The prediction of algal chlorophyll-a and water clarity in lentic ecosystems is a hot issue due to rapid deteriorations of drinking water quality and eutrophication processes. Our key objectives of the study were to predict long-term algal chlorophyll-a and transparency (water clarity), measured as Secchi depth, in spatially heterogeneous and temporally dynamic reservoirs largely influenced by the Asian monsoon during 2000–2017 and then determine the reservoir trophic state using a multiple linear regression (MLR), support vector machine (SVM) and artificial neural network (ANN). We tested the models to analyze the spatial patterns of the riverine zone (Rz), transitional zone (Tz) and lacustrine zone (Lz) and temporal variations of premonsoon, monsoon and postmonsoon. Monthly physicochemical parameters and precipitation data (2000–2017) were used to build up the models of MLR, SVM and ANN and then were confirmed by cross-validation processes. The model of SVM showed better predictive performance than the models of MLR and ANN, in both before validation and after validation. Values of root mean square error (RMSE) and mean absolute error (MAE) were lower in the SVM model, compared to the models of MLR and ANN, indicating that the SVM model has better performance than the MLR and ANN models. The coefficient of determination was higher in the SVM model, compared to the MLR and ANN models. The mean and maximum total suspended solids (TSS), nutrients (total nitrogen (TN) and total phosphorus (TP)), water temperature (WT), conductivity and algal chlorophyll (CHL-a) were in higher concentrations in the riverine zone compared to transitional and lacustrine zone due to surface run-off from the watershed. During the premonsoon and postmonsoon, the average annual rainfall was 59.50 mm and 54.73 mm whereas it was 236.66 mm during the monsoon period. From 2013 to 2017, the trophic state of the reservoir on the basis of CHL-a and SD was from mesotrophic to oligotrophic. Analysis of the importance of input variables indicated that WT, TP, TSS, TN, NP ratios and the rainfall influenced the chlorophyll-a and transparency directly in the reservoir. These findings of the algal chlorophyll-a predictions and Secchi depth may provide key clues for better management strategy in the reservoir.

As one of the most prevalent post-transcriptional epigenetic modifications, N5-methylcytosine (m5C) plays an essential role in various cellular processes and disease pathogenesis. Therefore, it is important accurately identify m5C modifications in order to gain a deeper understanding of cellular processes and other possible functional mechanisms. Although a few computational methods have been proposed, their respective models have been developed using small training datasets. Hence, their practical application is quite limited in genome-wide detection. To overcome the existing limitations, we propose Deepm5C, a bioinformatics method for identifying RNA m5C sites throughout the human genome. To develop Deepm5C, we constructed a novel benchmarking dataset and investigated a mixture of three conventional feature-encoding algorithms and a feature derived from word-embedding approaches. Afterward, four variants of deep-learning classifiers and four commonly used conventional classifiers were employed and trained with the four encodings, ultimately obtaining 32 baseline models. A stacking strategy is effectively utilized by integrating the predicted output of the optimal baseline models and trained with a one-dimensional (1D) convolutional neural network. As a result, the Deepm5C predictor achieved excellent performance during cross-validation with a Matthews correlation coefficient and an accuracy of 0.697 and 0.855, respectively. The corresponding metrics during the independent test were 0.691 and 0.852, respectively. Overall, Deepm5C achieved a more accurate and stable performance than the baseline models and significantly outperformed the existing predictors, demonstrating the effectiveness of our proposed hybrid framework. Furthermore, Deepm5C is expected to assist community-wide efforts in identifying putative m5Cs and to formulate the novel testable biological hypothesis.

HYPERPARAMETER SELECTION IN KERNEL PRINCIPAL COMPONENT ANALYSIS

A Comparative Study of Kernel and Robust Canonical Correlation Analysis