Drug-Path: a database for drug-induced pathways.

Hui Zeng,Qinghua Cui,Chengxiang Qiu

doi:10.1093/database/bav061

Hui Zeng, Qinghua Cui + Show 1 more

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https://doi.org/10.1093/database/bav061

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Journal: Database	Publication Date: Jan 1, 2015
Citations: 26	License type: cc-by

Affiliation: Peking University, Peking University Third Hospital

Abstract

Some databases for drug-associated pathways have been built and are publicly available. However, the pathways curated in most of these databases are drug-action or drug-metabolism pathways. In recent years, high-throughput technologies such as microarray and RNA-sequencing have produced lots of drug-induced gene expression profiles. Interestingly, drug-induced gene expression profile frequently show distinct patterns, indicating that drugs normally induce the activation or repression of distinct pathways. Therefore, these pathways contribute to study the mechanisms of drugs and drug-repurposing. Here, we present Drug-Path, a database of drug-induced pathways, which was generated by KEGG pathway enrichment analysis for drug-induced upregulated genes and downregulated genes based on drug-induced gene expression datasets in Connectivity Map. Drug-Path provides user-friendly interfaces to retrieve, visualize and download the drug-induced pathway data in the database. In addition, the genes deregulated by a given drug are highlighted in the pathways. All data were organized using SQLite. The web site was implemented using Django, a Python web framework. Finally, we believe that this database will be useful for related researches.Database URL: http://www.cuilab.cn/drugpath

Highlights

The pathways of drugs are important information for understanding the mechanisms of drug action and metabolism and for drug repositioning [1], which finds new therapeutic indications for approved drugs and experimental drugs that fail approval in their initial indication.databases collecting drug pathways are increasingly important
By first identifying upregulated and downregulated genes of drug-induced gene expression profiles and performing KEGG pathway enrichment analysis, we identified the pathways affected by drugs, which we called drug-induced pathways
We obtained the drug-induced deregulated genes from the Connectivity Map (CMap) database, which includes more than 1000 drugs

Summary

Introduction

The pathways of drugs are important information for understanding the mechanisms of drug action and metabolism and for drug repositioning [1], which finds new therapeutic indications for approved drugs and experimental drugs that fail approval in their initial indication.databases collecting drug pathways are increasingly important. Several databases have included drug pathways, such as DrugBank [2, 3], KEGG [4, 5] and SMPDB [1, 6]. Besides its targets, one drug can induce expression changes of a number of genes, and can deregulate a number of pathways [7].

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Conclusion