bluuebunny/crossref_metadata_2025_split huggingface dataset:
Video Analysis of Pectoralis Major Injuries in Professional Australian Football Players
Authors: Schwab Laura , Warby Sarah , Davis Katherine , Campbell Peter , Hoy Simon , Zbeda Robert , Hoy Gregory 
Published: August 2022

Background: There is little evidence regarding the mechanisms of pectoralis major (PM) injury and player outcomes in Australian Football League (AFL) players. Purposes/Hypothesis: The study aims were to investigate (1) the mechanisms of PM muscle injury in elite AFL players via video analysis and (2) the player profile, method of management, and clinical outcomes of the PM injuries sustained. We hypothesized that the majority of PM tears would occur in outer-range PM positions (hyperextension of the glenohumeral joint). Study Design: Case series; Level of evidence, 4. Methods: We analyzed video of the precipitating event for traumatic PM injuries during AFL competition or training over a 20-year period (2002-2021). The footage was analyzed by 4 experienced assessors, and the following were evaluated: mechanism of injury, injury variables (arm position, initial contact point, visual awareness, and use of taping), player characteristics (age at the time of injury, hand dominance, and history of injury), injury profile (location and size of tear), method of management (operative vs nonoperative), patient outcomes (time to return to full senior training/match play), and complication rates. Results: The mean ± standard deviation age of the players was 26.5 ± 3.1 years (range, 21-32 years). Overall, 22 PM injuries were identified in the AFL injury database for a rate of 1.1 per year; 16 of these injuries had accompanying video footage. We identified 3 mechanisms for PM injury: horizontal hyperextension (62.5%), hyperflexion-abduction (25.0%), and horizontal adduction (sustained tackling; 12.5%). The most common site of the tear was the insertion point of the sternocostal head (91.0%). Twenty players (91.0%) required surgical repair, with 75% undergoing surgery within 1 week (range, 0-26 weeks). The mean return to competition for the surgical repair group was 11.1 weeks (range, 8-15 weeks). The rerupture rate was 5.0% (1 repair; <4 weeks postoperatively in 2004). Conclusion: PM tears in elite male AFL players were due to 1 of 3 distinct mechanisms: horizontal hyperextension, hyperflexion-abduction, and horizontal adduction (sustained tackling). Players returned to play on average 11 weeks after injury. Knowledge regarding mechanisms of injury, player profile, and return-to-sport timelines is important for appropriate medical management and provides potential areas to target for prevention of PM injuries.
Adsorption of crystal violet on kaolinite clay: kinetic and equilibrium study using non-linear models
Authors: Boukhemkhem Ali , Aissa-Ouaissi-Sekkouti Bamhammed , Bedia Jorge , Belver Carolina , Molina Carmen B. 
Published: August 2022

AbstractThis work studied the efficiency of Tamazert kaolinite clay for adsorbing the cationic dye crystal violet from an aqueous solution in a batch system. The kinetics of the process and the equilibrium of adsorption were studied using non-linear models. The characterization of Tamazert kaolinite clay showed that it has structural, textural and surface properties that are suitable for adsorption. The effects of various process parameters such as contact time, initial dye concentration, initial pH, adsorbent dose and temperature were tested. The kinetic study using non-linear regression showed that the pseudo-second order model best fitted the experimental data. The intra-particle model was also used to estimate the contribution of intra-particle diffusion to this process. The adsorption isotherms were fitted to Freundlich, Langmuir and Redlich–Peterson models, showing that the adsorption is limited to a monolayer with a monolayer adsorption capacity of 44.2 mg g–1. The thermodynamic study indicated that the process is exothermic, spontaneous and accompanied by a decrease in entropy.
Engineering clay minerals to manage the functions of soils
Authors: Yu Menghan , Tariq Sarwar Muhammad , Yang Huaming 
Published: August 2022

