bluuebunny/crossref_metadata_2025_split huggingface dataset:
Acute blocking of forearm supination secondary to tearing of the triangular fibrocartilage complex
Authors: Suzuki Taku , Nakamura Toshiyasu , Tanino Yoshihiko , Obara Yukihiko , Yoshikawa Yasuhiro , Iwamoto Takuji 
Published: May 2020

We studied the characteristics of acute blocking of supination of the distal radioulnar joint caused by triangular fibrocartilage complex injuries. Twenty-four patients who were treated for acute blocking of supination were retrospectively assessed. Supination was suddenly blocked after minor trauma to the wrist. Active and passive supination was severely restricted with a mean preoperative range of motion (11°), whereas pronation was almost normal. The cause was identified arthroscopically or at open operation. It was found to be a result of avulsion of the dorsal or palmar portion of the radioulnar ligament, which blocked movement of the ulnar head. Blocking was reduced manually in four cases, by arthroscopic surgery in eight cases and by open surgery in 12 cases. After treatment, forearm supination improved to 84° of the mean range of motion. Distal radioulnar joint blocking from a ruptured triangular fibrocartilage complex should be considered in the differential diagnosis of loss of forearm supination. Level of evidence: IV
Postmenopausal osteoporosis is a musculoskeletal disease with a common genetic trait which responds to strength training: a translational intervention study
Authors: Olstad Ole Kristoffer , Gautvik Vigdis Teig , LeBlanc Marissa , Kvernevik Karl Johnny , Utheim Tor Paaske , Runningen Anne , Wiig Håvard , Kirkegaard Camilla , Raastad Truls , Reppe Sjur , Gautvik Kaare Morten 
Published: May 2020

Background: Clinical evidence suggests that body muscle mass is positively associated with bone mass, of significance for the elderly population at risk of osteoporosis (OP). Furthermore, muscle and bone interact mechanically and functionally, via local interactions as well as remotely via secreted components. Thus, it was of interest to compare muscle transcriptomes in postmenopausal OP and healthy women, and study effects of strength training on the muscle transcriptome, muscle stress proteins and bone mineral density (BMD). Methods: Skeletal muscle histological and genetic properties were compared in postmenopausal healthy ( n = 18) and OP ( n = 17) women before and after heavy-load strength training for 13–15 weeks. The cohorts were of similar age and body mass index without interfering diseases, medication or difference in lifestyle factors. Muscle biopsies obtained before and after intervention were studied histologically, and stress proteins and transcriptomes analyzed. Results: The OP women showed distinct muscle transcription profiles when compared with healthy women and had higher levels of the stress proteins HSP70 and α-β-crystalline. A set of 12 muscle transcripts, including ACSS3, FZD4, GNAI1 and IGF1, were differentially expressed before and after intervention (false discovery rate ⩽0.10, p ⩽0.001), and their corresponding bone transcripts were associated with BMD. Experimental data underline and describe the functionality of these genes in bone biology. OP women had 8% ( p <0.01) higher proportion of type I fibres, but muscle fibre cross-sectional area did not differ. Muscle strength increased in both groups ( p <0.01). Conclusions: Postmenopausal healthy and OP women have distinct muscle transcriptomes [messenger ribonucleic acids (mRNAs) and microRNAs] that are modulated by strength training, translating into key protein alterations and muscle fibre changes. The function of common skeletal muscle and bone genes in postmenopausal OP is suggestive of a shared disease trait.
Urosepsis and fever after laser lithotripsy procedures in a single Australian institution
Authors: Lockhart KR , McIlwain E , David G , Raman A 
Published: May 2020

