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RNA Expression Profiling
Published in Attila Lorincz, Nucleic Acid Testing for Human Disease, 2016
Payman Hanifi-Moghaddam, Curt W. Burger, Theo J.M. Helmerhorst, Leen J. Blok
The basic idea for the construction of a genetic network based on literature mining and expert knowledge is the assumption that if two genes are co-mentioned in a MEDLINE record, there is an underlying biological relationship. The extracted information can be stored in a database that can be integrated with other public databases such as the complete Kyoto Encyclopedia of Genes and Genomes,57 the Database of Interacting Proteins,58 the Bimolecular Interaction Network Database,59 and Gene Ontology.60
Establishment of an anti-inflammation-based bioassay for the quality control of the 13-component TCM formula (Lianhua Qingwen)
Published in Pharmaceutical Biology, 2021
Shuaishuai Chen, Xiaojuan Yang, Ziying Wei, Yanru Zhang, Ying Huang, Zhuo Shi, Ziteng Zhang, Jiabo Wang, Haizhu Zhang, Jianli Ma, Xiaohe Xiao, Ming Niu
The molecule structure of the chemical components of LHQW was obtained from the TCM Database@Taiwan (TDT; http://tcm.cmu.edu.tw/). The targets of these components were predicted by using PharmMapper (http://59.78.96.61/pharmmapper), and scores greater than 4.0 were selected. Inflammation-related genes and protein targets were screened by using Online Mendelian Inheritance in Man (OMIM; http://www.omim.org/). The protein–protein interactions were obtained from the Database of Interacting Proteins (DIP; http://dip.doe-mbi.ucla.edu). The above targets were converted to UniProt ID format.
Protective effect of Qingre Huoxue decoction against myocardial infarction via PI3K/Akt autophagy pathway based on UPLC-MS, network pharmacology, and in vivo evidence
Published in Pharmaceutical Biology, 2021
Zheng Jin, Wenbo Zhang, Yuan Luo, Xiushen Li, Lijin Qing, Qiang Zuo, Junfeng Fang, Wei Wu
We intersected QRHX targets and MI related targets to obtain a common target of both, then imported the targets of QRHX and MI into the BisoGenet module in Cytoscape version 3.8.0 and mapped to protein-protein interaction (PPI) databases, such as the Database of Interacting Proteins, Biological General Repository for Interaction Datasets, Human Protein Reference Database, IntAct Molecular Interaction Database, Molecular INTeraction Database and Biomolecular Interaction Network Database. The PPI network of QRHX and MI-related targets were constructed with Cytoscape software.