Decades of research in exercise immunology have demonstrated the profound impact of exercise on the immune response, influencing an individual\'s disease susceptibility. Accurate prediction of white blood cells (WBCs) count during exercise can help to design effective training programs to maintain optimal the immune system function and prevent its suppression. In this regard, this study aimed to develop an easy-to-use and efficient modelling tool for predicting WBCs count during exercise. To achieve this goal, the predictive power of a range of machine-learning algorithms, including six standalone models (M5 prime (M5P), random forest (RF), alternating model trees (AMT), reduced error pruning tree (REPT), locally weighted learning (LWL), and support vector regression (SVR)) were assessed along with six types of hybrid models trained with a bagging (BA) algorithm (BA-M5P, BA-RF, BA-AMT, BA-REPT, BA-LWL, and BA- SVR). A comprehensive database was constructed from 200 eligible people. The models employed post-exercise training WBCs counts as the output parameter and seven WBCs-influencing factors, including intensity and duration of exercise, pre-exercise training WBCs counts, age, body fat percentage, maximal aerobic capacity, and muscle mass as input parameters. Comparing the prediction results of the models to the observed WBCs using standard statistics indicated that the BA-M5P model had the greatest potential to produce a robust prediction of the number of lymphocytes, neutrophils, monocytes, and WBC compared to other models. Moreover, pre-exercise training WBCs counts, intensity and duration of exercise and body fat percentage were the most important features in predicting WBCs counts. These findings hold significant implications for the advancement of exercise immunology and the promotion of public health.

UNASSIGNED: Bladder cancer, a highly fatal disease, poses a significant threat to patients. Positioned at 19q13.2-13.3, LIG1, one of the four DNA ligases in mammalian cells, is frequently deleted in tumour cells of diverse origins. Despite this, the precise involvement of LIG1 in BLCA remains elusive. This pioneering investigation delves into the uncharted territory of LIG1\'s impact on BLCA. Our primary objective is to elucidate the intricate interplay between LIG1 and BLCA, alongside exploring its correlation with various clinicopathological factors.
UNASSIGNED: We retrieved gene expression data of para-carcinoma tissues and bladder cancer (BLCA) from the GEO repository. Single-cell sequencing data were processed using the \"Seurat\" package. Differential expression analysis was then performed with the \"Limma\" package. The construction of scale-free gene co-expression networks was achieved using the \"WGCNA\" package. Subsequently, a Venn diagram was utilized to extract genes from the positively correlated modules identified by WGCNA and intersect them with differentially expressed genes (DEGs), isolating the overlapping genes. The \"STRINGdb\" package was employed to establish the protein-protein interaction (PPI) network.Hub genes were identified through the PPI network using the Betweenness Centrality (BC) algorithm. We conducted KEGG and GO enrichment analyses to uncover the regulatory mechanisms and biological functions associated with the hub genes. A machine-learning diagnostic model was established using the R package \"mlr3verse.\" Mutation profiles between the LIG1^high and LIG1^low groups were visualized using the BEST website. Survival analyses within the LIG1^high and LIG1^low groups were performed using the BEST website and the GENT2 website. Finally, a series of functional experiments were executed to validate the functional role of LIG1 in BLCA.
UNASSIGNED: Our investigation revealed an upregulation of LIG1 in BLCA specimens, with heightened LIG1 levels correlating with unfavorable overall survival outcomes. Functional enrichment analysis of hub genes, as evidenced by GO and KEGG enrichment analyses, highlighted LIG1\'s involvement in critical function such as the DNA replication, cellular senescence, cell cycle and the p53 signalling pathway. Notably, the mutational landscape of BLCA varied significantly between LIG1high and LIG1low groups.Immune infiltrating analyses suggested a pivotal role for LIG1 in immune cell recruitment and immune regulation within the BLCA microenvironment, thereby impacting prognosis. Subsequent experimental validations further underscored the significance of LIG1 in BLCA pathogenesis, consolidating its functional relevance in BLCA samples.
UNASSIGNED: Our research demonstrates that LIG1 plays a crucial role in promoting bladder cancer malignant progression by heightening proliferation, invasion, EMT, and other key functions, thereby serving as a potential risk biomarker.

OBJECTIVE: Firearm injuries constitute a public health crisis. At the healthcare encounter level, they are, however, rare events.
OBJECTIVE: To develop a predictive model to identify healthcare encounters of adult patients at increased risk of firearm injury to target screening and prevention efforts.
METHODS: Electronic health records data from Kaiser Permanente Southern California (KPSC) were used to identify healthcare encounters of patients with fatal and non-fatal firearm injuries, as well as healthcare visits of a sample of matched controls during 2010-2018. More than 170 predictors, including diagnoses, healthcare utilization, and neighborhood characteristics were identified. Extreme gradient boosting (XGBoost) and a split sample design were used to train and test a model that predicted risk of firearm injury within the next 3 years at the encounter level.
RESULTS: A total of 3879 firearm injuries were identified among 5 288 529 KPSC adult members. Prevalence at the healthcare encounter level was 0.01%. The 15 most important predictors included demographics, healthcare utilization, and neighborhood-level socio-economic factors. The sensitivity and specificity of the final model were 0.83 and 0.56, respectively. A very high-risk group (top 1% of predicted risk) yielded a positive predictive value of 0.14% and sensitivity of 13%. This high-risk group potentially reduces screening burden by a factor of 11.7, compared to universal screening. Results for alternative probability cutoffs are presented.
CONCLUSIONS: Our model can support more targeted screening in healthcare settings, resulting in improved efficiency of firearm injury risk assessment and prevention efforts.