AbstractClay minerals are essential components of soil systems and understanding their role in soil structure and function is critical for soil environmental quality management and sustainable agricultural development. An in-depth study of clay minerals and the development of related materials is essential for a complete understanding and effective management of soil systems. This review is a detailed compilation of relevant studies over the past decade in this area, focusing on an overview of clay minerals and their modified materials and their regulation of soil structure and function. We focus on the direct influence of clay minerals on the physical, chemical and biological properties of soils, such as soil structure, soil fertility, plant growth, soil microbial activity and soil carbon sequestration. Finally, we concluded by summarizing the existing issues with clay mineral materials in soil improvement and by outlining potential future development trends and strategies.
Deconvolution of tumor composition using partially available DNA methylation data
Authors: He Dingqin , Chen Ming , Wang Wenjuan , Song Chunhui , Qin Yufang 
Published: August 2022

Abstract
Background
Deciphering proportions of constitutional cell types in tumor tissues is a crucial step for the analysis of tumor heterogeneity and the prediction of response to immunotherapy. In the process of measuring cell population proportions, traditional experimental methods have been greatly hampered by the cost and extensive dropout events. At present, the public availability of large amounts of DNA methylation data makes it possible to use computational methods to predict proportions.

Results
In this paper, we proposed PRMeth, a method to deconvolve tumor mixtures using partially available DNA methylation data. By adopting an iteratively optimized non-negative matrix factorization framework, PRMeth took DNA methylation profiles of a portion of the cell types in the tissue mixtures (including blood and solid tumors) as input to estimate the proportions of all cell types as well as the methylation profiles of unknown cell types simultaneously. We compared PRMeth with five different methods through three benchmark datasets and the results show that PRMeth could infer the proportions of all cell types and recover the methylation profiles of unknown cell types effectively. Then, applying PRMeth to four types of tumors from The Cancer Genome Atlas (TCGA) database, we found that the immune cell proportions estimated by PRMeth were largely consistent with previous studies and met biological significance.

Conclusions
Our method can circumvent the difficulty of obtaining complete DNA methylation reference data and obtain satisfactory deconvolution accuracy, which will be conducive to exploring the new directions of cancer immunotherapy. PRMeth is implemented in R and is freely available from GitHub (https://github.com/hedingqin/PRMeth).
The effect of a training webinar on decreasing inter-observer variability in making a radiologic diagnosis of bronchiectasis
Authors: Green O’Neil , Knee Alexander , Patino Angelica , Modahl Lucy , Liautaud Sybille 
Published: August 2022

AbstractNon-cystic fibrosis bronchiectasis is a clinically important disease with an estimated 340,000–522,000 persons living with the disease and 70,000 being diagnosed annually. The radiographic diagnosis remains a pivotal part of recognizing the disease due to its protean clinical manifestations. As physicians are sensitized to this disease, a greater proportion of patients are being diagnosed with mild to moderate bronchiectasis. Despite the established use of CT chest as the main tool for making a radiologic diagnosis of bronchiectasis, the literature supporting the process of making that diagnosis is somewhat sparse. Concurrently, there has been an increased trend to have Web-based radiologic tutorials due to its convenience, the ability of the learner to set the pace of learning and the reduced cost compared to in-person learning. The COVID-19 pandemic has accelerated this trend. We wanted to look carefully at the effect of a Web-based training session on interrater reliability. Agreement was calculated as percentages and kappa and prevalence adjusted kappa calculated. We found that a single Web-based training session had little effect on the variability and accuracy of diagnosis of bronchiectasis. Larger studies are needed in this area with multiple training sessions.
Predictive factors contributing to prolonged recovery in patients after Fontan operation
Authors: Song Yixiao , Wang Liping , Zhang Mingjie , Chen Xi , Pang Yachang , Liu Jiaqi , Xu Zhuoming 
Published: August 2022

Abstract
Background
Prolonged recovery is a severe issue in patients after Fontan operation. However, predictive factors related to this issue are not adequately evaluated. The present study aimed to investigate potential predictive factors which can predict Fontan postoperative recovery.

Methods
We retrospectively reviewed the perioperative medical records of patients with Fontan surgery between January 2015 and December 2018, and divided patients with > 75%ile cardiac intensive care unit stay into prolonged recovery group. The others were assigned to standard recovery group. Patients that died or underwent a Fontan takedown were excluded. Statistical analysis was performed to compare data difference of the two groups.

