According to the type of neurodegenerative disease.
1-For neuronal degeneration
presynaptic growth-associated protein B-50 (also known as GAP-43, neuromodulin, F1).It's a marker for mossy fiber sprouting associated with neuronal damage as in hippocampal sclerosis.
2-Multiple sclerosis: myelin stain, luxol fast blue.
3-Axonal injury: ß-amyloid precursor protein.
4-Gliosis: as in multi infarct dementia, GFAP
5-Neuropil and axons are well delineated by silver stains.
6-Microglia by CD68
7-Apoptosis by caspase 3.
The pruchures of these products are available online with the detailed techniques for each.