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If you use specific images or other data downloaded from the Sites, in addition to citing the Specific Atlas or other resource as indicated below, please cite the specific image or data used and the URL that links directly to that information in a manner that would allow a third party to navigate to that image or data on the Site.
In cases where there is a primary publication about the specific resource, cite both the publication and the specific Site. Citation of the primary publication is essential when citing the resource in a scientific publication. In cases where it is not feasible to cite the primary publication, and only in such cases, the Site citation is sufficient on its own.
Anatomic reference atlas content
When citing anatomic reference atlas content, use the citation for the specific resource of which the anatomic reference atlas content is a part. For example, when using the reference atlas content in the Allen Developing Mouse Brain Atlas, cite the Allen Developing Mouse Brain Atlas as the source (not the Allen Developing Mouse Brain Reference Atlas).
Integrating our data into a website
When integrating our data into a website, for example, using our Allen Brain Atlas application programming interface (API), cite the source in a manner that is clear, accurate and easily discoverable and link to the source atlas. Also, be sure that our Content is never displayed in the absence of such citation.
White paper or other document
When citing a white paper or other document associated with a particular resource, cite the specific document by title and date, as well as the Site for that atlas or resource.
Specific Citation Guidance
For images obtained from the Allen Institute website at www.alleninstitute.org, use the following citation:
Image credit: Allen Institute.
Universal Web Citation Format
Use the following general citation format for any Allen Institute resource accessed digitally through the Allen Institute’s website or Allen Institute GitHub.
© [[year of first publication]] Allen Institute for Brain Science. [Name of Allen Institute Resource]. Available from: [Resource URL]
© [[year of first publication]] Allen Institute for Cell Science. [Name of Allen Institute Resource]. Available from: [Resource URL]
© 2010 Allen Institute for Brain Science. Allen Human Brain Atlas. Available from: human.brain-map.org
© 2015 Allen Institute for Brain Science. Ivy Glioblastoma Atlas Project. Available from: glioblastoma.alleninstitute.org
© 2015 Allen Institute for Brain Science. DiPDE Simulator. Available from: github.com/AllenInstitute/dipde
© 2015 Allen Institute for Brain Science. Allen Brain Atlas API. Available from: brain-map.org/api/index.html
© 2016 Allen Institute for Cell Science. Project Overview. Available from: alleninstitute.org/what-we-do/cell-science/our-research/project-overview/
Use the Universal Web Citation Format for reference to Allen Institute website versions of the following resources (year for citation is in parenthesis):
- Aging, Dementia and TBI (2016)
- Allen API (2015)
- Allen Brain Observatory (2016)
- Allen Cell Types Database (2015)
- Allen Developing Mouse Brain Atlas (2008)
- Allen Human Brain Atlas (2010)
- Allen Mouse Brain Atlas (2004)
- Allen Mouse Brain Connectivity Atlas (2011)
- Allen Spinal Cord Atlas (2008)
- Allen SDK (2015)
- BrainSpan Atlas of the Developing Human Brain (2010)
- Ivy Glioblastoma Atlas Project (2015)
- Mouse Diversity Study (2009)
- NIH Blueprint Non-Human Primate (NHP) Atlas (2009)
- Sleep Study (2007)
- Visual Behavior - 2P (2021)
- Allen Institute resources available through GitHub (use year indicated on the resource)
- Any other online Allen Institute resources (use year indicated on the resource)
Primary Publication Citations for Allen Institute resources
Aging, Dementia and TBI Study
Miller J.A. et al. (2017) Neuropathological and transcriptomic characteristics of the aged brain, Elife 6 doi: 10.7554/eLife.31126
Allen Human Brain Atlas
Hawrylycz, M.J. et al. (2012) An anatomically comprehensive atlas of the adult human transcriptome, Nature 489: 391-399. doi:10.1038/nature11405
Allen Mouse Brain Atlas
Lein, E.S. et al. (2007) Genome-wide atlas of gene expression in the adult mouse brain, Nature 445: 168-176. doi:10.1038/nature05453
Allen Mouse Brain Connectivity Atlas
Oh, S.W. et al. (2014) A mesoscale connectome of the mouse brain, Nature 508: 207-214. doi:10.1038/nature13186
Allen Brain Observatory
de Vries, S.E.J., Lecoq, J.A., Buice, M.A. et al. A large-scale standardized physiological survey reveals functional organization of the mouse visual cortex. Nat Neurosci 23, 138–151 (2020). https://doi.org/10.1038/s41593-019-0550-9
BrainSpan Atlas of the Developing Human Brain
Miller, J.A. et al. (2014) Transcriptional landscape of the prenatal human brain, Nature 508: 199-206. doi:10.1038/nature13185
Ivy Glioblastoma Atlas Project
Puchalski R.B. et al. (2018) An anatomic transcriptional atlas of human glioblastoma, Science 360(6389):660-663 doi:10.1126/science.aaf2666
Mouse Diversity Study
Morris, J.A. et al. (2010) Divergent and nonuniform gene expression patterns in mouse brain. Proceedings of the National Academy of Sciences 107(44):1049-19054
Siegle, J.H., Jia, X., Durand, S. et al. Survey of spiking in the mouse visual system reveals functional hierarchy. Nature 592, 86–92 (2021). https://doi.org/10.1038/s41586-020-03171-x
Thompson, C.L. et al. (2010) Molecular and anatomical signatures of sleep deprivation in the mouse brain. Frontiers in Neuroscience Vol. 4, Article 165. doi:10.3389/fnins.2010.00165