Objective: To identify predictive and modifiable risk factors associated with fever and urosepsis in the post-operative period of ureteropyeloscopy and laser lithotripsy procedures for urolithiasis. Materials and methods: Records from 284 consecutive adult patients undergoing laser lithotripsy at John Hunter Hospital, Australia (2013–2017) were retrospectively reviewed. A wide variety of demographics, results, anaesthetic and operative data were compared between those who developed infectious complications (defined as fever ⩾38 or sepsis from a urinary source) and those who did not. Results: In total, 372 cases of Holmium:YAG laser lithotripsy were included. Despite excellent antibiotic prophylaxis rates, 10.2% ( n=38) of patients developed infectious complications (81.6% within 24 hrs). Urosepsis cases were twice as likely to have a positive pre-operative urine culture ( p=0.0148) and nearly four times as likely to have mixed growth ( p=0.0001). The proportion of smokers was twice as high in the infectious complication group (42.1%, p=0.0017), as was incomplete stone clearance (31.6% compared to 12.3%, p=0.0013), and female patients were twice as likely to develop an infectious complication as men (16.7% of all female cases, 7.1% of all male cases). Conclusion: Infectious complications post laser lithotripsy remain common in the Australian setting. Positive pre-operative urine culture, current smoking status, incomplete stone clearance and female gender were identified as significant risk factors. We propose high-risk patients should be monitored in the post-operative period with a low threshold for extending antibiotic therapy and every opportunity taken for smoking cessation counselling. Level of evidence: 3a (according to Oxford centre for evidence-based medicine)
Validity and reliability of the Indonesian version of the International Index of Erectile Function
Authors: Kloping Yudhistira Pradnyan , Muharram Farizal Rizky , Reswari Ardhina Mahendrata 
Published: May 2020

Objective: This study aimed to evaluate the validity and reliability of the Indonesian-translated version of the International Index of Erectile Function (IIEF-15). Subjects and methods: A total of 100 male participants were involved in this study. Written consent was given by each participant before filling in the questionnaire. The original main structure and domains were kept in the translated version. Pearson product–moment correlation was used to test the validity of the results. The reliability was determined based on the Cronbach’s alpha internal consistency measurement and intraclass correlation coefficient. Results: The Pearson correlation findings indicate an excellent level of validity compared to the critical value table ( r>0.254, p<0.01). Almost every domain shows excellent internal consistency (α>0.9) and good reliability (0.75<α<0.90) except for sexual desire (α=0.631, r=0.461) and overall satisfaction (α=0.705, r=0.545), which show lower but acceptable consistency as well as moderate reliability, respectively. Overall, the questionnaire exhibits promising consistency (α=0.974) and reliability ( r=0.712). Conclusion: The Indonesian version of the IIEF-15 is valid and reliable to be used as both a clinical diagnostic tool and an instrument for further studies focusing on male sexual dysfunction in Indonesia. Level of evidence: Not applicable
Oral Health Behavior of Medical, Dental, and Pharmacology Students in Taif University: A Cross-sectional Study
Authors: Aljauid Abdulaziz Sater , Al-Otaibi Abdullah Owaid , Aldawood Mohammed Mamdoud , Mohamed Roshan Noor , Basha Sakeenabi , Thomali Yousef Al 
Published: May 2020

Aim: Poor oral health and high caries prevalence in young adults in Saudi Arabia is the result of inadequate oral health knowledge and inappropriate oral health behavior. The present study was conducted to evaluate the knowledge, attitude, and oral hygiene behavior of young adult students pursuing professional courses in Taif University, Kingdom of Saudi Arabia. Materials and Methods: A cross-sectional questionnaire survey was conducted amongst the medical, dental, and pharmacy students of Taif University. A pretested self-administered questionnaire containing 20 questions was administered to the students, and the data were analyzed using Statistical Package for Social Sciences (IBM, version 20 for Windows, SPSS Inc., Armonk, New York, USA). Descriptive analysis and difference in the association were measured by using the chi-square test and Kruskal-Wallis analysis of variance, followed by the Mann-Whitney U test. The level of significance was set at .05. Results: A total of 500 (287 males and 213 females) students were involved in the survey with the mean age of 23 ± 1.4 years. Fourteen percent of participants brushed at least twice daily with statistical significant gender difference ( P = .001). For the query regarding the reason for skipping tooth brushing often, 113 of total participants (22.6%) responded as no time for tooth brushing. A total of 93 participants (18.6%) responded that they have not visited any dentist in their life, with the statistical significant difference for gender being P = .001. The student who received dental treatment from private hospitals was 60.4 percent. Fifty-one percent of students responded that dental treatment is expensive. Sixty-one percent of participants responded for consuming sweet at least once in a day ( P = .04). Conclusion: The present study highlights the inconsistency in oral health behavior among the study participants, emphasizing on the need for oral health education of the population to improve oral health status.
SuccessfulPseudomonas aeruginosaeradication improves outcomes after lung transplantation: a retrospective cohort analysis
Authors: De Muynck Benedicte , Van Herck Anke , Sacreas Annelore , Heigl Tobias , Kaes Janne , Vanstapel Arno , Verleden Stijn E. , Neyrinck Arne P. , Ceulemans Laurens J. , Van Raemdonck Dirk E. , Lagrou Katrien , Vanaudenaerde Bart M. , Verleden Geert M. , Vos Robin 
Published: May 2020

