Identification of Robust Pathway Markers for Cancer through Rank-Based Pathway Activity Inference
Joint Authors
Khunlertgit, Navadon
Yoon, Byung-Jun
Source
Issue
Vol. 2013, Issue 2013 (31 Dec. 2013), pp.1-8, 8 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2013-02-27
Country of Publication
Egypt
No. of Pages
8
Main Subjects
Natural & Life Sciences (Multidisciplinary)
Biology
Abstract EN
One important problem in translational genomics is the identification of reliable and reproducible markers that can be used to discriminate between different classes of a complex disease, such as cancer.
The typical small sample setting makes the prediction of such markers very challenging, and various approaches have been proposed to address this problem.
For example, it has been shown that pathway markers, which aggregate the gene activities in the same pathway, tend to be more robust than gene markers.
Furthermore, the use of gene expression ranking has been demonstrated to be robust to batch effects and that it can lead to more interpretable results.
In this paper, we propose an enhanced pathway activity inference method that uses gene ranking to predict the pathway activity in a probabilistic manner.
The main focus of this work is on identifying robust pathway markers that can ultimately lead to robust classifiers with reproducible performance across datasets.
Simulation results based on multiple breast cancer datasets show that the proposed inference method identifies better pathway markers that can predict breast cancer metastasis with higher accuracy.
Moreover, the identified pathway markers can lead to better classifiers with more consistent classification performance across independent datasets.
American Psychological Association (APA)
Khunlertgit, Navadon& Yoon, Byung-Jun. 2013. Identification of Robust Pathway Markers for Cancer through Rank-Based Pathway Activity Inference. Advances in Bioinformatics،Vol. 2013, no. 2013, pp.1-8.
https://search.emarefa.net/detail/BIM-485586
Modern Language Association (MLA)
Khunlertgit, Navadon& Yoon, Byung-Jun. Identification of Robust Pathway Markers for Cancer through Rank-Based Pathway Activity Inference. Advances in Bioinformatics No. 2013 (2013), pp.1-8.
https://search.emarefa.net/detail/BIM-485586
American Medical Association (AMA)
Khunlertgit, Navadon& Yoon, Byung-Jun. Identification of Robust Pathway Markers for Cancer through Rank-Based Pathway Activity Inference. Advances in Bioinformatics. 2013. Vol. 2013, no. 2013, pp.1-8.
https://search.emarefa.net/detail/BIM-485586
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-485586