Search Results (1,010)

This study identifies and classifies resistance gene analogues (RGAs) in the genomes of Brassica nigra, Sinapis arvensis and Sinapis alba using the RGAugury pipeline. RGAs were categorised into four main classes: receptor-like kinases (RLKs), receptor-like proteins (RLPs), nucleotide-binding leucine-rich repeat (NLR) proteins and transmembrane-coiled-coil (TM-CC) genes. A total of 4499 candidate RGAs were detected, with species-specific proportions. RLKs were the most abundant across all genomes, followed by TM-CCs and RLPs. The sub-classification of RLKs and RLPs identified LRR-RLKs, LRR-RLPs, LysM-RLKs, and LysM-RLPs. Atypical NLRs were more frequent than typical ones in all species. Atypical NLRs were more frequent than typical ones in all species. We explored the relationship between chromosome size and RGA count using regression analysis. In B. nigra and S. arvensis, larger chromosomes generally harboured more RGAs, while S. alba displayed the opposite trend. Exceptions were observed in all species, where some larger chromosomes contained fewer RGAs in B. nigra and S. arvensis, or more RGAs in S. alba. The distribution and density of RGAs across chromosomes were examined. RGA distribution was skewed towards chromosomal ends, with patterns differing across RGA types. Sequence hierarchical pairwise similarity analysis revealed distinct gene clusters, suggesting evolutionary relationships. The study also identified homologous genes among RGAs and non-RGAs in each species, providing insights into disease resistance mechanisms. Finally, RLKs and RLPs were co-localised with reported disease resistance loci in Brassica, indicating significant associations. Phylogenetic analysis of cloned RGAs and QTL-mapped RLKs and RLPs identified distinct clusters, enhancing our understanding of their evolutionary trajectories. These findings provide a comprehensive view of RGA diversity and genomics in these Brassicaceae species, providing valuable insights for future research in plant disease resistance and crop improvement. Full article

As investment portfolios become increasingly diversified and financial asset risks grow more complex, accurately forecasting the risk of multiple asset classes through mathematical modeling and identifying their heterogeneity has emerged as a critical topic in financial research. This study examines the volatility and tail risk of gold, crude oil, Bitcoin, and selected stock markets. Methodologically, we propose two improved Value at Risk (VaR) forecasting models that combine the autoregressive (AR) model, Exponential Generalized Autoregressive Conditional Heteroskedasticity (EGARCH) model, Extreme Value Theory (EVT), skewed heavy-tailed distributions, and a rolling window estimation approach. The model’s performance is evaluated using the Kupiec test and the Christoffersen test, both of which indicate that traditional VaR models have become inadequate under current complex risk conditions. The proposed models demonstrate superior accuracy in predicting VaR and are applicable to a wide range of financial assets. Empirical results reveal that Bitcoin and the Chinese stock market exhibit no leverage effect, indicating distinct risk profiles. Among the assets analyzed, Bitcoin and crude oil are associated with the highest levels of risk, gold with the lowest, and stock markets occupy an intermediate position. The findings offer practical implications for asset allocation and policy design. Full article

This paper presents the exponentiated power shanker (EPS) distribution, a fresh three-parameter extension of the standard Shanker distribution with the ability to extend a wider class of data behaviors, from right-skewed and heavy-tailed phenomena. The structural properties of the distribution, namely complete and incomplete moments, entropy, and the moment generating function, are derived and examined in a formal manner. Maximum likelihood estimation (MLE) techniques are used for estimation of parameters, as well as a Monte Carlo simulation study to account for estimator performance across varying sample sizes and parameter values. The EPS model is also generalized to a regression paradigm to include covariate data, whose estimation is also conducted via MLE. Practical utility and flexibility of the EPS distribution are demonstrated through two real examples: one for the duration of repairs and another for HIV/AIDS mortality in Germany. Comparisons with some of the existing distributions, i.e., power Zeghdoudi, power Ishita, power Prakaamy, and logistic-Weibull, are made through some of the goodness-of-fit statistics such as log-likelihood, AIC, BIC, and the Kolmogorov–Smirnov statistic. Graphical plots, including PP plots, QQ plots, TTT plots, and empirical CDFs, further confirm the high modeling capacity of the EPS distribution. Results confirm the high goodness-of-fit and flexibility of the EPS model, making it a very good tool for reliability and biomedical modeling. Full article

