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Visual Stimulus and Neuronal Response

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Neuronal activity was measured in GCaMP6-expressing neurons from selected populations defined by depth and Cre line. For more information on the characteristics of these transgenic lines, see the Transgenic Line Catalog in Documentation.

Video recordings of the visual cortex were gathered during presentation of the various visual stimuli. Activity of the neurons in response to stimuli was detected as transient increases in cellular fluorescence on a millisecond time scale. The data processing of these raw movies involved motion correction and image segmentation to identify the sets of pixels representing distinct cells, and activity of these identified neurons was extracted as traces for quantification. Ultimately, the activity of each responsive cell may be correlated to the visual stimulus that was viewed by the mouse. 

Availability of 2-photon calcium fluorescence movies

Motion-corrected 2-photon calcium fluorescence movies are too large to download conventionally, but are available upon request. Each experiment contains three movie files of approximately 60 GB each. We ask that anyone requesting movies provide one or more hard drives with sufficient capacity to store the files and a shipping number from your organization for return. These will be returned after file transfer is complete. Data is provided under the Allen Institute Terms of Use policy.

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Upon receipt of this message, arrangements will be made with the point of contact and will usually be complete within two weeks of the receipt of a storage drive.

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Exploring the data

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