A Compound Graph Layout Algorithm for Biological Pathways. - Ugur Dogrusöz; Erhan Giral; Ahmet Cetintas; Ali Civril; Emek Demir (GD, 2004)

Patikaweb: a Web interface for analyzing biological pathways through advanced querying and visualization. - Ugur Dogrusöz; E. Z. Erson; Erhan Giral; Emek Demir; Ozgun Babur; Ahmet Cetintas; R. Colak (Bioinform., 2006)

Algorithms for effective querying of compound graph-based pathway databases. - Ugur Dogrusöz; Ahmet Cetintas; Emek Demir; Ozgun Babur (BMC Bioinform., 2009)

A layout algorithm for undirected compound graphs. - Ugur Dogrusöz; Erhan Giral; Ahmet Cetintas; Ali Civril; Emek Demir (Inf. Sci., 2009)