The velocity distribution at the deflector jet outlet significantly influences the pressure characteristics of the pilot stage, thereby affecting the dynamic performance of the servo valve. Conventional mathematical models fail to account for the influence of dynamic velocity distribution on pilot stage pressure characteristics, resulting in significant deviations from actual situations. As the deflector shifts, the secondary jet velocity distribution transitions from a symmetric to an asymmetric dynamic profile, altering the pressure within the receiving chambers. To address this, a dynamic skewed velocity distribution model is proposed to more accurately capture the pressure characteristics. The relationship between the skewness coefficient and deflector displacement is established, and the pressure calculation method for the receiving chambers is refined accordingly. A comparative analysis shows that the proposed model aligns most closely with computational fluid dynamics results, achieving a 98% match in velocity distribution and a maximum pressure error of 1.43%. This represents an improvement of 84.98% over the normal model and 82.35% over the uniform model, confirming the superior accuracy of the dynamic skewed model in pilot stage pressure calculation. Full article

Background: The regulation of oil and protein contents in cottonseed is governed by a complex genetic network. Gaining insight into the mechanisms controlling these traits is necessary for dissecting the formation patterns of cottonseed quality. Method: In this study, Xinluzhong 37 (P₁) and Xinluzhong 51 (P₂) were selected as parental lines for two reciprocal crosses: P₁ × P₂ (F₁) and its reciprocal P₂ × P₁ (F₁′). Each F1 was selfed and backcrossed to both parents to generate the F₂ (F₂′), B₁ (B₁′), and B₂ (B₂′) generations. To assess nutritional traits in hairy (non-delinted) and lint-free (delinted) seeds, two indicators, oil content and protein content, were measured in both seed types. Joint segregation analysis was employed to analyze the inheritance of these traits, based on a major gene plus polygene model. Results: In the orthogonal crosses, the CVs for the four nutritional traits ranged at 2.710–7.879%, 4.086–11.070%, 2.724–6.727%, and 3.717–9.602%. In the reciprocal crosses, CVs ranged at 2.710–8.053%, 4.086–9.572%, 2.724–6.376%, and 3.717–8.845%. All traits exhibited normal or skewed-normal distributions. For oil content in undelinted/delinted seeds, polygenic heritabilities in the orthogonal cross were 0.64/0.52, and 0.40/0.36 in the reciprocal cross. For protein content, major-gene heritabilities in the orthogonal cross were 0.79 (undelinted) and 0.78 (delinted), while those in the reciprocal cross were both 0.62. Conclusions: Oil and protein contents in cottonseeds are quantitative traits. In both orthogonal and reciprocal crosses, oil content is controlled by multiple genes and is shaped by additive, dominance, and epistatic effects. Protein content, in contrast, is largely controlled by two major genes along with minor genes. In the P₁ × P₂ combination, major genes act through additive, dominance, and epistatic effects, while in the P₂ × P₁ combination, their effects are additive only. In both combinations, minor genes contribute through additive and dominance effects. In summary, the oil content in cottonseed is mainly regulated by polygenes, whereas the protein content is primarily determined by major genes. These genetic features in both linted, and lint-free seeds may offer a theoretical foundation for molecular breeding aimed at improving cottonseed oil and protein quality. Full article

