Pathway Analysis Based on Attractor and Cross Talk in Colon Cancer.

Yanxia Liu,Bingping Wang,Lin Wang,Yufeng Cheng,Meng Yue

doi:10.1155/2016/2619828

Yanxia Liu, Bingping Wang + Show 3 more

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https://doi.org/10.1155/2016/2619828

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Abstract

Colon cancer is the third and second most common cancer form in men and women worldwide. It is generally accepted that colon cancer mainly results from diet. The aim of this study was to identify core pathways which elucidated the molecular mechanisms in colon cancer. The microarray data of E-GEOD-44861 was downloaded from ArrayExpress database. All human pathways were obtained from Kyoto Encyclopedia of Genes and Genomes database. In total, 135 differential expressed genes (DEG) were identified using Linear Models for Microarray Data package. Differential pathways were identified with the method of attractor after overlapping with DEG. Pathway cross talk network (PCN) was constructed by combining protein-protein interactions and differential pathways. Cross talks of all pathways were obtained in PCN. There were 65 pathways with RankProd (RP) values < 0.05 and 16 pathways with Impact Factors (IF) values > 100. Five pathways were satisfied with P value < 0.05, RP values < 0.05, and IF values > 100, which were considered to be the most important pathways in colon cancer. In conclusion, the five pathways were identified in the center status of colon cancer, which may contribute to understanding the mechanism and development of colon cancer.

Highlights

Colon and rectal cancer are the third most common forms of cancer in the United States [1]
A SNP, rs5995355, in NCF4 was found significantly associated with risk of colorectal cancer after adjustment for both potential confounders and multiple comparisons, but the change of expression was not found in either tumor or normal tissue [7]
Our purpose of this study is to explore important pathways that reflected mechanism of the occurrence and development of colon cancer by screening differential expressed genes (DEGs) between colon cancer tissues and normal tissues and analyzing the pathways using biological information

Summary

Introduction

Colon and rectal cancer are the third most common forms of cancer in the United States [1]. Colon cancer is the third and second most common cancer form in men and women worldwide [1], causing appropriate 640 thousand deaths each year. It is commonly known as colorectal cancer or large bowel cancer. It is generally accepted that colon cancer mainly resulted from diet in one way or another [2]. It is correlated with genetic factors, such as family history of colorectal cancer, and familial adenomatous polyposis [3]. Elucidating the molecular mechanisms is critical to clinical diagnosis and treatment for colon cancer

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