| Overview | Technical whitepaper describing the Projection Mapping studies | 
| Retinal Projectome | Technical whitepaper describing the Retinal Projectome Mapping studies | 
| Informatics Data Processing | Design and implementation of the Connectivity Informatics Data Pipeline (IDP) | 
| BDA vs. rAAV | Technical whitepaper describing the comparative studies between BDA and rAAV tracing methods | 
| Reference Dataset | Technical whitepaper describing the generation of the reference datasets | 
| Mouse CCF, Reference Atlas, Version 3 (2017) | Overview of the design and implementation of the Allen Mouse Common Coordinate Framework | 
| Transgenic Characterization | Technical whitepaper describing the various characterization studies | 
| Resources | A complete list of driver and reporter mice and viruses used in the Allen Mouse Brain Connectivity Atlas projectome data, Transgenic Characterization, and Allen Cell Types Database | 
| Acknowledgements | Recognition of collaborators and others who provided assistance |