Standard asymptotic inference for proportional hazards models is conventionally performed by calculating a standard error for the estimate and comparing the estimate divided by the standard error to a standard normal distribution. In this paper, we compare various standard error estimates, including based on the inverse observed information, the inverse expected inverse information, and the jackknife. Furthermore, correction for continuity is compared to omitting this correction. We find that correction for continuity represents an important improvement in the quality of approximation, and furthermore note that the usual naive standard error yields a distribution closer to normality, as measured by skewness and kurtosis, than any of the other standard errors investigated. Full article

We propose a robust linear regression model assuming a log-skew-t distribution for the response variable, with the aim of exploring the association between the covariates and the quantiles of a continuous and positive response variable under skewness and heavy tails. This model includes the log-skew-normal and log-t linear regression models as special cases. Our simulation studies indicate good performance of the quantile estimation approach and its outperformance relative to the classical quantile regression model. The practical applicability of our methodology is demonstrated through an analysis of two real datasets. Full article

This paper introduces a novel and flexible class of continuous probability distributions, termed the Alpha Power Survival Ratio-X (APSR-X) family. Unlike many existing transformation-based families, the APSR-X class integrates an alpha power transformation with a survival ratio structure, offering a new mechanism for enhancing shape flexibility while maintaining mathematical tractability. This construction enables fine control over both the tail behavior and the symmetry properties, distinguishing it from traditional alpha power or survival-based extensions. We focus on a key member of this family, the two-parameter Alpha Power Survival Ratio Exponential (APSR-Exp) distribution, deriving essential mathematical properties including moments, quantile functions and hazard rate structures. We estimate the model parameters using eight frequentist methods: the maximum likelihood (MLE), maximum product of spacings (MPSE), least squares (LSE), weighted least squares (WLSE), Anderson–Darling (ADE), right-tailed Anderson–Darling (RADE), Cramér–von Mises (CVME) and percentile (PCE) estimation. Through comprehensive Monte Carlo simulations, we evaluate the estimator performance using bias, mean squared error and mean relative error metrics. The proposed APSR-X framework uniquely enables preservation or controlled modification of the symmetry in probability density and hazard rate functions via its shape parameter. This capability is particularly valuable in reliability and survival analyses, where symmetric patterns represent balanced risk profiles while asymmetric shapes capture skewed failure behaviors. We demonstrate the practical utility of the APSR-Exp model through three real-world applications: economic (tax revenue durations), engineering (mechanical repair times) and medical (infection durations) datasets. In all cases, the proposed model achieves a superior fit over that of the conventional alternatives, supported by goodness-of-fit statistics and visual diagnostics. These findings establish the APSR-X family as a unique, symmetry-aware modeling framework for complex lifetime data. Full article

Background/Objectives: The potential of DNA as an information-dense storage medium has inspired a broad spectrum of creative systems. In particular, hybrid biomolecular systems that integrate new materials and chemistries with DNA could drive novel functions. In this work, we explore the potential for proteins to serve as molecular file addresses. We stored DNA-encoded data in yeast and leveraged yeast surface display to readily produce the protein addresses and make them easy to access on the cell surface. Methods: We generated yeast populations that each displayed a distinct protein on their cell surfaces. These proteins included binding partners for cognate antibodies as well as chromatin-associated proteins that bind post-translationally modified histone peptides. For each specific yeast population, we transformed a library of hundreds of DNA sequences collectively encoding a specific image file. Results: We first demonstrated that the yeast retained file-encoded DNA through multiple cell divisions without a noticeable skew in their distribution or a loss in file integrity. Second, we showed that the physical act of sorting yeast displaying a specific file address was able to recover the desired data without a loss in file fidelity. Finally, we showed that analog addresses can be achieved by using addresses that have overlapping binding specificities for target peptides. Conclusions: These results motivate further exploration into the advantages proteins may confer in molecular information storage. Full article

