Gene expression profile of cholangiocarcinoma-associated fibroblast (CBX134). unidentified

Cholangiocarcinoma-associated fibroblast (Cf) and non-tumorigenic liver fibroblast (Lf) were established in our lab. The matched Cf and Lf were named Cf1 and Lf1, respectively. Cf1, Lf1 and another one Lf from different patient named Lf2 were used to compare the gene expression profile. The genes which up-regulated in Cf compared to Lf1 and Lf2 were defined as common up-regulated genes whereas, the genes which down-regulated in Cf compared to Lf1 and Lf2 were defined as common down-regulated genes. Total RNA was extracted using RNeasy Micro Kit (Qiagen, Valencia, CA) using the manufacturer's instructions. The quality of the RNA was assessed by an Agilent RNA 6000 Nano Kit (Agilent Technologies, Waldbronn, Germany). Affymetrix GeneChip Human Genome U133 plus 2.0 Array containing 38,500 human genes (Affymetrix, Santa Clara, CA) was used following Affymetrix's instruction. The array data were scanned by a GeneChip Scanner 3000 (Affymetrix) and analysed by Affymetrix microarray suite, version 5.0. Raw data from the GeneChips were used to analyze expression levels and expressed as fold changes and gene ontology was categorized by Gene Spring G.X.7.3 software (Agilent Technologies). Average fold change of gene expression was determined by intensity comparison between Cf and Lf1 and Lf2.