Iterative local Gaussian clustering for expressed genes identification linked to malignancy of human colorectal carcinoma.

Ito Wasito,Sri Sukmaningrum,Siti Zaiton M Hashim

doi:10.6026/97320630002175

Abstract

Gene expression profiling plays an important role in the identification of biological and clinical properties of human solid tumors such as colorectal carcinoma. Profiling is required to reveal underlying molecular features for diagnostic and therapeutic purposes. A non-parametric density-estimation-based approach called iterative local Gaussian clustering (ILGC), was used to identify clusters of expressed genes. We used experimental data from a previous study by Muro and others consisting of 1,536 genes in 100 colorectal cancer and 11 normal tissues. In this dataset, the ILGC finds three clusters, two large and one small gene clusters, similar to their results which used Gaussian mixture clustering. The correlation of each cluster of genes and clinical properties of malignancy of human colorectal cancer was analysed for the existence of tumor or normal, the existence of distant metastasis and the existence of lymph node metastasis.

Highlights

Gene expression profiling is an effective approach to extract useful information from a large number of simultaneously expressed genes within specific cell types
Gene expression profiling plays an important role in the identification of biological and clinical properties of human solid tumors such as colorectal carcinoma
The correlation of each cluster of genes and clinical properties of malignancy of human colorectal cancer was analysed for the existence of tumor or normal, the existence of distant metastasis and the existence of lymph node metastasis

Summary

Introduction

Gene expression profiling is an effective approach to extract useful information from a large number of simultaneously expressed genes within specific cell types. One useful application is the identification of genes whose expression levels are associated with human colorectal carcinoma where there is still limited knowledge of the biological and clinical properties of malignancy [4]. This solid tumor is one of the most prevalent and wellcharacterized human cancers, and, in spite of recent advances in diagnosis and therapeutics, is still a leading cause of death [3]

Methods

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Discussion

Conclusion