Quiescent HSCs were isolated from normal liver tissues from hepatic hemangiomas and prolong culture cells were used as in vitro activated S63845 research buy HSCs. HSCs/myofibroblasts were isolated by collagenase-pronase perfusion and subsequent density centrifugation on Nycodenz gradients. After collagenase-pronase digestion, the resulting cell pellets were centrifuged at 50 g for 2 minutes to remove hepatocytes. Before collecting HSCs/CAMFs, obtained cells were seeded for 15 min in serum free medium to allow Kupffer cells attachment. To further purify non-attached cells, magnetic anti-CD45 beads (MACS, Miltenyi Biotec, Germany) were used to deplete contaminating leucocytes. Peritumoral HSCs and intratumoral CAMFs were

studied at 24 hours after isolation. HSCs from normal livers were studied at 24 hours after isolation (quiescent HSCs) or after 10 days culture (in vitro activated HSCs) without passage, respectively. CD45 and CD31 positive cells were not found in isolated cells by immunocytochemistry staining, demonstrating no contaminating pan-leucocytes and endothelial cells. HSCs purity was assessed by the autofluorescence buy AMN-107 property and morphology, the populations were more than 95% pure. Primary cells,

HSC cell lines LX-2 (as gifts by professor Jin-sheng Guo in Zhongshan hospital) and three HCC cell lines (MHCC97L, HCCLM3, and HCCLM6) initially Emricasan established and preserved by our institute [24] were cultured in DMEM supplemented with 10% fetal calf serum (FCS) and 1% penicillin-streptomycin in 95% air and 5% CO2 at 37°C. Gene expression analysis Total RNA was extracted from HSCs/CAMFs for microarray analysis. Microarray hybridization was performed using whole human genome oligo array (4 × 44K, Agilent Technologies) based on the manufacturer’s standard protocol. Differentially expressed genes with statistical significance FER between two groups were identified through volcano plot filtering. The threshold is fold change ≥2.0, p-value <0.05. Pathway analysis and gene ontology (GO) analysis were applied. Finally, hierarchical clustering was performed to show the distinguishable

gene expression pattern among samples. Quantitative polymerase chain (qPCR) reaction validation of microarray data A total of 49 genes were confirmed by qPCR as previous protocol [16] using commercially available primer-probe sets (Applied Biosystems, Foster City, CA) and SYBR Green PCR Master Mix (SABiosciences). Primers for these genes are listed in Additional file 1. Expression of GAPDH was used as an internal control. The gene expression was quantified by the 2-△△CT method. Statistic analysis Statistical analysis was performed by Student t test, Fisher’s exact tests, χ 2 tests, Spearman ρ coefficients tests. The “minimum p value” approach [11, 12] was used to get an optimal cut-off (high α-SMA expression >72) by X-tile 3.6.1 software (Yale University, New Haven, CT, USA). P < 0.