Mining of Network Markers for Brain Tumor from Transcriptome and Interactome Data

作者：Kim Jongkwang^*

来源：Current Bioinformatics, 2013, 8(3): 299-304.

DOI：10.2174/1574893611308030005

• Brain
• cancer
• GBM
• gene
• integration
• pathway
• PPI
• protein
• sub-network

Glioblastoma multiforme (GBM: grade IV astrocytoma) is the most common but lethal form of brain cancer. The median survival time of GBM patients is only 15 months. Only a few predictive markers have been reported for prognosis and treatment. %26lt;br%26gt;This study integrates gene expression and protein-protein interaction data to search for pathways that are differentially regulated between long-term and short-term survivors of GBM patients. A novel objective function for greedy search was introduced in search for 47 significantly and differentially expressed sub-networks (SDES) or pathways in a greedy fashion. The resultant putative pathways (involving 156 genes) were tested for enrichment of known GBM cancer genes as well as GO terms related to %26quot;biological process.%26quot; Integration of gene expression profiles of GBM patients with a PPI network improves the recall rate of known GBM driver genes and shows the better GO enrichment in comparison to the conventional gene-set approach that is based solely on the expression data.

• 出版日期2013-7