BACKGROUND: This study aimed to predict early adolescent sleep problems using pregnancy and childbirth risk factors through machine learning algorithms, and to evaluate model performance internally and externally.
METHODS: Data from the China Jintan Child Cohort study (CJCC; n=848) for model development and the US Healthy Brain and Behavior Study (HBBS; n=454) for external validation were employed. Maternal pregnancy histories, obstetric data, and adolescent sleep problems were collected. Several machine learning techniques were employed, including least absolute shrinkage and selection operator, logistic regression, random forest, naïve bayes, extreme gradient boosting, decision tree, and neural network. The area under the receiver operating characteristic curve, sensitivity, specificity, accuracy, and root mean square of residuals were used to evaluate model performance.
RESULTS: Key predictors for CJCC adolescents\' sleep problems include gestational age, birthweight, duration of delivery, and maternal happiness during pregnancy. In HBBS adolescents, the duration of postnatal depressive emotions was the primary perinatal predictor. The prediction models developed in the CJCC had good-to-excellent internal validation performance but poor performance in predicting the sleep problems in HBBS adolescents.
CONCLUSIONS: The identification of specific perinatal risk factors associated with adolescent sleep problems can inform targeted interventions during and after pregnancy to mitigate these risks. Health providers should consider integrating these predictive factors into routine pre- and postnatal assessments to identify at-risk populations. The variability in model performance across different cohorts highlights the need for context-specific models and the cautious application of predictive analytics across diverse populations. Future research should focus on refining predictive models to account for such variations, potentially through the incorporation of additional socio-cultural factors and genetic markers. This study emphasizes the importance of personalized and culturally sensitive approaches in the prediction and management of adolescent sleep problems, leveraging advanced computational methods to enhance maternal and child health outcomes.

Enhlink is a computational tool for scATAC-seq data analysis, facilitating precise interrogation of enhancer function at the single-cell level. It employs an ensemble approach incorporating technical and biological covariates to infer condition-specific regulatory DNA linkages. Enhlink can integrate multi-omic data for enhanced specificity, when available. Evaluation with simulated and real data, including multi-omic datasets from the mouse striatum and novel promoter capture Hi-C data, demonstrate that Enhlink outperfoms alternative methods. Coupled with eQTL analysis, it identified a putative super-enhancer in striatal neurons. Overall, Enhlink offers accuracy, power, and potential for revealing novel biological insights in gene regulation.

BACKGROUND: Axillary lymph node dissection (ALND) is a standard procedure for early-stage breast cancer (BC) patients with three or more positive sentinel lymph nodes (SLNs). However, ALND can lead to significant postoperative complications without always providing additional clinical benefits. This study aims to develop machine-learning (ML) models to predict non-sentinel lymph node (non-SLN) metastasis in Chinese BC patients with three or more positive SLNs, potentially allowing the omission of ALND.
METHODS: Data from 2217 BC patients who underwent SLN biopsy at Shantou University Medical College were analyzed, with 634 having positive SLNs. Patients were categorized into those with ≤ 2 positive SLNs and those with ≥ 3 positive SLNs. We applied nine ML algorithms to predict non-SLN metastasis. Model performance was evaluated using ROC curves, precision-recall curves, and calibration curves. Decision Curve Analysis (DCA) assessed the clinical utility of the models.
RESULTS: The RF model showed superior predictive performance, achieving an AUC of 0.987 in the training set and 0.828 in the validation set. Key predictive features included size of positive SLNs, tumor size, number of SLNs, and ER status. In external validation, the RF model achieved an AUC of 0.870, demonstrating robust predictive capabilities.
CONCLUSIONS: The developed RF model accurately predicts non-SLN metastasis in BC patients with ≥ 3 positive SLNs, suggesting that ALND might be avoided in selected patients by applying additional axillary radiotherapy. This approach could reduce the incidence of postoperative complications and improve patient quality of life. Further validation in prospective clinical trials is warranted.

