Because brains are extremely small in same species, so normally a small volume of brain may contains many areas, probably the connected ones. When there is no available genetic line, it is usually difficult to get a good solution by inject GFP virus or retrograde dyes because of leakage.
Viktor Kharazia
From what I know, it's a huge a challenge, and I think that transgenic technology has a very good shot on this in the future with creating both cell-specific transgenic lines and viral vectors for promoter-specific expression and, specifically for your question, for trans-neuronal circuit-specific expression, such as cre-wga
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