Results
282/307 cases fulfilled the inclusion criteria. Seventy patients were considered in prolonged recovery and 212 patients were defined as standard recovery. Pre- and intra-operative data showed a higher incidence of heterotaxy syndrome, longer cardiopulmonary bypass and aortic cross-clamp time in the prolonged recovery group. Postoperative information analysis displayed that ventilation time, oxygen index after extubation, hemodynamic data, inotropic score (IS), drainage volume, volume resuscitation, pulmonary hypertension (PH) treatment, and surgical reintervention were significantly different between the two groups. Higher IS postoperatively, and PH treatment and higher fluid resuscitation within two days were independent predictive factors for prolonged recovery in our multivariate model. C-statistic model showed a high predictive ability in prolonged recovery by using the three factors.

Conclusions
Ventilation time, higher IS in postoperative day, and PH treatment and higher fluid resuscitation within two days were independent risk factors and have a high predictability for Fontan prolonged recovery.
Cardiovascular disease risk prediction models in the Chinese population- a systematic review and meta-analysis
Authors: Zhiting Guo , Jiaying Tang , Haiying Han , Yuping Zhang , Qunfei Yu , Jingfen Jin 
Published: August 2022

Abstract
Background
There is an increasing prevalence of cardiovascular disease (CVD) in China, which represents the leading cause of mortality. Precise CVD risk identification is the fundamental prevention component. This study sought to systematically review the CVD risk prediction models derived and/or validated in the Chinese population to promote primary CVD prevention.

Methods
Reports were included if they derived or validated one or more CVD risk prediction models in the Chinese population. PubMed, Embase, CINAHL, Web of Science, Scopus, China National Knowledge Infrastructure (CNKI), VIP database, etc., were searched. The risk of bias was assessed with the Prediction Model Risk of Bias Assessment Tool (PROBAST). Meta-analysis was performed in R using the package metamisc.

Results
From 55,183 records, 22 studies were included. Twelve studies derived 18 CVD risk prediction models, of which seven models were derived based on a multicentre cohort including more than two provinces of mainland China, and one was a model developed based on a New Zealand cohort including Chinese individuals. The number of predictors ranged from 6 to 22. The definitions of predicted outcomes showed considerable heterogeneity. Fourteen articles described 29 validations of 8 models. The Framingham model and pooled cohort equations (PCEs) are the most frequently validated foreign tools. Discrimination was acceptable and similar for men and women among models (0.60–0.83). The calibration estimates changed substantially from one population to another. Prediction for atherosclerotic cardiovascular disease Risk in China (China-PAR) showed good calibration [observed/expected events ratio = 0.99, 95% PI (0.57,1.70)] and female sex [1.10, 95% PI (0.23,5.16)].

Conclusions
Several models have been developed or validated in the Chinese population. The usefulness of most of the models remains unclear due to incomplete external validation and head-to-head comparison. Future research should focus on externally validating or tailoring these models to local settings.

Trail registration
This systematic review was registered at PROSPERO (International Prospective Register of Systematic Reviews, CRD42021277453).
Analysis of KIR gene variants in The Cancer Genome Atlas and UK Biobank using KIRCLE
Authors: Gao Galen F. , Liu Dajiang , Zhan Xiaowei , Li Bo 
Published: August 2022

