Freeman T.C., Raza S., Theocharidis A. and Ghazal P. The mEPN Scheme: An Intuitive and Flexible Graphical System for Rendering Biological Pathways. BMC Systems Biology 4:65, 2010.
The modified Edinburgh Pathway Notation (mEPN) scheme has been designed to fulfil a number of objectives:
- Allow the detailed representation of a diverse range of biological entities, interactions and pathway concepts
- Provide a system for presenting pathway knowledge in a semantically and visually unambiguous manner
- Be as simple as possible to construct and edit diagrams
- Be understandable and useful to a biologist
- Have network semantics that are sufficiently well defined that software tools can convert graphical models into formal models, suitable for analysis and simulation
The mEPN scheme is founded on a pathway notation system originally proposed by Moodie et al. 2006
and first published in a form similar to that described here by Raza et al. 2008
. Its recent evolution and refinement has been primarily driven by our attempts to produce process diagrams
for a diverse range of biological pathways, particularly with respect to immune signalling in mammals. These efforts have also been influenced by the work of the Systems Biology Graphical Notation
(SBGN) community and others in the field. The current mEPN scheme is the based on the experience of over five years of pathway construction, notation testing and discussions. The objectives of the EPN as originally proposed remain preserved as do many of its original concepts of the EPN scheme1. However substantial modifications have been made to the notation system from the introduction of new symbols to changes in the aesthetics of the scheme and pathway syntax.
The following documents provide a detailed description of the mEPN scheme:
The development of the current mEPN scheme, the rules for its deployment and creation of a number of large pathway diagrams has been driven by the group of Dr Tom Freeman
in collaboration with Prof. Peter Ghazal
together with other members of the Roslin Institute
, the Division of Pathway Medicine
and the Centre for Systems Biology Edinburgh
, University of Edinburgh.