Long-term survival after lung transplantation (LTx) is hampered by development of chronic lung allograft dysfunction (CLAD).Pseudomonas aeruginosais an established risk factor for CLAD. Therefore, we investigated the effect ofP. aeruginosaeradication on CLAD-free and graft survival.Patients who underwent first LTx between July, 1991, and February, 2016, and were free from CLAD, were retrospectively classified according toP. aeruginosapresence in respiratory samples between September, 2011, and September, 2016.P. aeruginosa-positive patients were subsequently stratified according to success ofP. aeruginosaeradication following targeted antibiotic treatment. CLAD-free and graft survival were compared betweenP. aeruginosa-positive andP. aeruginosa-negative patients; and between patients with or without successfulP. aeruginosaeradication. In addition, pulmonary function was assessed during the first year followingP. aeruginosaisolation in both groups.CLAD-free survival ofP. aeruginosa-negative patients (n=443) was longer compared withP. aeruginosa-positive patients (n=95) (p=0.045). Graft survival ofP. aeruginosa-negative patients (n=443, 82%) was better compared withP. aeruginosa-positive patients (n=95, 18%) (p<0.0001). Similarly,P. aeruginosa-eradicated patients demonstrated longer CLAD-free and graft survival compared with patients with persistentP. aeruginosa. Pulmonary function was higher in successfullyP. aeruginosa-eradicated patients compared with unsuccessfully eradicated patients (p=0.035).P. aeruginosaeradication after LTx improves CLAD-free and graft survival and maintains pulmonary function. Therefore, earlyP. aeruginosadetection and eradication should be pursued.
Microstructural changes in the trigeminal nerve of patients with episodic migraine assessed using magnetic resonance imaging
Authors: Mungoven Tiffani J. , Meylakh Noemi , Marciszewski Kasia K. , Macefield Vaughan G. , Macey Paul M. , Henderson Luke A. 
Published: May 2020

Abstract
Background
There is histological evidence of microstructural changes in the zygomaticotemporal branch of the trigeminal nerve in migraineurs. This raises the possibility that altered trigeminal nerve properties contribute to migraine pathophysiology. Whilst it is not possible to explore the anatomy of small trigeminal nerve branches it is possible to explore the anatomy of the trigeminal root entry zone using magnetic resonance imaging in humans. The aim of this investigation is to assess the microstructure of the trigeminal nerve in vivo to determine if nerve alterations occur in individuals with episodic migraine.

Methods
In 39 migraineurs and 39 matched controls, T1-weighted anatomical images were used to calculate the volume (mm3) and maximal cross-sectional area of the trigeminal nerve root entry zone; diffusion tensor images were used to calculate fractional anisotropy, mean diffusion, axial diffusion and radial diffusion.

Results
There were significant differences between the left and right nerve of controls and migraineurs with respect to volume and not cross-sectional area. Migraineurs displayed reduced axial diffusion in the right nerve compared to the left nerve, and reduced fractional anisotropy in the left nerve compared to left controls. Furthermore, although there were no differences in mean diffusion or radial diffusion, regional analysis of the nerve revealed significantly greater radial diffusion in the middle and rostral portion of the left trigeminal nerve in migraineurs compared with controls.

