Miracle-dz/UniFAR-FTUs huggingface dataset:
Use Chou's 5-Steps Rule With Different Word Embedding Types to Boost Performance of Electron Transport Protein Prediction Model

Living organisms receive necessary energy substances directly from cellular respiration. The completion of electron storage and transportation requires the process of cellular respiration with the aid of electron transport chains. Therefore, the work of deciphering electron transport proteins is inevitably needed. The identification of these proteins with high performance has a prompt dependence on the choice of methods for feature extraction and machine learning algorithm. In this study, protein sequences served as natural language sentences comprising words. The nominated word embedding-based feature sets, hinged on the word embedding modulation and protein motif frequencies, were useful for feature choosing. Five word embedding types and a variety of conjoint features were examined for such feature selection. The support vector machine algorithm consequentially was employed to perform classification. The performance statistics within the 5-fold cross-validation including average accuracy, specificity, sensitivity, as well as MCC rates surpass 0.95. Such metrics in the independent test are 96.82, 97.16, 95.76 percent, and 0.9, respectively. Compared to state-of-the-art predictors, the proposed method can generate more preferable performance above all metrics indicating the effectiveness of the proposed method in determining electron transport proteins. Furthermore, this study reveals insights about the applicability of various word embeddings for understanding surveyed sequences.
Short-Term Compound Training on Physical Performance in Young Soccer Players

This study aimed to investigate the effects of a five-week compound training (with strength and plyometric exercises performed on separate days) on sprint, change of direction, and vertical jump in young soccer players. Eighteen novices in strength and plyometric training were assigned to either a compound training (CMPT) or a control condition (CNT). Both groups trained three times per week. One session was dedicated to soccer-specific drills. The other two weekly sessions were dedicated to circuit-based training routines employing on one-day strength exercises and on the other day plyometric exercises in the CMPT group. At the same time, the CNT group performed two weekly soccer-specific training sessions. All players were tested by 15-m sprint, change-of-direction and acceleration test (CODAT), squat jump, and countermovement jump with arms swing tests. CMPT group improved CODAT, squat jump and countermovement jump to a higher extent compared to CNT group (large vs small or trivial effects, p < 0.05), while both groups had similar 15-m sprint performance (p > 0.05). These results support the use of compound training to improve change of direction and vertical jump performances in young novice soccer players, which are unfamiliar with structured and advanced strength and plyometric training.
Optimizing Sequential Systemic Therapies for Advanced Hepatocellular Carcinoma: A Decision Analysis

Background: An optimal sequential systemic therapy for advanced hepatocellular carcinoma (HCC) has not been discovered. We developed a decision model based on available clinical trials to identify an optimal risk/benefit strategy for sequences of novel systemic agents. Methods: A Markov model was built to simulate overall survival (OS) among patients with advanced HCC. Three first-line (single-agent Sorafenib or Lenvatinib, and combination of Atezolizumab plus Bevacizumab) followed by five second-line treatments (Regorafenib, Cabozantinib, Ramucirumab, Nivolumab, Pembrolizumab) were compared in fifteen sequential strategies. The likelihood of transition between states (initial treatment, cancer progression, death) was derived from clinical trials. Life-year gained (LYG) was the main outcome. Rates of severe adverse events (SAEs) (≥grade 3) were calculated. The innovative measure, called incremental safety-effectiveness ratio (ISER), of the two best sequential treatments was calculated as the difference in probability of SAEs divided by LYG. Results: Lenvatinib followed by Nivolumab (median OS, 27 months) was the most effective sequence, producing a LYG of 0.75, while Atezolizumab plus Bevacizumab followed by Nivolumab was the safest sequence (SAEs 40%). Accordingly, the net health benefit assessed by ISER favored Lenvatinib followed by Nivolumab, compared to Atezolizumab plus Bevacizumab, followed by Nivolumab in 52% of cases. Conclusion: Further sequential clinical trials or large-scale real-world studies may prove useful to evaluate the net health benefit of the best sequential treatment for advanced HCC.
Fish Consumption and Coronary Heart Disease: A Meta-Analysis

