Neuroinflammation plays a critical role in the pathogenesis of neurodegenerative diseases, particularly in Huntington's disease (HD) and Alzheimer's disease (AD). In HD, studies have shown that microglial activation and the localization of complement proteins are associated with the early loss of corticostriatal synapses, which correlates with cognitive dysfunction in patients. Specifically, postmortem analyses revealed that elevated levels of complement proteins in cerebrospinal fluid correspond with disease burden in premanifest HD patients, suggesting that innate immune mechanisms are pivotal in synaptic elimination during the early stages of the disease (ref: Wilton doi.org/10.1038/s41591-023-02566-3/). Furthermore, the review of innate immune mechanisms in HD highlights the complexity of neuroinflammation, indicating that it may arise from both neuronal dysfunction and cell-autonomous immune cell phenotypes (ref: Unknown doi.org/10.1038/s41591-023-02616-w/). In the context of AD, the role of apolipoprotein E (APOE) is emphasized, where the APOE4 isoform restricts microglial activation, thereby impacting brain homeostasis and exacerbating AD pathology (ref: Liu doi.org/10.1038/s41590-023-01640-9/). These findings collectively underscore the intricate interplay between neuroinflammation and synaptic integrity in neurodegenerative diseases, suggesting potential therapeutic targets within the immune response pathways.