Assessing drug target suitability using TargetMine

Abstract

In selecting drug target candidates for pharmaceutical research, the linkage to disease and the tractability of the target are two important factors that can ultimately determine the drug efficacy. Several existing resources can provide gene-disease associations, but determining whether such a list of genes are attractive drug targets often requires further information gathering and analysis. In addition, few resources provide the information required to evaluate the tractability of a target. To address these issues, we have updated TargetMine, a data warehouse for assisting target prioritization, by integrating new data sources for gene-disease associations and enhancing functionalities for target assessment. As a data mining platform that integrates a variety of data sources, including protein structures and chemical compounds, TargetMine now offers a powerful and flexible interface for constructing queries to check genetic evidence, tractability and other relevant features for the candidate genes. We demonstrate these features by using several specific examples.

DNA Methylation-Related circRNA_0116449 Is Involved in Lipid Peroxidation in Traumatic Brain Injury

“…As most cytoplasmic circRNA acts as a miRNA sponge, we checked a series of miRNAs that circ_0114669 might bind to with an online tool (CircInteractome) and found only miR-142-3p was previously reported to increase in TBI session ( Panda et al, 2018 ). We further predicted the target genes of miR-142-3p by integrating the results from TargetScan ( Agarwal et al, 2015 ), miRDB ( Chen and Wang, 2019 ) and TargetMiner ( Chen Y. A. et al, 2019 ).…”