Data Center: Cancer

Transcriptome analysis of colon cancer progression

Microarray Platform:
Affymetrix GeneChip Human Genome U133A Array

Reference:
Data available from Gene Expression Omnibus (GEO), GDS756 dataset.
GEO summary: Comparison of gene expression in SW480, a primary tumor colon cancer cell line, to that in SW620, an isogenic metastatic colon cancer cell line.

Abstract:
Gene expression in the SW480 primary tumor colon cancer cell line was compared to that in the SW620 metastatic colon cancer cell line using the Affymetrix® GeneChip® Human Genome U133A array. Using filtering criteria of a 1.5 or greater fold-change in expression, all "present calls" in at least one group and a false discovery rate of less than 5%, 1534 out of approximately 22,000 genes were differentially expressed. The expression of 1034 genes was increased in the metastatic cell line, while 520 showed decreased expression in the metastatic cells. Analysis of the Gene Ontology™ and KEGG pathway terms associated with these genes identified distinct biological themes associated with each group of genes. The ontology term analysis identified an over-representation of genes involved in telomerase dependent telomere maintenance among the up-regulated genes and an over-representation of genes involved in cell matrix adhesion among the down-regulated genes. Analysis of KEGG pathway terms identified a significant over-representation of cell cycle genes among the up-regulated genes. The increased expression of genes involved in the cell cycle and telomere maintenance, as well as the decreased expression of genes involved in cell matrix adhesion, may contribute to the progression to metastasis in colon cancer cells.

Download Analysis Summary
Download Step by Step tutorial