Identification of SNP Targeted Pathways From Genome-wide Association
Study (GWAS) Data
Burcu Bakir-Gungor1-3,*, Osman Ugur Sezerman3
1
Department of Genetics Bioinformatics, Faculty of Arts and Sciences, Bahcesehir University, Istanbul, TURKEY. 2
Department of Computer Engineering, Faculty of Engineering, Bahcesehir University, Istanbul, TURKEY. 3
Biological Sciences and Bioengineering, Faculty of Engineering and Natural Sciences, Sabancı University, Istanbul,
TURKEY.
Figure 1: Outline of PANOGA protocol. In Step 1, a gene-wise Pw-value for association with
disease was computed by integrating functional information. In Step 2, significant Pw-values
were loaded as two separate attributes of the genes in a PPI network and visualized using
Cytoscape. At this step, active sub-networks of interacting gene products that were also
associated with the disease, are identified using jActive Modules plugin. In Step 3, genes in an
identified active sub-network were tested whether they are part of functionally important KEGG
pathways. Step 4 integrates the functional enrichments of the generated sub-networks.
1