Abbreviation pd: Parkinson’s Disease

Abbreviation

• PD: Parkinson’s Disease

• SN: Substantia Nigra

The substantia nigra (SN) is important resource to understand the mechanism of the PD causation

• The substantia nigra (SN) is important resource to understand the mechanism of the PD causation

• The needs for the resources to provide information of comprehensive PD-related genes and genetic variations

• We present a consolidated PD database, called PDbase, to capture wide spectrum of molecular events

PDbase

• PDbase

• A comprehensive PD-related genes and genetic variation database
• Contains 2,678 genes and 870,468 SNPs from 1) SN ESTs and 2) public disease-related databases
• Provides biological function of the PD-related genes including alternative splicing events, SNPs located in gene structure, mitochondrial proteins, micro-RNA elements, biological pathways, and PPI networks

• Related work

• MDPD (The Mutation Database for Parkinson’s Disease)

• 202 genes extracted from 576 publications and manually examined by biomedical researchers based on population studies
• It provides the PD-related genetic variation effects such as risk factor or ethnic group

• PDGene

• 40~80 PD genetic association studies
• PD-related genes and risk factors from association studies

PDbase construction:

• PDbase construction:

• SN EST discovery and

• computational analysis

PDbase system

• PDbase system

SN EST statistics

• SN EST statistics
• Gene information
• Genetic variation information
• Gene regulation
• Gene Ontology (GO)
• Biological pathways: BioCarta and KEGG
• Protein-protein interaction network

PDbase

• PDbase

• Provides comprehensive information about Parkinson’s Disease-related genes and genetic variation
• highlights to contain not only public resources, but also un-reported PD target genes using normal and PD’s SN ESTs
• Helpful in analysis of complex biological phenomena including human brain diseases because of including several genes, genetic variations, expression, and network
• available at http://bioportal.kobic.re.kr/PDbase/