Conclusions
Migraine pathophysiology is associated with microstructural abnormalities within the trigeminal nerve that are consistent with histological evidence of altered myelin and/or organization. These peripheral nerve changes may provide further insight into migraine pathophysiology and enable a greater understanding for targeted treatments of pain alleviation.
A Bayesian data fusion based approach for learning genome-wide transcriptional regulatory networks
Authors: Sauta Elisabetta , Demartini Andrea , Vitali Francesca , Riva Alberto , Bellazzi Riccardo 
Published: May 2020

Abstract
Background
Reverse engineering of transcriptional regulatory networks (TRN) from genomics data has always represented a computational challenge in System Biology. The major issue is modeling the complex crosstalk among transcription factors (TFs) and their target genes, with a method able to handle both the high number of interacting variables and the noise in the available heterogeneous experimental sources of information.

Results
In this work, we propose a data fusion approach that exploits the integration of complementary omics-data as prior knowledge within a Bayesian framework, in order to learn and model large-scale transcriptional networks. We develop a hybrid structure-learning algorithm able to jointly combine TFs ChIP-Sequencing data and gene expression compendia to reconstruct TRNs in a genome-wide perspective. Applying our method to high-throughput data, we verified its ability to deal with the complexity of a genomic TRN, providing a snapshot of the synergistic TFs regulatory activity.
Given the noisy nature of data-driven prior knowledge, which potentially contains incorrect information, we also tested the method’s robustness to false priors on a benchmark dataset, comparing the proposed approach to other regulatory network reconstruction algorithms. We demonstrated the effectiveness of our framework by evaluating structural commonalities of our learned genomic network with other existing networks inferred by different DNA binding information-based methods.

Conclusions
This Bayesian omics-data fusion based methodology allows to gain a genome-wide picture of the transcriptional interplay, helping to unravel key hierarchical transcriptional interactions, which could be subsequently investigated, and it represents a promising learning approach suitable for multi-layered genomic data integration, given its robustness to noisy sources and its tailored framework for handling high dimensional data.
MethGET: web-based bioinformatics software for correlating genome-wide DNA methylation and gene expression
Authors: Teng Chin-Sheng , Wu Bing-Heng , Yen Ming-Ren , Chen Pao-Yang 
Published: May 2020

AbstractBackgroundDNA methylation is a major epigenetic modification involved in regulating gene expression. The effects of DNA methylation on gene expression differ by genomic location and vary across kingdoms, species and environmental conditions. To identify the functional regulatory roles of DNA methylation, the correlation between DNA methylation changes and alterations in gene expression is crucial. With the advance of next-generation sequencing, genome-wide methylation and gene expression profiling have become feasible. Current bioinformatics tools for investigating such correlation are designed to the assessment of DNA methylation at CG sites. The correlation of non-CG methylation and gene expression is very limited. Some bioinformatics databases allow correlation analysis, but they are limited to specific genomes such as that of humans and do not allow user-provided data.ResultsHere, we developed a bioinformatics web tool, MethGET (Methylation and Gene Expression Teller), that is specialized to analyse the association between genome-wide DNA methylation and gene expression. MethGET is the first web tool to which users can supply their own data from any genome. It is also the tool that correlates gene expression with CG, CHG, and CHH methylation based on whole-genome bisulfite sequencing data. MethGET not only reveals the correlation within an individual sample (single-methylome) but also performs comparisons between two groups of samples (multiple-methylomes). For single-methylome analyses, MethGET provides Pearson correlations and ordinal associations to investigate the relationship between DNA methylation and gene expression. It also groups genes with different gene expression levels to view the methylation distribution at specific genomic regions. Multiple-methylome analyses include comparative analyses and heatmap representations between two groups. These functions enable the detailed investigation of the role of DNA methylation in gene regulation. Additionally, we applied MethGET to rice regeneration data and discovered that CHH methylation in the gene body region may play a role in the tissue culture process, which demonstrates the capability of MethGET for use in epigenomic research.ConclusionsMethGET is a Python software that correlates DNA methylation and gene expression. Its web interface is publicly available athttps://paoyang.ipmb.sinica.edu.tw/Software.html. The stand-alone version and source codes are available on GitHub athttps://github.com/Jason-Teng/MethGET.
Co-occurrence pattern and function prediction of bacterial community in Karst cave
Authors: Dong Yiyi , Gao Jie , Wu Qingshan , Ai Yilang , Huang Yu , Wei Wenzhang , Sun Shiyu , Weng Qingbei 
Published: May 2020

