Using formal concept analysis for mining hyomethylated genes among breast cancer tumors subtypes

Author

Amin, Islam Ibrahim ; Kassim, Samar K. ; Hassanien, Aboul Ella ; Hefny, Hesham Ahmed

Author_Institution

Inst. of Stat. Studies & Researches, Cairo Univ., Cairo, Egypt

fYear

2013

Firstpage

521

Lastpage

526

Abstract

Hypomethylation of DNA have been associated with cancer in several investigations. Hypomethylated of CPG islands associated with promoters can affect the expression of genes to be more expressed. The Illumina GoldenGate Methylation Cancer Panel I can measure DNA methylation at 1505 CpG loci of 806 cancer related genes. A powerful tools to analysis the DNA methylation data are needed. In this paper, formal concept analysis (FCA) is used as data mining tool for mining the hypomethylated genes among breast cancer subtypes, by building formal concepts with significant hypomethylated genes for each breast cancer subtypes. The concept lattice is constructed based on a formal context which is composed of formal concepts. This lattice reflects the biological relationships among breast cancer subtypes.

Keywords

DNA; cancer; data mining; formal concept analysis; genetics; lattice theory; medical information systems; 1505 CpG loci; CPG islands; DNA methylation; Illumina GoldenGate Methylation Cancer Panel I; biological relationships; breast cancer tumors subtypes; concept lattice; data mining tool; formal concept analysis; hyomethylated genes; hypomethylation; promoters; Breast cancer; Context; DNA; Formal concept analysis; Gene expression; Lattices; DNA methylation; Formal concept analysis; breast cancer; concept lattice; formal context; hypomethylated genes;

fLanguage

English

Publisher

ieee

Conference_Titel

Advances in Computing, Communications and Informatics (ICACCI), 2013 International Conference on

Conference_Location

Mysore

Print_ISBN

978-1-4799-2432-5

Type

conf

DOI

10.1109/ICACCI.2013.6637226

Filename

6637226