attacks. After 30 days, satisfaction with ubrogepant in combination with onabotulinumtoxinA was reported by 69.8% of participants and acute treatment optimization (defined as mTOQ-4 score ≥ 4) was achieved in 77.6%.

Conclusions
In this prospective real-world effectiveness study, ubrogepant treatment in onabotulinumtoxinA users with self-identified migraine was associated with high rates of MPR and RNF at 2 and 4 h as well as satisfaction and acute treatment optimization. Although the lack of a contemporaneous control group limits causal inference, these findings demonstrate the feasibility of using a novel, app-based design to evaluate the real-world effectiveness and satisfaction of treatments.

Graphical Abstract
Emergency departments as under-utilized venues to provide HIV prevention services to female sex workers in Nairobi, Kenya
Authors: Poxon Amanda , Leis Maria , McDermott Miranda , Kariri Antony , Kaul Rupert , Kimani Joshua 
Published: August 2023

Abstract
Background
Female sex workers (FSW) in sub-Saharan Africa are disproportionately affected by HIV and remain a key target population for efforts to reduce transmission. While HIV prevention tools such as PEP and PrEP are available through outpatient FSW clinics, these services are underused. Emergency medicine is a rapidly expanding field in Kenya and may provide a novel venue for initiating or optimizing HIV prevention services. This study examined the characteristics of FSW from Nairobi, Kenya, who had utilized an emergency department (ED) during the past year to broaden our understanding of the patient factors related to usage.

Methods
An anonymous questionnaire was administered to a convenience sample of 220 Nairobi FSW attending dedicated clinics from June to July 2019. The participants were categorized into those who attended an ED over the past year (acute care users) and clinic-only users (control). A modified version of the WHO Violence Against Women Instrument assessed gender-based violence. Multivariable negative binomial logistic regressions evaluated predictors of health care use among these populations.

Results
Of the total 220 women (median [IQR] age 32 [27–39]), 101 and 116 were acute care and control populations, respectively. Acute care users had 12.7 ± 8.5 healthcare visits over a 12-month period, and the control population had 9.1 ± 7.0 (p < 0.05). ED attendance did not improve the PrEP usage, with 48.5%, and 51% of acute care and clinic users indicated appropriate PrEP use. Patient factors that correlated with health care utilization among acute care users included client sexual violence (OR 2.2 [1.64–2.94], p < 0.01), PrEP use (OR 1.54 (1.25–1.91), < 0.01), and client HIV status (OR 1.35 (1.02–1.69), p < 0.01).

Conclusions
Many FSW at high risk for HIV were not accessing HIV prevention tools despite attending a dedicated FSW clinic offering such services. FSW who had attended an ED over the past year had a higher prevalence of HIV risk factors, demonstrating that emergency departments may be important acute intervention venues to prevent HIV transmission in this population. These results can guide policy design, health care provider training, and facility preparedness to support strategies aimed at improving HIV prevention strategies for FSW in Kenyan ED’s.
Understanding the effects of resolving nautical bottlenecks on the Danube: a KPI-based conceptual framework
Authors: Duldner-Borca Bianca , van Hassel Edwin , Putz-Egger Lisa-Maria 
Published: August 2023

Abstract
Background
Shifting cargo from roads to eco-friendly inland waterway transport (IWT) is an important step towards reaching the decarbonization goals defined by the European Green Deal. The rehabilitation of nautical bottlenecks is essential to reach the fairway depth which is needed to allow a competitive transport on inland waterways.

Aim
The goal of this paper is to (1) identify key performance indicators (KPI) associated with nautical bottlenecks caused by insufficient maintenance, (2) understand the effects of resolving nautical bottlenecks on the identified KPIs and (3) develop a conceptual framework.

Methods
To develop the conceptual framework, we carried out a systematic literature review. We analysed the identified literature using qualitative content analysis and thus, derived relevant KPIs and their interdependencies.

Findings
Ten KPIs were identified, which could be clustered as being either IWT-related, market-related or location-related. One example for an IWT-related KPI is the vessel draft, while market-related KPIs are e.g., referring to the KPI modal share and location-related KPIs to other KPIs such as fairway depth.