Epidemiological studies on the impact of fish consumption on coronary heart disease (CHD) incidence have shown inconsistent results. In addition, in terms of CHD mortality, although previous meta-analyses showed that fish consumption reduces the risk of CHD, six newly incorporated studies show that fish consumption has no impact on CHD. Therefore, the results still need to be verified. The purpose of this study is to quantitatively evaluate the impact of fish consumption on CHD incidence and mortality. Relevant studies were identified from PubMed, Web of Science, and Embase databases up to October 2019. The multivariate-adjusted relative risks (RRs) for the highest versus the lowest fish consumption categories and the 95% confidence intervals were computed with a random-effect model. A restricted cubic spline regression model was used to assess the dose–response relationship between fish consumption and CHD incidence and mortality. Forty prospective cohort studies were incorporated into research. Among them, 22 studies investigated the association between fish consumption and CHD incidence (28,261 cases and 918,783 participants), and the summary estimate showed that higher fish consumption was significantly associated with a lower CHD incidence [RR: 0.91, 95% CI: (0.84, 0.97); I2 = 47.4%]. Twenty-seven studies investigated the association between fish consumption and CHD mortality (10,568 events and 1,139,553 participants), and the summary estimate showed that higher fish intake was significantly associated with a lower CHD mortality [RR: 0.85, 95% CI: (0.77, 0.94); I2 = 51.3%]. The dose–response analysis showed that the CHD incidence and mortality were reduced by 4%, respectively, with a 20 g/day increment in fish consumption. This meta-analysis indicates that fish consumption is associated with a lower CHD incidence and mortality.
Pytheas

CSV is a popular Open Data format widely used in a variety of domains for its simplicity and effectiveness in storing and disseminating data. Unfortunately, data published in this format often does not conform to strict specifications, making automated data extraction from CSV files a painful task. While table discovery from HTML pages or spreadsheets has been studied extensively, extracting tables from CSV files still poses a considerable challenge due to their loosely defined format and limited embedded metadata. In this work we lay out the challenges of discovering tables in CSV files, and propose Pytheas: a principled method for automatically classifying lines in a CSV file and discovering tables within it based on the intuition that tables maintain a coherency of values in each column. We evaluate our methods over two manually annotated data sets: 2000 CSV files sampled from four Canadian Open Data portals, and 2500 additional files sampled from Canadian, US, UK and Australian portals. Our comparison to state-of-the-art approaches shows that Pytheas is able to successfully discover tables with precision and recall of over 95.9% and 95.7% respectively, while current approaches achieve around 89.6% precision and 81.3% recall. Furthermore, Pytheas's accuracy for correctly classifying all lines per CSV file is 95.6%, versus a maximum of 86.9% for compared approaches. Pytheas generalizes well to new data, with a table discovery F-measure above 95% even when trained on Canadian data and applied to data from different countries. Finally, we introduce a confidence measure for table discovery and demonstrate its value for accurately identifying potential errors.
Cardiopulmonary exercise testing – refining the clinical perspective by combining assessments

ABSTRACT Introduction Cardiorespiratory fitness (CRF) is now established as a vital sign. Cardiopulmonary exercise testing (CPX) is the gold-standard approach to assessing CRF. Areas covered A body of literature spanning several decades clearly supports the clinical utility of CPX in those who are apparently health and at risk for chronic disease as well as numerous patient populations. While CPX, in and of itself, is a valid and reliable clinical assessment, combining findings with other available assessments may provide a more comprehensive perspective that enhances clinical decision making and outcomes. The current review will accomplish the following: (1) define key CPX measures based upon current evidence; and (2) describe the current evidence addressing the relationships between CPX and echocardiography, serum biomarkers, and cardiovascular magnetic resonance. Expert opinion Cardiopulmonary exercise testing provides prognostic and diagnostic information in apparently healthy individuals, those at risk for one or more chronic conditions, as well as numerous patient populations. Moreover, if the goal of an intervention is to improve one or more systems integral to the physiologic response to exercise, CPX should be considered as a central assessment to gauge therapeutic efficacy. To further refine the information obtained from CPX, combining other assessments has demonstrated promise.
Polymorphisms in the Angiogenesis-Related Genes EFNB2, MMP2 and JAG1 Are Associated with Survival of Colorectal Cancer Patients

