Conference proceeding
XMAS: An experiential approach for visualization, analysis, and exploration of time series microarray data
BIOINFORMATICS RESEARCH AND DEVELOPMENT, PROCEEDINGS, Vol.13, pp.16-31
Communications in Computer and Information Science
01/01/2008
DOI: 10.1007/978-3-540-70600-7_2
Abstract
Time series microarray analysis provides an invaluable insight into the genetic progression of biological processes, such as pregnancy and disease. Many algorithms and systems exist to meet the challenge of extracting knowledge from the resultant data sets, but traditional methods limit user interaction, and depend heavily on statistical, black box techniques. In this paper we present a new design philosophy based on increased human computer synergy to overcome these limitations, and facilitate an improved analysis experience. We present an implementation of this philosophy, XMAS (eXperiential Microarray Analysis System) which supports a new kind of "sit forward" analysis through visual interaction and interoperable operators. Domain knowledge, (such as pathway information) is integrated directly into the system to aid users in their analysis. In contrast to the "sit back", algorithmic approach of traditional systems, XMAS emphasizes interaction and the power, and knowledge transfer potential of facilitating an analysis in which the user directly experiences the data. Evaluation demonstrates the significance and necessity of such a philosophy and approach, proving the efficacy of XMAS not only as tool for validation and sense making, but also as an unparalleled source of serendipitous results. Finally, one can download XMAS at http://cose-stor.sfsu.edu/-huiyang/ xmas-website/xmas.html.
Details
- Title: Subtitle
- XMAS: An experiential approach for visualization, analysis, and exploration of time series microarray data
- Creators
- Ben Dalziel - San Francisco State UniversityHui Yang - San Francisco State UniversityRahul Singh - San Francisco State UniversityMatthew Gormley - Cell and Tissue SystemsSusan Fisher - Cell and Tissue Systems
- Contributors
- M Elloumi (Editor)J Kung (Editor)M Linial (Editor)R F Murphy (Editor)K Schneider (Editor)C Toma (Editor)
- Resource Type
- Conference proceeding
- Publication Details
- BIOINFORMATICS RESEARCH AND DEVELOPMENT, PROCEEDINGS, Vol.13, pp.16-31
- Publisher
- Springer Nature
- Series
- Communications in Computer and Information Science
- DOI
- 10.1007/978-3-540-70600-7_2
- ISSN
- 1865-0929
- eISSN
- 1865-0937
- Number of pages
- 3
- Grant note
- SFSU CCLS Mini IIS-0644418 / National Science Foundation; National Science Foundation (NSF)
- Language
- English
- Date published
- 01/01/2008
- Academic Unit
- Computer Science
- Record Identifier
- 9984446454502771
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