AbstractBackgroundNatural killer (NK) cells represent a critical component of the innate immune system’s response against cancer and viral infections, among other diseases. To distinguish healthy host cells from infected or tumor cells, killer immunoglobulin receptors (KIR) on NK cells bind and recognize Human Leukocyte Antigen (HLA) complexes on their target cells. However, NK cells exhibit great diversity in their mechanism of activation, and the outcomes of their activation are not yet understood fully. Just like the HLAs they bind, KIR receptors exhibit high allelic diversity in the human population. Here we provide a method to identify KIR allele variants from whole exome sequencing data and uncover novel associations between these variants and various molecular and clinical correlates.ResultsIn order to better understand KIRs, we have developed KIRCLE, a novel method for genotyping individual KIR genes from whole exome sequencing data, and used it to analyze approximately sixty-thousand patient samples in The Cancer Genome Atlas (TCGA) and UK Biobank. We were able to assess population frequencies for different KIR alleles and demonstrate that, similar to HLA alleles, individuals’ KIR alleles correlate strongly with their ethnicities. In addition, we observed associations between different KIR alleles and HLA alleles, including HLA-B*53 with KIR3DL2*013 (Fisher’s exact FDR = 7.64e−51). Finally, we showcased statistically significant associations between KIR alleles and various clinical correlates, including peptic ulcer disease (Fisher’s exact FDR = 0.0429) and age of onset of atopy (Mann-WhitneyUFDR = 0.0751).ConclusionsWe show that KIRCLE is able to infer KIR variants accurately and consistently, and we demonstrate its utility using data from approximately sixty-thousand individuals from TCGA and UK Biobank to discover novel molecular and clinical correlations with KIR germline variants. Peptic ulcer disease and atopy are just two diseases in which NK cells may play a role beyond their “classical” realm of anti-tumor and anti-viral responses. This tool may be used both as a benchmark for future KIR-variant-inference algorithms, and to better understand the immunogenomics of and disease processes involving KIRs.
Surgical treatment of tension pneumomediastinum in patients with covid-19 at the field hospital: a case series
Authors: Thuan Phan Quang , Phuong Pham Phan Phuong , Anh Huynh Phuong Nguyet , Long Le Phi , Khoi Le Minh 
Published: August 2022

Abstract
Background
Tension pneumomediastinum is one of the most serious complications in COVID-19 patients with respiratory distress requiring invasive mechanical ventilation. This complication can lead to rapid hemodynamic instability and death if it is not recognized in a timely manner and intervenes promptly.

Case presentation
We reported 7 COVID-19 patients with tension pneumomediastinum at a field hospital. All patients were critically ill with ARDS. These 7 patients, including 3 females and 4 males in this series, were aged between 39 and 70 years. Tension pneumomediastinum occurred on the first day of mechanical ventilation in 3 patients and later in the course of hospital stay, even 10 days after being intubated and ventilated. The tension pneumomediastinum caused hemodynamic instability and worsened respiratory mechanics with imminent cardiopulmonary collapse. In this series, we used two surgical techniques: (i) mediastinal decompression by suprasternal drainage with or without simultaneous pleural drainage in the first two cases and (ii) mediastinal drainage via suprasternal and subxiphoid incisions in 5 patients. The surgical procedures were feasible and reversed the pending cardiopulmonary collapse. Four patients had a favorable postprocedural period and were discharged from the intensive care center. Both patients undergoing suprasternal drainage died of failed/recurrent tension pneumomediastinum and nosocomial infection. Only one in five patients who underwent mediastinal drainage via suprasternal and subxiphoid incisions died of septic shock secondary to ventilator-associated pneumonia.

Conclusion
Tension pneumomediastinum was a life-threatening complication in critically ill COVID-19 patients requiring mechanical ventilation. Surgical mediastinal decompression was the salvage procedure. The surgical technique of mediastinal drainage via suprasternal and subxiphoid incisions proved an advantage in tension relief, hemodynamic improvement and mortality reduction.
Single cell RNA-seq analysis reveals temporally-regulated and quiescence-regulated gene expression in Drosophila larval neuroblasts
Authors: Dillon Noah , Cocanougher Ben , Sood Chhavi , Yuan Xin , Kohn Andrea B , Moroz Leonid L , Siegrist Sarah E , Zlatic Marta , Doe Chris Q. 
Published: August 2022

