Through-silicon-via (TSV) with polymer liner has attracted considerable attention because a polymer liner has low dielectric constant and good step coverage along the TSV surface, and it can suppress the TSV-induced stress. A polyimide (PI) is used as the polymer liner of TSV. However, there is a modulation of the parasitic capacitance present between TSV metal and Si substrate due to its high polar character. Therefore, in this paper, we propose the deployment of benzocyclobutene (BCB) and polybenzoxazole (PBO) which consists of no-polar groups as the polymer-liner material of TSV for minimizing the capacitance modulation. In this study, a metal-insulator-semiconductor capacitor with blind TSV structures with PI, BCB or PBO liners were fabricated and evaluated. In the case of BCB and PBO liners, remarkable hysteresis suppressions of the C-V curves was observed as compared to that of the PI liner. These results indicate that polar character is one of the most important characters for suppression of the capacitance modulation around TSVs and the detrapped-charge-induced signal noise. Then, BCB and PBO is a promising liner material of TSV for realizing highperformance and high-reliability three-dimensional stacked ICs.