This paper introduces the record-based transmuted Rayleigh distribution of order 3 (rbt-R), a three-parameter extension of the classical Rayleigh model designed to address data characterized by high skewness and heavy tails. While traditional generalizations of the Rayleigh distribution enhance model flexibility, they often lack sufficient adaptability to capture the complexity of empirical distributions encountered in applied statistics. The rbt-R model incorporates two additional shape parameters, a and b, enabling it to represent a wider range of distributional shapes. Parameter estimation for the rbt-R model is performed using the maximum likelihood method. Simulation studies are conducted to evaluate the asymptotic properties of the estimators, including bias and mean squared error. The performance of the rbt-R model is assessed through empirical applications to four datasets: nicotine yields and carbon monoxide emissions from cigarette data, as well as breaking stress measurements from carbon-fiber materials. Model fit is evaluated using standard goodness-of-fit criteria, including AIC, AIC_c, BIC, and the Kolmogorov–Smirnov statistic. In all cases, the rbt-R model demonstrates a superior fit compared to existing Rayleigh-based models, indicating its effectiveness in modeling highly skewed and heavy-tailed data. Full article

Potentially toxic elements such as cadmium (Cd) in agricultural soils represent a global concern due to their toxicity and potential accumulation in the food chain. However, our understanding of cadmium’s complex sources and the mechanisms controlling its spatial distribution across diverse edaphic and geological contexts remains limited, particularly in underexplored agricultural regions. Our study aimed to assess the total accumulated Cd content in soils under avocado cultivation and its association with edaphic, geochemical, and geomorphological variables. To this end, we considered the total concentrations of other metals and explored their associations to gain a better understanding of Cd’s spatial distribution. We analyzed 26 physicochemical properties, the total concentrations of 22 elements (including heavy and trace metals such as As, Ba, Cr, Cu, Hg, Ni, Pb, Sb, Se, Sr, Tl, V, and Zn and major elements such as Al, Ca, Fe, K, Mg, and Na), and six geospatial variables in 410 soil samples collected from various avocado-growing regions in Peru in order to identity potential associations that could help explain the spatial patterns of Cd. For data analysis, we applied (1) univariate statistics (skewness, kurtosis); (2) multivariate methods such as Spearman correlations and principal component analysis (PCA); (3) spatial modeling using the Geodetector tool; and (4) non-parametric testing (Kruskal–Wallis test with Dunn’s post hoc test). Our results indicated (1) the presence of hotspots with Cd concentrations exceeding 3 mg·kg⁻¹, displaying a leptokurtic distribution (skewness = 7.3); (2) dominant accumulation mechanisms involving co-adsorption and cation competition (Na⁺, Ca²⁺), as well as geogenic co-accumulation with Zn and Pb; and (3) significantly higher Cd concentrations in Leptosols derived from Cretaceous intermediate igneous rocks (diorites/tonalites), averaging 1.33 mg kg⁻¹ compared to 0.20 mg·kg⁻¹ in alluvial soils (p < 0.0001). The factors with the greatest explanatory power (q > 15%, Geodetector) were the Zn content, parent material, geological age, and soil taxonomic classification. These findings provide edaphogenetic insights that can inform soil cadmium (Cd) management strategies, including recommendations to avoid establishing new plantations in areas with a high risk of Cd accumulation. Such approaches can enhance the efficiency of mitigation programs and reduce the risks to export markets. Full article

Competing risk models are essential in survival analysis for studying systems with multiple mutually exclusive failure events. This study investigates the application of competing risk models in the presence of progressively Type-II censored data for the Dagum distribution, a flexible distribution suited for modeling data with heavy tails and varying skewness and kurtosis. The methodology includes maximum likelihood estimation of the unknown parameters, with a focus on the special case of a common shape parameter, which allows for a closed-form expression of the relative risks. A hypothesis test is developed to assess the validity of this assumption, and both asymptotic and bootstrap confidence intervals are constructed. The performance of the proposed methods is evaluated through Monte Carlo simulations, and their applicability is demonstrated with a real-world example. Full article

