• Journal of Information Processing Systems
• /
• v.15 no.5
• /
• pp.1055-1067
• /
• 2019

In view of the deficiencies of existing weighted similarity indexes, a hierarchical clustering method initialize-expand-merge (IEM) is proposed based on the similarity of common neighbors for community discovery in weighted networks. Firstly, the similarity of the node pair is defined based on the attributes of their common neighbors. Secondly, the most closely related nodes are fast clustered according to their similarity to form initial communities and expand the communities. Finally, communities are merged through maximizing the modularity so as to optimize division results. Experiments are carried out on many weighted networks, which have verified the effectiveness of the proposed algorithm. And results show that IEM is superior to weighted common neighbor (CN), weighted Adamic-Adar (AA) and weighted resources allocation (RA) when using the weighted modularity as evaluation index. Moreover, the proposed algorithm can achieve more reasonable community division for weighted networks compared with cluster-recluster-merge-algorithm (CRMA) algorithm.

• Mass Spectrometry Letters
• /
• v.11 no.4
• /
• pp.113-117
• /
• 2020

Cytochrome P450 2J2 (CYP2J2) is a member of the cytochrome P450 superfamily, and is known to be arachidonic acid epoxygenase that mediates the formation of four bioactive regioisomers of epoxyeicosatrienoic acids (EETs). CYP2J2 is also involved in the metabolism of drugs such as albendazole, astemizole, danazol, ebastine, and terfenadine. CYP2J2 is highly expressed in the heart and cancer tissues. In this study, the inhibitory potential of ten natural products against CYP2J2 activity was evaluated using human liver microsomes and tandem mass spectrometry. Among them, bilobetin, which is a kind of biflavonoid, exhibits a strong inhibitory effect against the CYP2J2-mediated astemizole O-demethylation (IC50 = 0.73 μM) and terfenadine hydroxylation (IC50 = 0.89 μM). This result suggests that bilobetin can be used as strong CYP2J2 inhibitor in drug metabolism study.

• Mass Spectrometry Letters
• /
• v.13 no.4
• /
• pp.152-157
• /
• 2022

Schisandra chinensis and its fruits have been used as a traditional herbal medicine to treat liver dysfunction, fatigue, and chronic coughs. Several in vitro and in vivo studies suggested that dibenzocyclooctadiene lignans present in Schisandra fruits strongly inhibit CYP3A4 activity. However, reports on the inhibitory potential of dietary Schisandra supplements against CYP3A activity are limited despite their increasing consumption as dietary supplements. In this study, we evaluated the CYP3A-inhibitory potential of four dietary Schisandra supplements in human liver microsomes. At a concentration of 0.05 mg/mL, Schisandra supplements from Nature's Way, Swanson, Planetary Herbals, and Only Natural inhibited CYP3A activity by 93.9, 70.8, 33.6, and 24.8%, respectively. Nature's Way, which exhibited the strongest inhibition against CYP3A, had the highest contents of gomisin B and gomisin C, which potently inhibit CYP3A activity. The in vivo pharmacokinetics of this product should be examined to determine whether the clinical relevance of inhibiting CYP3A activity by dietary Schisandra supplementation.

• Mass Spectrometry Letters
• /
• v.12 no.2
• /
• pp.53-58
• /
• 2021

Previous in vitro studies have demonstrated that ginsenoside Rc inhibits UGT1A9, but there are no available data to indicate that ginsenoside Rc inhibits UGT1A9 in vivo. The effect of single and repeated intravenous injection of ginsenoside Rc was evaluated on the pharmacokinetics of mycophenolic acid. After injection of ginsenoside Rc (5 mg/kg for one day or 3 mg/kg for five days), 2-mg mycophenolic acid was intravenously injected, and the pharmacokinetics of mycophenolic acid and mycophenolic acid-β-glucuronide were determined. Concentrations of mycophenolic acid and its metabolite from rat plasma were analyzed using a liquid chromatography-triple quadrupole mass spectrometry. Single or repeated pretreatment with ginsenoside Rc had no significant effects on the pharmacokinetics of mycophenolic acid (P > 0.05): The mean difference in maximum plasma concentration (C_max) and area under the concentration-time curve (AUC_inf) were within 0.83- and 0.62-fold, respectively, compared with those in the absence of the ginsenoside Rc. These results indicate that ginsenoside Rc has a negligible effect on the disposition of mycophenolic acid in vivo despite in vitro findings indicating that ginsenoside Rc is a selective UGT1A9 inhibitor. As a result, ginsenoside Rc has little possibility of interacting with drugs that are metabolized by UGT1A9, including mycophenolic acid.

• Journal of Information Processing Systems
• /
• v.17 no.1
• /
• pp.163-177
• /
• 2021

Many methods of discovering social networking communities or clustering of features are based on the network structure or the content network. This paper proposes a community discovery method based on topic models using a time factor and an unsupervised clustering method. Online community discovery enables organizations and businesses to thoroughly understand the trend in users' interests in their products and services. In addition, an insight into customer experience on social networks is a tremendous competitive advantage in this era of ecommerce and Internet development. The objective of this work is to find clusters (communities) such that each cluster's nodes contain topics and individuals having similarities in the attribute space. In terms of social media analytics, the method seeks communities whose members have similar features. The method is experimented with and evaluated using a Vietnamese corpus of comments and messages collected on social networks and ecommerce sites in various sectors from 2016 to 2019. The experimental results demonstrate the effectiveness of the proposed method over other methods.

