Cardiff University | Prifysgol Caerdydd ORCA
Online Research @ Cardiff 
WelshClear Cookie - decide language by browser settings

The pathway editor: a tool for managing complex biological networks

Sorokin, A., Paliy, K., Selkov, A., Demin, O. V., Dronov, S., Ghazal, P. and Goryanin, I. 2006. The pathway editor: a tool for managing complex biological networks. Ibm Journal of Research and Development 50 (6) , pp. 561-573. 10.1147/rd.506.0561

Full text not available from this repository.


Biological networks are systems of biochemical processes inside a cell that involve cellular constituents such as DNA, RNA, proteins, and various small molecules. Pathway maps are often used to represent the structure of such networks with associated biological information. Several pathway editors exist, and they vary according to specific domains of knowledge. This paper presents a review of existing pathway editors, along with an introduction to the Edinburgh Pathway Editor (EPE). EPE was designed for the annotation, visualization, and presentation of a wide variety of biological networks that include metabolic, genetic, and signal transduction pathways. EPE is based on a metadata-driven architecture. The editor supports the presentation and annotation of maps, in addition to the storage and retrieval of reaction kinetics information in relational databases that are either local or remote. EPE also has facilities for linking graphical objects to external databases and Web resources, and is capable of reproducing most existing graphical notations and visual representations of pathway maps. In summary, EPE provides a highly flexible tool for combining visualization, editing, and database manipulation of information relating to biological networks. EPE is open-source software, distributed under the Eclipse open-source application platform license.

Item Type: Article
Date Type: Publication
Status: Published
Schools: Medicine
Publisher: Ibm Corporation
ISSN: 0018-8646
Date of Acceptance: 3 February 2006
Last Modified: 25 Jul 2018 10:46

Citation Data

Cited 22 times in Scopus. View in Scopus. Powered By Scopus® Data

Actions (repository staff only)

Edit Item Edit Item