Contribution
The conceptual framework visualizes the interdependencies between the KPIs and facilitates further research in this field, i.e., the development of a method for the evaluation of economic benefits of resolving nautical bottlenecks on inland waterways. A scientific method that allows the economic evaluation of resolving nautical bottlenecks it is essential to demonstrates the gain in quantitative net benefit if water levels are sufficient. A quantification of the net benefit serves as a motivator to intensify maintenance work on nautical bottlenecks and to facilitate decision-making regarding infrastructure projects.
Boosting variant-calling performance with multi-platform sequencing data using Clair3-MP
Authors: Yu Huijing , Zheng Zhenxian , Su Junhao , Lam Tak-Wah , Luo Ruibang 
Published: August 2023

Abstract
Background
With the continuous advances in third-generation sequencing technology and the increasing affordability of next-generation sequencing technology, sequencing data from different sequencing technology platforms is becoming more common. While numerous benchmarking studies have been conducted to compare variant-calling performance across different platforms and approaches, little attention has been paid to the potential of leveraging the strengths of different platforms to optimize overall performance, especially integrating Oxford Nanopore and Illumina sequencing data.

Results
We investigated the impact of multi-platform data on the performance of variant calling through carefully designed experiments with a deep learning-based variant caller named Clair3-MP (Multi-Platform). Through our research, we not only demonstrated the capability of ONT-Illumina data for improved variant calling, but also identified the optimal scenarios for utilizing ONT-Illumina data. In addition, we revealed that the improvement in variant calling using ONT-Illumina data comes from an improvement in difficult genomic regions, such as the large low-complexity regions and segmental and collapse duplication regions. Moreover, Clair3-MP can incorporate reference genome stratification information to achieve a small but measurable improvement in variant calling. Clair3-MP is accessible as an open-source project at: https://github.com/HKU-BAL/Clair3-MP.

Conclusions
These insights have important implications for researchers and practitioners alike, providing valuable guidance for improving the reliability and efficiency of genomic analysis in diverse applications.
Genetic architecture and key regulatory genes of fatty acid composition in Gushi chicken breast muscle determined by GWAS and WGCNA
Authors: Fan Shengxin , Yuan Pengtao , Li Shuaihao , Li Hongtai , Zhai Bin , Li Yuanfang , Zhang Hongyuan , Gu Jinxin , Li Hong , Tian Yadong , Kang Xiangtao , Zhang Yanhua , Li Guoxi 
Published: August 2023

AbstractBackgroundFatty acids composition in poultry muscle is directly related to its tenderness, flavour, and juiciness, whereas its genetic mechanisms have not been elucidated. In this study, the genetic structure and key regulatory genes of the breast muscle fatty acid composition of local Chinese chicken, Gushi-Anka F2 resource population by integrating genome-wide association study (GWAS) and weighted gene co-expression network analysis (WGCNA) strategies. GWAS was performed based on 323,306 single nucleotide polymorphisms (SNPs) obtained by genotyping by sequencing (GBS) method and 721 chickens from the Gushi-Anka F2 resource population with highly variable fatty acid composition traits in the breast muscle. And then, according to the transcriptome data of the candidate genes that were obtained and phenotypic data of fatty acid composition traits in breast muscle of Gushi chickens at 14, 22, and 30 weeks of age, we conducted a WGCNA.ResultsA total of 128 suggestive significantly associated SNPs for 11 fatty acid composition traits were identified and mapped on chromosomes (Chr) 2, 3, 4, 5, 13, 17, 21, and 27. Of these, the two most significant SNPs were Chr13:5,100,140 (P = 4.56423e-10) and Chr13:5,100,173 (P = 4.56423e-10), which explained 5.6% of the phenotypic variation in polyunsaturated fatty acids (PUFA). In addition, six fatty acid composition traits, including C20:1, C22:6, saturated fatty acid (SFA), unsaturated fatty acids (UFA), PUFA, and average chain length (ACL), were located in the same QTL intervals on Chr13. We obtained 505 genes by scanning the linkage disequilibrium (LD) regions of all significant SNPs and performed a WGCNA based on the transcriptome data of the above 505 genes. Combining two strategies, 9 hub genes (ENO1,ADH1, ASAH1, ADH1C, PIK3CD, WISP1, AKT1,PANK3, andC1QTNF2) were finally identified, which could be the potential candidate genes regulating fatty acid composition traits in chicken breast muscle.ConclusionThe results of this study deepen our understanding of the genetic mechanisms underlying the regulation of fatty acid composition traits, which is helpful in the design of breeding strategies for the subsequent improvement of fatty acid composition in poultry muscle.
Characterization of a strain-specific CD-1 reference genome reveals potential inter- and intra-strain functional variability
Authors: Jung Yoon Hee , Wang Hsiao-Lin V. , Ali Samir , Corces Victor G. , Kremsky Isaac 
Published: August 2023