Mortality during the post-weaning phase is a critical indicator of swine production system performance, influenced by a complex interaction of multiple factors of the epidemiological triad. This study leveraged retrospective data from 1723 groups of pigs marketed within a US swine production system to develop a Wean-Quality Score (WQS) using machine learning techniques. The study evaluated three machine learning models, Random Forest, Support Vector Machine, and Gradient Boosting Machine, to classify groups having high or low 60-day mortality, where high mortality groups represented 25 % of the groups among the study population with the highest mortality values (n=431; 60-day mortality=9.98 %), and the remaining 75 % of the groups were of low mortality (n=1292; 60-day mortality=2.75 %). The best-performing model, Random Forest (RF), outperformed the other ML models in terms of accuracy (0.90), sensitivity (0.84), and specificity (0.92) metrics, and was then selected for further analysis, which consisted of creating the WQS and ranking the most important factors for classifying groups as high or low mortality. The most important factors ranked through the RF model to classify groups with high mortality were pre-weaning mortality, weaning age, average parity of litters in sow farms, and PRRS status. Additionally, stocking conditions such as stocking density and time to fill the barn were important predictors of high mortality. The WQS was developed and correlated (r = 0.74) with the actual 60-day mortality of the groups, offering a valuable tool for assessing post-weaning survivability in swine production systems before weaning. This study highlights the potential of machine learning and comprehensive data utilization to improve the assessment and management of weaned pig quality in commercial swine production, which producers can utilize to identify and intervene in groups, according to the WQS.

Codon usage bias, or the unequal use of synonymous codons, is observed across genes, genomes, and between species. It has been implicated in many cellular functions, such as translation dynamics and transcript stability, but can also be shaped by neutral forces. We characterized codon usage across 1,154 strains from 1,051 species from the fungal subphylum Saccharomycotina to gain insight into the biases, molecular mechanisms, evolution, and genomic features contributing to codon usage patterns. We found a general preference for A/T-ending codons and correlations between codon usage bias, GC content, and tRNA-ome size. Codon usage bias is distinct between the 12 orders to such a degree that yeasts can be classified with an accuracy greater than 90% using a machine-learning algorithm. We also characterized the degree to which codon usage bias is impacted by translational selection. We found it was influenced by a combination of features, including the number of coding sequences, BUSCO count, and genome length. Our analysis also revealed an extreme bias in codon usage in the Saccharomycodales associated with a lack of predicted arginine tRNAs that decode CGN codons, leaving only the AGN codons to encode arginine. Analysis of Saccharomycodales gene expression, tRNA sequences, and codon evolution suggests that avoidance of the CGN codons is associated with a decline in arginine tRNA function. Consistent with previous findings, codon usage bias within the Saccharomycotina is shaped by genomic features and GC bias. However, we find cases of extreme codon usage preference and avoidance along yeast lineages, suggesting additional forces may be shaping the evolution of specific codons.

Artificial Intelligence (AI), particularly Machine Learning (ML), has gained attention for its potential in various domains. However, approaches integrating symbolic AI with ML on Knowledge Graphs have not gained significant focus yet. We argue that exploiting RDF/OWL semantics while conducting ML could provide useful insights. We present a use case using signaling pathways from the Reactome database to explore drug safety. Promising outcomes suggest the need for further investigation and collaboration with domain experts.

UNASSIGNED: Diarrheal disease, characterized by high morbidity and mortality rates, continues to be a serious public health concern, especially in developing nations such as Ethiopia. The significant burden it imposes on these countries underscores the importance of identifying predictors of diarrhea. The use of machine learning techniques to identify significant predictors of diarrhea in children under the age of 5 in Ethiopia\'s Amhara Region is not well documented. Therefore, this study aimed to clarify these issues.
UNASSIGNED: This study\'s data have been extracted from the Ethiopian Population and Health Survey. We have applied machine learning ensemble classifier models such as random forests, logistic regression, K-nearest neighbors, decision trees, support vector machines, gradient boosting, and naive Bayes models to predict the determinants of diarrhea in children under the age of 5 in Ethiopia. Finally, Shapley Additive exPlanation (SHAP) value analysis was performed to predict diarrhea.
UNASSIGNED: Among the seven models used, the random forest algorithm showed the highest accuracy in predicting diarrheal disease with an accuracy rate of 81.03% and an area under the curve of 86.50%. The following factors were investigated: families who had richest wealth status (log odd of -0.04), children without a history of Acute Respiratory Infections (ARIs) (log odd of -0.08), mothers who did not have a job (log odd of -0.04), children aged between 23 and 36 months (log odd of -0.03), mothers with higher education (log odds ratio of -0.03), urban dwellers (log odd of -0.01), families using electricity as cooking material (log odd of -0.12), children under 5 years of age living in the Amhara region of Ethiopia who did not show signs of wasting, children under 5 years of age who had not taken medications for intestinal parasites unlike their peers and who showed a significant association with diarrheal disease.
UNASSIGNED: We recommend implementing programs to reduce the incidence of diarrhea in children under the age of 5 in the Amhara region. These programs should focus on removing socioeconomic barriers that impede mothers\' access to wealth, a favorable work environment, cooking fuel, education, and healthcare for their children.