TY  - JOUR
TI  - Princeton RAtlas: A Common Coordinate Framework for Fully cleared, Whole Rattus norvegicus Brains
AU  - Dennis, Emily Jane
AU  - Bibawi, Peter 
AU  - Dhanerawala, Zahra M.
AU  - Lynch, Laura A.
AU  - Wang, Samuel S. H.
AU  - Brody, Carlos D.
VL  - 13
IS  - 20
PY  - 2023
DA  - 2023/10/20
SP  - e4854
C1  - Bio-protocol 2023;13:e4854
DO  - 10.21769/BioProtoc.4854
UR  - https://doi.org/10.21769/BioProtoc.4854
AB  - Whole-brain clearing and imaging methods are becoming more common in mice but have yet to become standard in rats, at least partially due to inadequate clearing from most available protocols. Here, we build on recent mouse-tissue clearing and light-sheet imaging methods and develop and adapt them to rats. We first used cleared rat brains to create an open-source, 3D rat atlas at 25 μ resolution. We then registered and imported other existing labeled volumes and made all of the code and data available for the community (https://github.com/emilyjanedennis/PRA) to further enable modern, whole-brain neuroscience in the rat.Key features•  This protocol adapts iDISCO (Renier et al., 2014) and uDISCO (Pan et al., 2016) tissue-clearing techniques to consistently clear rat brains.•  This protocol also decreases the number of working hours per day to fit in an 8 workday.Graphical overview
KW  - Tissue clearing
KW  - Light-sheet imaging
KW  - Rattus norvegicus
KW  - Image registration
KW  - iDISCO
KW  - uDISCO
KW  - Rat
KW  - Neuroscience
JF  - Bio-protocol
SN  - 2331-8325
PB  - Bio-protocol LLC.
BIO101  - False