The use of nucleotide analogues offers numerous benefits, including the ability to trace cell proliferation, understand cellular processes in detail, and develop targeted therapies. However, there are limitations as well. The incorporation of nucleotide analogues can sometimes lead to off-target effects, disrupting normal cellular functions and causing toxicity. Additionally, resistance to these analogues can develop, particularly in the context of cancer treatment, necessitating the ongoing development of new analogues and combination therapies.