Green roofs are increasingly recognized as effective Nature-Based Solutions (NBS) for urban stormwater management, contributing to sustainable and climate-resilient cities. The Soil Conservation Service Curve Number (SCS-CN) model is commonly used to simulate their hydrological performance due to its simplicity and low data requirements. However, the standard assumption of a fixed initial abstraction ratio (Ia/S = 0.2), long debated in hydrology, has been largely overlooked in green roof applications. This study investigates the variability of Ia/S and its impact on runoff simulation accuracy for a green roof under a humid subtropical climate. Event-based analysis across multiple storms revealed Ia/S values ranging from 0.01 to 0.62, with a calibrated optimal value of 0.17. This variability is primarily driven by the physical and biological characteristics of the green roof rather than short-term rainfall conditions. Using the fixed ratio introduced consistent biases in runoff estimation, while intermediate ratios (0.17–0.22) provided higher accuracy, with the optimal ratio yielding a median Curve Number (CN) of 89 and high model performance (NSE = 0.95). Additionally, CN values followed a positively skewed Weibull distribution, highlighting the value of probabilistic modeling. Though limited to one green roof design, the findings underscore the importance of site-specific parameter calibration to improve predictive reliability. By enhancing model accuracy, this research supports better design, evaluation, and management of green roofs, reinforcing their contribution to integrated urban water systems and global sustainability goals. Full article

The Rayleigh distribution is a continuous probability distribution that is inherently asymmetric and commonly used to model right-skewed data. It holds significant importance across a wide range of scientific and engineering disciplines and exhibits structural relationships with several other asymmetric probability distributions, for example, Weibull and exponential distribution. This research proposes techniques for establishing credible intervals and confidence intervals for the single mean of the zero-inflated two-parameter Rayleigh distribution. The study introduces methods such as the percentile bootstrap, generalized confidence interval, standard confidence interval, approximate normal using the delta method, Bayesian credible interval, and Bayesian highest posterior density. The effectiveness of the proposed methods is assessed by evaluating coverage probability and expected length through Monte Carlo simulations. The results indicate that the Bayesian highest posterior density method outperforms the other approaches. Finally, the study applies the proposed methods to construct confidence intervals for the single mean using real-world data on COVID-19 total deaths in Singapore during October 2022. Full article

Regarding the issue of constructing Fourier transform infrared (FTIR) spectral characteristics of hot jet of aero-engines, this paper presented a construction algorithm for the FTIR spectral characteristics of an aero-engine hot jet, which integrated staged refined processing and statistical feature fusion. First, a remote-sensing Fourier transform infrared spectrometer was employed to collect data on the hot jets of two distinct types of aero-engines, thereby establishing a measured spectral dataset. Subsequently, a multi-dimensional feature extraction vector construction algorithm was proposed, encompassing a peak feature extraction algorithm based on staged refined processing and a high-order statistical feature extraction algorithm. The peak feature extraction algorithm based on staged refined processing consisted of four steps: “coarse detection—local optimization—dynamic screening—intelligent merging”. It adopted an adaptive threshold for the initial coarse detection of peaks, enhanced the positioning accuracy through local gradient optimization, dynamically screened the local strongest peak according to intensity information, and resolved the problem of overlapping peak resolution via an intelligent merging strategy based on the physical characteristics of spectral lines, achieving high-precision and high-robustness peak feature extraction. The high-order statistical feature extraction algorithm realized the extraction of the intensity distribution information and waveform symmetry information of the spectral signal by fusing the kurtosis and skewness statistics. Compared with the traditional feature construction algorithms, the multi-dimensional feature vector construction algorithm proposed in this paper possessed a higher-dimensional comprehensive representation capability. In the experiment, we selected the GMM classifier of the unsupervised clustering algorithm. The classification accuracy of the features extracted by the algorithm in this paper on this classifier reached 82.42%, thereby validating the effectiveness of the algorithm presented in this paper. Full article