An individual’s inherited genetic variation may contribute to the ‘angiogenic switch’, which is essential for blood supply and tumor growth of microscopic and macroscopic tumors. Polymorphisms in angiogenesis-related genes potentially predispose to colorectal cancer (CRC) or affect the survival of CRC patients. We investigated the association of 392 single nucleotide polymorphisms (SNPs) in 33 angiogenesis-related genes with CRC risk and survival of CRC patients in 1754 CRC cases and 1781 healthy controls within DACHS (Darmkrebs: Chancen der Verhütung durch Screening), a German population-based case-control study. Odds ratios and 95% confidence intervals (CI) were estimated from unconditional logistic regression to test for genetic associations with CRC risk. The Cox proportional hazard model was used to estimate hazard ratios (HR) and 95% CIs for survival. Multiple testing was adjusted for by a false discovery rate. No variant was associated with CRC risk. Variants in EFNB2, MMP2 and JAG1 were significantly associated with overall survival. The association of the EFNB2 tagging SNP rs9520090 (p < 0.0001) was confirmed in two validation datasets (p-values: 0.01 and 0.05). The associations of the tagging SNPs rs6040062 in JAG1 (p-value 0.0003) and rs2241145 in MMP2 (p-value 0.0005) showed the same direction of association with overall survival in the first and second validation sets, respectively, although they did not reach significance (p-values: 0.09 and 0.25, respectively). EFNB2, MMP2 and JAG1 are known for their functional role in angiogenesis and the present study points to novel evidence for the impact of angiogenesis-related genetic variants on the CRC outcome.
Associations between Feelings of Loneliness and Attitudes towards Physical Education in Contemporary Adolescents According to Sex, and Physical Activity Engagement

Background: Currently, adolescents grow up consuming a large amount of multimedia content and lead a sedentary lifestyle. As a result, emerging trends show greater feelings of loneliness. The present research seeks to describe adolescents’ attitudes towards Physical Education (PE), indices of loneliness and physical activity (PA) engagement. Further, it analyses associations between attitudes towards PE as a function of PA engagement and considers sex, loneliness and school year repetition as factors. Method: A sample of 2388 adolescents (43.3% males and 56.6% females) was recruited. Participants were aged 11–17 years (M = 13.8 years; SD = 1.2) and came from Spain. The following instruments were used: The Attitudes towards Physical Education questionnaire (AQPE) in order to analyze attitudes towards PE, and the University of California at Los Angeles (UCLA) loneliness scale to estimate loneliness. Results: With regard to sex and attitudes towards PE, significant differences were detected in relation to the difficulty of PE, with higher values being achieved in males (M = 2.4) than females (M = 2.3). A medium correlation emerged between the dimension of loneliness and the usefulness of PE (r = 0.323 **). Conclusions: It is confirmed that adolescents who experience greater levels of emotional or relational loneliness have less positive attitudes towards PE.
Comparative assessment of the efficacy of entomopathogenic nematode species at reducing western corn rootworm larvae and root damage in maize

