PubTator Central (PTC) API
Explored by:
CHEN, JESSICA, DODSON, JACK PATRICK, FLYNN-CARROLL, ALEXANDER OWEN-(Bioinformatics 201, Winter-2022, UCLA)
Description:
Task:
Multi-omics integration to determine the biological pathways that are over-represented in a set of genes associated with Parkinson’s provided via GWAS.
Background:
The GWAS Catalog API can provide a list of genes that are significantly associated with Parkinson’s disease. WebGestalt Web API takes as input the list of genes and performs an over-representation analysis (ORA). These two APIs can be integrated to find statistics relating to a holistic set of genes related to Parkinson’s disease.
Goal:
Identify the enrichment of Parkinson’s-associated genes with respect to a panel of phenotypes provided by WebGestalt. This can give more genetic information regarding Parkinson's disease.
Method:
- GWAS query for associated genes: Find the list of genes associated with Parkinson’s from the GWAS catalog.
- Gene list to statistics: Input the list of related genes into the WebGestalt Web API to conduct an over-representation analysis on the gene set relative to phenotypes such as KEGG pathways or GO terms.
Expected Outcome:
Produce a list of over-represented biological pathways relative to a large set of genes related to Parkinson’s.