Identification of different sets of biomarkers for diagnostic classification of cancers

Yu Shuen Tsai*, I. Fang Chung, Chin Teng Lin, Nikhil Ranjan Pal

*Corresponding author for this work

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

Abstract

Accurate diagnosis of neuroblastoma, non-Hodgkin lymphoma, rhabdomyosarcoma, and Ewing sarcoma, is often difficult because these cancers appear similar in routine histology. Finding a few useful biomarkers (not all related genes) that can discriminate between the subgroups will help designing better diagnostic systems. In an earlier study we reported a set of seven genes having excellent discrimination power. In this investigation we extend that study and find other distinct sets of genes with strong class specific signatures. This is achieved analyzing the correlation between genes. This led us to find another set of seven genes with better discriminating power. Our original gene selection method used a neural network whose output may significantly depend on initialization of the network, network size as well as the training data set. To address these issues we propose a scheme based on re-sampling. This method can also reduce the effect wide variation in number of data points in the training set from different classes. This method led us to find a set of five genes with good discriminating power. The genes identified by the proposed methods have roles in cancer biology.

Original languageEnglish
Title of host publicationNeural Information Processing - 14th International Conference, ICONIP 2007, Revised Selected Papers
Pages866-875
Number of pages10
EditionPART 2
DOIs
StatePublished - 2008
Event14th International Conference on Neural Information Processing, ICONIP 2007 - Kitakyushu, Japan
Duration: 13 Nov 200716 Nov 2007

Publication series

NameLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
NumberPART 2
Volume4985 LNCS
ISSN (Print)0302-9743
ISSN (Electronic)1611-3349

Conference

Conference14th International Conference on Neural Information Processing, ICONIP 2007
Country/TerritoryJapan
CityKitakyushu
Period13/11/0716/11/07

Keywords

  • Biomarker
  • Gene expression
  • Neural networks

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