The western corn rootworm (Diabrotica virgifera virgifera LeConte, Coleoptera: Chrysomelidae) is an invasive maize (Zea mays L.) pest in Europe. Crop yield is significantly impacted by the feeding of all three larval instars on maize roots, making them prime targets for control measures. Therefore, the control efficacy of three entomopathogenic nematodes (EPNs), Steinernema feltiae (Filipjev), Heterorhabditis bacteriophora Poinar, and H. megidis Poinar, Jackson and Klein (Nematoda: Rhabditida), was studied in four field plot experiments in southern Hungary in 2005 and 2006. All EPN species significantly reduced D. v. virgifera independently, whether applied as a row spray with a solid stream into the soil at sowing or onto the soil along maize rows in June. When applied at maize sowing, H. bacteriophora was more effective at reducing D. v. virgifera (81%) than H. megidis (49%) and S. feltiae (36%). When applied in June, H. bacteriophora and H. megidis were more effective at reducing D. v. virgifera (around 70%) than S. feltiae (32%). All tested EPN species significantly reduced damage on maize roots independently, whether they were applied at sowing or in June. Damage, however, was not totally prevented. The use of H. bacteriophora for the development of a biological control product for inundative releases against D. v. virgifera larvae is suggested.
Framework for Personalized Real-Time Control of Hidden Temperature Variables in Therapeutic Knee Cooling

The paper formalizes, implements and evaluates a framework for personalized real-time control of inner knee temperature during cryotherapy after knee surgery. Studies have shown that the cryotherapy should be controlled depending on the individual patient's feedback on the cooling, which raises the need for smart personalized therapy. The framework is based on the feedback control loop that uses predicted instead of measured inner temperatures because measurements are not feasible or would introduce invasiveness into the system. It uses machine learning to construct a predictive model for estimation of the controlled inner temperature variable based on other variables whose measurement is more feasible – temperatures on the body surface. The machine learning method uses data generated from computer simulation of the therapeutic treatment for different input simulation parameters. A fuzzy proportional-derivative controller is designed to provide adequate near real-time control of the inner knee temperature by controlling the cooling temperature. The framework is evaluated for robustness and controllability. The results show that controlled cooling is essential for small-sized (and large-sized) knees that are significantly more (less) sensitive to the cooling compared to average-sized knees. Moreover, the framework recognizes dynamic physiological changes and potential changes in the system settings, such as extreme changes in the blood flow or changed target inner knee temperature, and consequently adapts the cooling temperature to reach the target value.
Uncertainty Principle and Power Quality Sensing and Analysis in Smart Substation

Different kinds of power quality can be sensed in a smart substation. Power quality sensing and analysis are basic functions of a smart substation for situation awareness. The uncertainty principle, which states that the time uncertainty and frequency uncertainty cannot be minimized simultaneously, is a bottleneck problem that undermines the faithfulness of sensing and confines the accuracy of analysis. This paper studies the influence of the uncertainty principle on the power quality monitoring issue in detail and solves the problem by ideal atomic decomposition (IAD). The new method employs a pair of time and frequency bases where the power quality waveform is sensed. Then, both time uncertainty and frequency uncertainty can be minimized simultaneously. The sensing process is realized by orthogonal matching pursuit (OMP). By simulated and field power quality tests with comparisons of developed methods, the new method can give faithful sensing and accurate analysis for various power qualities, and is validated as an effective power quality monitoring method in smart substations.
Ligation of MHC Class II Induces PKC-Dependent Clathrin-Mediated Endocytosis of MHC Class II

In addition to antigen presentation to CD4+ T cells, aggregation of cell surface major histocompatibility complex class II (MHC-II) molecules induces signal transduction in antigen presenting cells that regulate cellular functions. We previously reported that crosslinking of MHC-II induced the endocytosis of MHC-II, which was associated with decreased surface expression levels in murine dendritic cells (DCs) and resulted in impaired activation of CD4+ T cells. However, the downstream signal that induces MHC-II endocytosis remains to be elucidated. In this study, we found that the crosslinking of MHC-II induced intracellular Ca2+ mobilization, which was necessary for crosslinking-induced MHC-II endocytosis. We also found that these events were suppressed by inhibitors of Syk and phospholipase C (PLC). Treatments with a phorbol ester promoted MHC-II endocytosis, whereas inhibitors of protein kinase C (PKC) suppressed crosslinking-induced endocytosis of MHC-II. These results suggest that PKC could be involved in this process. Furthermore, crosslinking-induced MHC-II endocytosis was suppressed by inhibitors of clathrin-dependent endocytosis. Our results indicate that the crosslinking of MHC-II could stimulate Ca2+ mobilization and induce the clathrin-dependent endocytosis of MHC-II in murine DCs.
The Cost of Waiting on an Orthopaedic Waiting List: a scoping review