Abstract
Background
CD-1 is an outbred mouse stock that is frequently used in toxicology, pharmacology, and fundamental biomedical research. Although inbred strains are typically better suited for such studies due to minimal genetic variability, outbred stocks confer practical advantages over inbred strains, such as improved breeding performance and low cost. Knowledge of the full genetic variability of CD-1 would make it more useful in toxicology, pharmacology, and fundamental biomedical research.

Results
We performed deep genomic DNA sequencing of CD-1 mice and used the data to identify genome-wide SNPs, indels, and germline transposable elements relative to the mm10 reference genome. We used multiple genome-wide sequencing data types and previously published CD-1 SNPs to validate our called variants. We used the called variants to construct a strain-specific CD-1 reference genome, which we show can improve mappability and reduce experimental biases from genome-wide sequencing data derived from CD-1 mice. Based on previously published ChIP-seq and ATAC-seq data, we find evidence that genetic variation between CD-1 mice can lead to alterations in transcription factor binding. We also identified a number of variants in the coding region of genes which could have effects on translation of genes.

Conclusions
We have identified millions of previously unidentified CD-1 variants with the potential to confound studies involving CD-1. We used the identified variants to construct a CD-1-specific reference genome, which can improve accuracy and reduce bias when aligning genomics data derived from CD-1 mice.
The sleep patterns and their associations with mental health among nursing home residents: a latent profile approach
Authors: Mou Huanyu , Xu Dongjuan , Zhu Shanshan , Zhao Meng , Wang Yaqi , Wang Kefang 
Published: August 2023

Abstract
Background
Nursing home residents commonly experience poor sleep conditions. However, few studies have explored the potential sleep patterns among nursing home residents. This study aimed to identify the sleep patterns in nursing home residents, compare residents’ characteristics across sleep patterns, and examine the relationships between sleep patterns and residents’ mental health (i.e., depressive and anxiety symptoms).

Methods
This cross-sectional study was conducted in 27 nursing homes in Jinan, China, from March to June 2018. In total, 353 participants were recruited via convenience sampling, and of which, 326 completed the survey. A latent profile analysis was performed to identify sleep patterns based on the seven dimensions of the Pittsburgh Sleep Quality Index. Bivariate analyses were conducted to compare residents’ characteristics among the sleep patterns. Mixed-effects logistic regression analyses were adopted to investigate the relationships between sleep patterns and residents’ mental health.

Results
Three sleep patterns were identified, including ‘good sleepers’, ‘poor sleepers without hypnotic use’, and ‘poor sleepers with hypnotic use’. Residents’ gender, education, pain, instrumental activities of daily living, and number of chronic conditions were significantly differentiated across the sleep patterns. Compared with ‘good sleepers’, ‘poor sleepers without hypnotic use’ were significantly associated with more depressive symptoms (OR = 3.73, 95% CI = 2.09, 6.65, p < 0.001), but not with anxiety symptoms (OR = 2.04, 95% CI = 0.97, 4.29, p = 0.062); whereas ‘poor sleepers with hypnotic use’ had significantly more depressive (OR = 5.24, 95% CI = 2.54, 10.79, p < 0.001) and anxiety symptoms (OR = 5.02, 95% CI = 2.13, 11.83, p < 0.001).

Conclusions
This study reveals three distinct sleep patterns in nursing home residents and their significant associations with residents’ mental health. These findings can inform future research to develop appropriate and tailored intervention strategies for improving sleep and promoting mental health for nursing home residents.