Construction of co-expression and co-regulation network with differentially expressed genes in bone marrow stem cell microarray data

Abstract

It is important to understand the interaction mechanism among co-expressed and co-regulated genes in stem cell to restrict the abnormal growth of cell tissues (tumor) which may lead to cancer. In this article, differentially coexpressed and co-regulated genes exist in normal stem cells and stem cell derived tumors are identified from sample Bone Marrow microarray data. By performing statistical t-test between sample groups, first we have identified differentially expressed genes (DEG). Then up-regulated (UR) and down-regulated (DR) genes are separated by setting a p-value cutoff at 0.001. After identifying the differentially expressed genes, distinguished co-expressed up-regulated and down-regulated genes are found. Subsequently, we have constructed pair-wise co-expression networks with the co-expressed genes. Finally, we have studied the significance of coexpressed genes with gene ontology (GO) and we have found significant GO-ids. This study is expected to lead to finding of pathways for diseases.