This study assessed the toxicity and clearance of CdTe and CdHgTe quantum dots (QDs) in vitro and in vivo. Both CdTe and CdHgTe QDs showed concentration-dependent cytotoxicity to human breast and prostate cancer cells in vitro. CdTe QD toxicity increased over time, while CdHgTe toxicity did not. In vivo, CdTe QDs could be detected by fluorescence imaging in mice up to 18 days after subcutaneous injection, while CdHgTe fluorescence disappeared within 6 days, likely due to instability. This study provides insights into the toxicity and clearance of two types of QDs.