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论文题目: Classification of cancers based on copy number variation landscapes
英文论文题目: Classification of cancers based on copy number variation landscapes
第一作者: Zhang, N; Wang, M; Zhang, PW; Huang, T
英文第一作者: Zhang, N; Wang, M; Zhang, PW; Huang, T
联系作者: Huang, T (reprint author), Chinese Acad Sci, Shanghai Inst Biol Sci, Inst Hlth Sci, Shanghai 200031, Peoples R China.
英文联系作者: Huang, T (reprint author), Chinese Acad Sci, Shanghai Inst Biol Sci, Inst Hlth Sci, Shanghai 200031, Peoples R China.
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发表年度: 2016
卷: 1860
期: 11
页码: 2750-2755
摘要: Genomic alterations in DNA can cause human cancer. DNA copy number variants (CNV), as one of the types of DNA mutations, have been considered to be associated with various human cancers. CNVs vary in size from 1 bp up to one complete chromosome arm. In order to understand the difference between different human cancers on CNVs, in this study, we developed a method to computationally classify six human cancer types by using only CNV level values. The CNVs of 23,082 genes were used as features to construct the classifier. Then the features are carefully selected by mRMR (minimum Redundancy Maximum Relevance Feature Selection) and IFS (Incremental Feature Selection) methods. An accuracy of over 0.75 was reached by using only the CNVs of 19 genes based on Dagging method in 10-fold cross validation. It was indicated that these 19 genes may play important roles in differentiating cancer types. We also analyzed the biological functions of several top genes within the 19 gene list. The statistical results and biological analysis of these genes from this work might further help understand different human cancer types and provide guidance for related validation experiments.
英文摘要: Genomic alterations in DNA can cause human cancer. DNA copy number variants (CNV), as one of the types of DNA mutations, have been considered to be associated with various human cancers. CNVs vary in size from 1 bp up to one complete chromosome arm. In order to understand the difference between different human cancers on CNVs, in this study, we developed a method to computationally classify six human cancer types by using only CNV level values. The CNVs of 23,082 genes were used as features to construct the classifier. Then the features are carefully selected by mRMR (minimum Redundancy Maximum Relevance Feature Selection) and IFS (Incremental Feature Selection) methods. An accuracy of over 0.75 was reached by using only the CNVs of 19 genes based on Dagging method in 10-fold cross validation. It was indicated that these 19 genes may play important roles in differentiating cancer types. We also analyzed the biological functions of several top genes within the 19 gene list. The statistical results and biological analysis of these genes from this work might further help understand different human cancer types and provide guidance for related validation experiments.
刊物名称: BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
英文刊物名称: BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
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学科: Biochemistry & Molecular Biology; Biophysics
英文学科: Biochemistry & Molecular Biology; Biophysics
影响因子: 4.702
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论文类别: Article
英文论文类别: Article
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