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MicroRNAs (miRNAs) regulate genes that are associated with various diseases. To better understand miRNAs, the miRNA regulatory mechanism needs to be investigated and the real targets identified. Here, we present miRTDL, a new miRNA target prediction algorithm based on convolutional neural network (CNN). The CNN automatically extracts essential information from the input data rather than completely relying on the input dataset generated artificially when the precise miRNA target mechanisms are poorly known. In this work, the constraint relaxing method is first used to construct a balanced training dataset to avoid inaccurate predictions caused by the existing unbalanced dataset. The miRTDL is then applied to 1,606 experimentally validated miRNA target pairs. Finally, the results show that our miRTDL outperforms the existing target prediction algorithms and achieves significantly higher sensitivity, specificity and accuracy of 88.43, 96.44, and 89.98 percent, respectively. We also investigate the miRNA target mechanism, and the results show that the complementation features are more important than the others.

BackgroundDrug repositioning is a promising and efficient way to discover new indications for existing drugs, which holds the great potential for precision medicine in the post-genomic era. Many network-based approaches have been proposed for drug repositioning based on similarity networks, which integrate multiple sources of drugs and diseases. However, these methods may simply view nodes as the same-typed and neglect the semantic meanings of different meta-paths in the heterogeneous network. Therefore, it is urgent to develop a rational method to infer new indications for approved drugs.ResultsIn this study, we proposed a novel methodology named HeteSim_DrugDisease (HSDD) for the prediction of drug repositioning. Firstly, we build the drug-drug similarity network and disease-disease similarity network by integrating the information of drugs and diseases. Secondly, a drug-disease heterogeneous network is constructed, which combines the drug similarity network, disease similarity network as well as the known drug-disease association network. Finally, HSDD predicts novel drug-disease associations based on the HeteSim scores of different meta-paths. The experimental results show that HSDD performs significantly better than the existing state-of-the-art approaches. HSDD achieves an AUC score of 0.8994 in the leave-one-out cross validation experiment. Moreover, case studies for selected drugs further illustrate the practical usefulness of HSDD.ConclusionsHSDD can be an effective and feasible way to infer the associations between drugs and diseases using on meta-path-based semantic network analysis.

Raw peanut oil was combined with partially defatted peanut meal at a ratio of 10:1 (w/w) and roasted at 160 0C for 30 min in a closed chamber under various atmospheric conditions. The addition of 10-20 % moisture to peanut meal was essential for the formation of peanutty flavor in oil. A unique and pleasant roasted peanut flavor was achieved when roasting was carried out under atmospheres of CO2 and He.The free fatty acid content increased in the oil when the atmosphere during roasting consisted of O2, while slight decreases were observed in oils prepared using other atmospheric gas systems. After storage at 62 °C for 35 days, free fatty acid and conjugated diene hydroperoxide contents increased in oils subjected to all treatments. However, the fatty acid composition in oils varied only within a limited range. Significant antioxidative activities were observed in peanut oils roasted with partially defatted peanut meal under CO2, He, and N2.

Glucose and xylose are the major hydrolysates of lignocellulose, and therefore, it is of great implication to identify the microbes involved in simultaneous utilization of glucose and xylose. In this study, the strain ZZ-46 isolated from the soil of Nanyang, China, could simultaneously assimilate glucose and xylose efficiently to produce lipid. Upon cultivation with a 2:1 glucose/xylose mixture as the carbon source for 144 h, the cell biomass, lipid concentration, lipid content, and lipid yield of ZZ-46 reached 19.85 ± 0.39 g/L, 9.53 ± 0.60 g/L, 48.05 ± 3.51%, and 0.142 ± 0.003 g/g sugar, respectively. Moreover, C16 and C18 fatty acids were the main constituents of lipid produced by ZZ-46. In addition, ZZ-46 was identified as Cutaneotrichosporon dermatis by the morphology features and phylogenetic analyses. The strain ZZ-46 would have good perspective in practical application for converting lignocellulose into microbial lipid.

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