Background: Approximately 30% Australians suffer from arthritis and other musculoskeletal disorders. From 2003-2033 there is a predicted 223% increase in expenditure on health management of musculoskeletal disorders. There is evidence of increasing prevalence of orthopaedic complaints, in longer waiting lists for specialist consultations in public hospital outpatient clinics. Little is known about the costs and ramifications of waiting for orthopaedic consultations. Aim: Establish what is known about the direct and indirect costs of being placed on a waiting list for an orthopaedic consultation. Method: Patient and Outcome search strategy of Medline, Embase, Pubmed, NHS Economic evaluation database (NHS-EED) from each database inception date. Handsearching of reference lists of included papers alsooccurred. A realist synthesis framework underpinned the review, using a ubiquitous patient journey to map available literature on the impact of waiting. Hierarchy of evidence was reported using NHMRC criteria andarticles critically appraised using either the PEDRo or CASP criteria (relevant to the design). A purpose-built data extraction instrument was developed. Results: We identified 786 studies, of which 139 were relevant, including a systematic review (Hoogeboom et al) with 15 included articles which were added to the list of eligible papers (and the review itself deleted), leaving 153 included articles; 17 were relevant to the review. Fourteen papers reported on quality of life and four reported on costs, two of these papers reported on both and all were of low to moderate quality. The research was not based on a comprehensive understanding of the stages of waiting, and there were inconclusive outcomes for quality of life and cost. Conclusion: There is scant evidence of the impact on quality of life and costs of waiting for orthopaedic outpatient appointments. Future research should aim for improved methodological quality and use patientfocused quality of life measures, and validated measures of cost. Abbreviations: NHMRC – National Health and Medical Research Council; PROMS – Patient Related Outcome Measures; QoL – Quality of Life; WOMAC – Western Ontario and McMaster Universities Osteoarthritis Index; YLD – Years Lived With Disability
Herbicide effects on phenolic metabolism in maize (Zea mays L.)and soybean (Glycine max L.) seedling

The activities of phenylalanine ammonia lyase [PAL ; EC 4.3. 1.5] and chalcone isomerase [Cl ; EC 5.5. 1.5] as well as the contents of anthocyanin and total soluble hydroxyphenolic compounds were investigated in maize (Zea mays L.) and soybean (Glycine max L.) seedlings 120 h after treatment with the field dose of five herbicides from different groups (trifluralin, fluometuron, atrazine, alachlor, and rimsulfuron) having varied modes of action. The fresh weight of both species was greatly decreased by trifluralin followed by fluometuron and atrazine. The dry weight was, in general, only slightly decreased by all the herbicides with the largest response with trifluralin. On the other hand, the activities of PAL and Cl were greatly enhanced in both species by alachlor and rimsulfuron, but decreased by trifluralin. Fluometuron induced decreases in PAL activity of maize only and decreased Cl activity of maize and soybean seedlings. Moreover, hydroxyphenolic compounds were increased in both species by alachlor and rimsulfuron and decreased by trifluralin and atrazine. Similarly, anthocyanin content was increased in both seedlings by alachlor and rimsulfuron, but decreased by trifluralin and fluometuron, whereas atrazine decreased the anthocyanin content in maize only. The present results indicate that stress is maintained by the different herbicides and confirm the controlling action of PAL and Cl on the production of anthocyanin and phenolic compounds during the induced state of stress. In addition, dry weight reduction appeared to coincide with the changes in the parameters of secondary metabolism, suggesting a regulatory role of secondary metabolism on seedling growth.