A statistical analysis of relation degree of compound pair on online biological pathway databases

Myungha Jang, Arang Rhie, Jiyoung Whang, Sanduk Yang, Hyun S. Park

Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

Abstract

The basic graph layout technique, one of the visualization te chniques, deals with the problem of positioning the vertices i n a way to maximize understandability and usability in a grap h. This technique is becoming a vital part for further develop ment in the field of systems biology. However, applying the appropriate automatic graph layout techniques to the genome scale flow of metabolism requires understanding of the charac teristics of metabolites and reactions, which suggest valuable information to bioinformatics software developers for better visualization of automatic graph layout. In this paper, we define the term relation degree of a compound pair to provide a reasonable way to visualize metabolic pathway atlas, based on the parsing result of the publicly available XML files. It is a preliminary step for future research in the area of automatic 1 ayout techniques in large-scale biological pathway domain.

Original languageEnglish
Title of host publicationProceedings of the 3rd International Conference on Ubiquitous Information Management and Communication, ICUIMC'09
Pages644-649
Number of pages6
DOIs
StatePublished - 2009
Event3rd International Conference on Ubiquitous Information Management and Communication, ICUIMC'09 - Suwon, Korea, Republic of
Duration: 15 Jan 200916 Jan 2009

Publication series

NameProceedings of the 3rd International Conference on Ubiquitous Information Management and Communication, ICUIMC'09

Conference

Conference3rd International Conference on Ubiquitous Information Management and Communication, ICUIMC'09
Country/TerritoryKorea, Republic of
CitySuwon
Period15/01/0916/01/09

Keywords

  • Drawing algorithm
  • Edge crossing
  • Metabolic pathway
  • Parsing
  • Relation degree
  • XML

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