AbstractThe mechanisms that generate neural diversity during development remains largely unknown. Here, we use scRNA-seq methodology to discover new features of the Drosophila larval CNS across several key developmental timepoints. We identify multiple progenitor subtypes – both stem cell-like neuroblasts and intermediate progenitors – that change gene expression across larval development, and report on new candidate markers for each class of progenitors. We identify a pool of quiescent neuroblasts in newly hatched larvae and show that they are transcriptionally primed to respond to the insulin signaling pathway to exit from quiescence, including relevant pathway components in the adjacent glial signaling cell type. We identify candidate “temporal transcription factors” (TTFs) that are expressed at different times in progenitor lineages. Our work identifies many cell type specific genes that are candidates for functional roles, and generates new insight into the differentiation trajectory of larval neurons.
Impact of combined versus single-mode training programs based on drop jump and specific multidirectional repeated sprint on bio-motor ability adaptations: a parallel study design in professional basketball players
Authors: Brini Seifeddine , Boullosa Daniel , Calleja-González Julio , van den Hoek Daniel J. , Nobari Hadi , Clemente Filipe Manuel 
Published: August 2022

Abstract
Background
Jumping and specific multidirectional repeated sprint ability are important in basketball. The objective of this study was to assess the contributions of 8-week combined versus single-mode training programs based on drop jump (DJ) and specific multidirectional repeated sprint (MRSA) on repeated sprint ability performances, body balance and lower limbs power in male professional basketball players.

Methods
This study followed a randomized parallel study design. Fifty-two professional male basketball players from the Tunisian first division participated in this study. The players were randomly assigned to 4 groups: DJ group (JG; n = 13), MRSA group (RSG; n = 13), combined group (COMB; n = 13) and an active control group (CON; n = 13). The JG, RSG and COMB groups completed the 8-week training programs with 2 sessions per week while the CON continues their regular basketball training. Training volume was similar between groups all over the experimental period. Before and after the intervention, the four groups were evaluated for the stork test, Y-balance test, the repeated sprint ability test (IRSA5COD), the squat jump (SJ) and countermovement jump (CMJ) tests, the single leg drop jump test, the five time-jump test and T—change of direction (CoD) test.

Results
All measures displayed significant main effect, (medium/small) magnitude (effect size) improvements for time (post-test > pre-test) except the physiological parameters for IRSA5COD. Significant time × group interactions were revealed for body balance, T test, IRSA5COD (total time and best time) and jump tests (vertical/horizontal). Bonferroni corrected post-hoc tests revealed significant greater improvement in favor of RSG and COMB compared to JG for body balance, CoD and IRSA5COD. Moreover, greater improvement in CMJ, SJ and single leg DJ in favor of JG compared to the RSG. In addition, a greater CoD improvement was observed in favor of COMB when compared to the RSG.

Conclusion
Combined and single-mode training programs based on DJ and MRSA contributed to a significantly better performance in specific basketball physical fitness parameters with results favoring combined interventions.
Early-stage reconstruction of flexor pollicis longus using palmaris longus in a patient with compartment syndrome of forearm: a case report
Authors: Fujita Muneyoshi , Miyamoto Hideaki , Kurozumi Taketo 
Published: August 2022

Abstract
Background
The flexor pollicis longus is the most vulnerable muscle in acute compartment syndrome of the forearm. Reconstruction of a dysfunctional flexor pollicis longus is occasionally necessary following compartment syndrome of the forearm.

Case presentation
A 42-year-old Japanese man injured his left forearm in a motor vehicle accident. Open radial shaft fracture and acute compartment syndrome of the left forearm was diagnosed. We performed a fascial release of the forearm and debridement of the involved myonecrosis of the flexor pollicis longus. At second-look operation (3 days after the initial release), we performed palmaris longus tendon transfer to the flexor pollicis longus tendon. At 6-month follow-up, the patient had no complaints and returned to his job. At 2-year follow-up, the patient had achieved 88% of pinch strength, compared with the contralateral hand, and scored 11.4 on the QuickDASH score.

Conclusions
Palmaris longus transfer performed immediately after injury is simple and does not require an additional surgical approach. Hence, early palmaris longus tendon transfer, which can provide satisfactory outcomes, could be considered as a potential choice for flexor pollicis longus reconstruction in patients with compartment syndrome of the forearm.