A common method of three-dimensional (3D) cell cultures is embedding single cells in
Matrigel. Separated cells in
Matrigel migrate or grow to form spheroids but lack cell-to-cell interaction, which causes difficulty or delay in forming mature spheroids. To address this issue, we proposed a 3D aggregated spheroid model (ASM) to create large single spheroids by aggregating cells in
Matrigel attached to the surface of 96-pillar plates. Before gelling the
Matrigel, we placed the pillar inserts into blank wells where gravity allowed the cells to gather at the curved end. In a drug screening assay, the ASM with
Hepatocellular carcinoma (HCC) cell lines showed higher drug resistance compared to both a conventional spheroid model (CSM) and a two-dimensional (2D) cell culture model. With
protein expression,
cytokine activation, and penetration analysis, the ASM showed higher expression of
cancer markers associated with proliferation (p-AKT, p-Erk), tight junction formation (
Fibronectin, ZO-1,
Occludin), and epithelial cell identity (
E-cadherin) in HCC cells. Furthermore,
cytokine factors were increased, which were associated with immune cell recruitment/activation (MIF-3α), extracellular matrix regulation (TIMP-2),
cancer interaction (IL-8, TGF-β2), and angiogenesis regulation (
VEGF-A). Compared to CSM, the ASM also showed limited drug penetration in
doxorubicin, which appears in tissues in vivo. Thus, the proposed ASM better recapitulated the tumor microenvironment and can provide for more instructive data during in vitro drug screening assays of
tumor cells and improved prediction of efficacious drugs in HCC patients.