• Journal of Information Science Theory and Practice
• /
• v.10 no.4
• /
• pp.3-22
• /
• 2022

This paper provides an overview of the emergence of resource discovery systems and services, along with their advantages, best practices, and current landscapes. It outlines some of the key services and functionalities of a comprehensive discovery model suitable for academic libraries in developing countries. The proposed model (VuFind as a discovery tool) performs like other existing web-scale resource discovery systems, both commercial and open-source, and is capable of providing information resources from different sources in a single-window search interface. The objective of the paper is to provide seamless access to globally distributed subscribed as well as open access resources through its discovery interface, based on a unified index. This model uses Koha, DSpace, and Greenstone as back-ends and VuFind as a discovery layer in the front-end and has also integrated many enhanced search features like Bento-box search, Geodetic search, and full-text search (using Apache Tika). The goal of this paper is to provide the academic community with a one-stop shop for better utilising and integrating heterogeneous bibliographic data sources with VuFind (https://vufind.org/vufind).

• Genomics & Informatics
• /
• v.17 no.2
• /
• pp.18.1-18.10
• /
• 2019

Prediction of the relations among drug and other molecular or social entities is the main knowledge discovery pattern for the purpose of drug-related knowledge discovery. Computational approaches have combined the information from different sources and levels for drug-related knowledge discovery, which provides a sophisticated comprehension of the relationship among drugs, targets, diseases, and targeted genes, at the molecular level, or relationships among drugs, usage, side effect, safety, and user preference, at a social level. In this research, previous work from the BioNLP community and matrix or matrix decomposition was reviewed, compared, and concluded, and eventually, the BioNLP open-shared task was introduced as a promising case study representing this area.

• Journal of Microbiology and Biotechnology
• /
• v.31 no.4
• /
• pp.493-500
• /
• 2021

Endophytic fungi are symbiotically related to plants and spend most of their life cycle within them. In nature, they have a crucial role in plant micro-ecosystem. They are harnessed for their bioactive compounds to counter human health problems and diseases. Endophytic Diaporthe sp. is a widely distributed fungal genus that has garnered much interest within the scientific community. A substantial number of secondary metabolites have been detected from Diaporthe sp. inhabited in various plants. As such, this minireview highlights the potential of Diaporthe sp. as a rich source of bioactive compounds by emphasizing on their diverse chemical entities and potent biological properties. The bioactive compounds produced are of significant importance to act as new lead compounds for drug discovery and development.

• Analytical Science and Technology
• /
• v.34 no.2
• /
• pp.37-45
• /
• 2021

A rapid and simple LC-MS/MS analytical method in determining Jaspine B has been developed and validated in rat plasma. The standard curve value was 25 - 5000 ng/mL and the linearity, inter-day and intra-day accuracy and precision were within 15.0 % of relative standard deviation (RSD). The mean recoveries of Jaspine B ranged from 87.5 % to 91.2 % with less than 3.70 % RSD and the matrix effects ranged from 91.1 % to 108.2 % with less than 2.6 % RSD. The validated LC-MS/MS analytical method of Jaspine B was successfully applied to investigate the dose-escalated pharmacokinetic study of Jaspine B in rats following an intravenous injection of Jaspine B at a dose range of 1 - 10 mg/kg. The initial plasma concentrations and area under plasma concentration curves showed a good correlation with intravenous Jaspine B dose, indicating the dose independent pharmacokinetics of Jaspine B in rats. In conclusion, this analytical method for Jaspine B can be easily applied in the bioanalysis and pharmacokinetic studies of Jaspine B, including its administration at multiple therapeutic doses, or for making pharmacokinetic comparisons for the oral formulations of Jaspine B in small experimental animals as well as in vivo pharmacokinetic-pharmacodynamic correlation studies.

• Mass Spectrometry Letters
• /
• v.12 no.1
• /
• pp.16-20
• /
• 2021

We aimed to compare the content of ginsenosides and the pharmacokinetics after the oral administration of four different ginseng products at a dose of 1 g/kg in rats. The four different ginseng products were fresh ginseng extract, red ginseng extract, white ginseng extract, and saponin enriched white ginseng extract prepared from the radix of Panax ginseng C.A. Meyer. The ginsenoside concentrations in the ginseng product and the rat plasma samples were determined using a liquid chromatography-tandem mass spectrometry (LC-MS/MS). Eight or nine ginsenosides of the 15 tested ginsenosides were detected; however, the content and total ginsenosides varied depending on the preparation method. Moreover, the content of triglycosylated ginsenosides was higher than that of diglycosylated ginsenosides, and deglycosylated ginsenosides were not present in any preparation. After the single oral administrations of four different ginseng products in rats, only four ginsenosides, such as 20(S)-ginsenosides Rb1 (GRb1), GRb2, GRc, and GRd, were detected in the rat plasma samples among the 15 ginsenosides tested. The plasma concentrations of GRb1, GRb2, GRc, and GRd were different depends on the preparation method but pharmacokinetic features of the four ginseng products were similar. In conclusion, a good correlation between the area under the concentration curve and the content of GRb1, GRb2, and GRc, but not GRd, in the ginseng products was identified and it might be the result of their higher content and intestinal biotransformation of the ginseng product.