AbstractBackgroundKarst caves are considered as extreme environments with nutrition deficiency, darkness, and oxygen deprivation, and they are also the sources of biodiversity and metabolic pathways. Microorganisms are usually involved in the formation and maintenance of the cave system through various metabolic activities, and are indicators of changes environment influenced by human. Zhijin cave is a typical Karst cave and attracts tourists in China. However, the bacterial diversity and composition of the Karst cave are still unclear. The present study aims to reveal the bacterial diversity and composition in the cave and the potential impact of tourism activities, and better understand the roles and co-occurrence pattern of the bacterial community in the extreme cave habitats.ResultsThe bacterial community consisted of the major Proteobacteria, Actinobacteria, and Firmicutes, with Proteobacteria being the predominant phylum in the rock, soil, and stalactite samples. Compositions and specialized bacterial phyla of the bacterial communities were different among different sample types. The highest diversity index was found in the rock samples with a Shannon index of 4.71. Overall, Zhijin cave has relatively lower diversity than that in natural caves. The prediction of function showed that various enzymes, including ribulose-bisphosphate carboxylase, 4-hydroxybutyryl-CoA dehydratase, nitrogenase NifH, and Nitrite reductase, involved in carbon and nitrogen cycles were detected in Zhijin cave. Additionally, the modularity indices of all co-occurrence network were greater than 0.40 and the species interactions were complex across different sample types. Co-occurring positive interactions in the bacteria groups in different phyla were also observed.ConclusionThese results uncovered that the oligotrophic Zhijin cave maintains the bacterial communities with the diverse metabolic pathways, interdependent and cooperative co-existence patterns. Moreover, as a hotspot for tourism, the composition and diversity of bacterial community are influenced by tourism activities. These afford new insights for further exploring the adaptation of bacteria to extreme environments and the conservation of cave ecosystem.
Dl-3-n-Butylphthalide promotes neovascularization and neurological recovery in a rat model of intracerebral hemorrhage
Authors: Tu Ewen , Chen Qiong , Tan Li , Wang Yan 
Published: May 2020

AbstractBackgroundCerebral stroke occurs following ischemic and hemorrhagic lesions in the brain. Survival and recovery of stroke patients depend on the severity of the initial injury but also the therapeutic approaches applied for emergent lifesaving and continuing post-stroke management. Dl-3-n-Butylphthalide (NBP), an active compound derived from Chinese celery seeds, has shown clinical efficacy in the treatment of ischemic cerebral stroke.ResultsIn the present study we explored the therapeutic effect of NBP in a rat model of intracerebral hemorrhage (ICH), focusing on its potential role in promoting neovascularization in the perihemorrhagic zone. ICH was induced in male Sprague-Dawley rats by unilateral injection of autologous blood into the globus pallidus, with sham-operated (Sham group), vehicle-treated (ICH) and NBP-treated (at 10 and 25 mg/kg/Bid, p.o., ICH + NBP10 and ICH + NBP25, respectively) groups examined behaviorally, macroscopically, histologically and biochemically at 1, 3, 7 and 15 days (d) post operation. Rats in the ICH + NBP10 and ICH + NBP25 groups showed reduced Longa’s motor scores relative to the ICH groups at the 3 and 7d time points, while the hematoma volume was comparable in the two NBP relative to the ICH groups as measured at 7d and 15d. In the perihemorrhagic zone, the numeric density of blood vessels immunolabeled by CD34, an angiogenic marker, was greater in the ICH + NBP10 and ICH + NBP25 than ICH groups, more so in the higher dosage group, at 1, 3, 7 and 15d. Levels of the vascular endothelial growth factor (VEGF) and angiopoietins-2 (Ang-2) proteins were elevated in the NBP groups relative to the sham and vehicle controls in immunoblotting of tissue lysates from the injection region.ConclusionThese results suggest that NBP can alleviate neurological defects following experimentally induced local brain hemorrhage, which is associated with a potential role of this drug in promoting neovascularization surrounding the bleeding loci.