Scroll down for project templates associated to these datasets.
International Brain Laboratory¶
The International Brain Laboratory (IBL) brain-wide map dataset (youtube) includes data from 699 Neuropixels probe insertions across 281 brain regions, recorded during a standardized visual decision-making task. To help users get started, a dedicated project and step-by-step tutorial are available. For more advanced users, the IBL ONE tutorial demonstrates how to access the full range of IBL data using the Open Neurophysiology Environment (ONE) API, enabling deeper exploration and custom analyses across the entire dataset.
Credit for data curation: Mayo Faulkner
| Run | View | |
|---|---|---|
| Analyze prepared data | Open in Colab | View in nbviewer |
| IBL ONE tutorial | Open in Colab | View in nbviewer |
References¶
International Brain Laboratory et al. (2023) A Brain-Wide Map of Neural Activity during Complex Behaviour doi: undefined et al. (2023)
Findling et al. (2023) Brain-wide representations of prior information in mouse decision-making doi: Findling et al. (2023)
Supervised and unsupervised learning¶
The Zhong et al, 2025 dataset (youtube) contains simultaneous recordings of up to 80,000 neurons from mouse visual cortex at different stages of visual learning in a virtual reality task with naturalistic images. It also contains recordings made during unsupervised exploration of the same virtual reality environments for comparisons, and recordings made after the introduction of novel stimuli that require behavioral classification.
Credit for data curation: Lin Zhong and Marius Pachitariu
| Run | View | |
|---|---|---|
| Visual learning | Open in Colab | View in nbviewer |
References:¶
Zhong L, Baptista S, Gattoni R, Arnold J, Flickinger D, Stringer C and Pachitariu M. (2025) Unsupervised pretraining in biological neural networks. doi: Zhong et al. (2025)
Zhong L et al (2025). Figshare data repository. doi: Zhong et al. (2025)
Allen Institute¶
The Allen Institute dataset (youtube) is new this year, and it was designed to be very friendly for beginners. The mice do a visual change detection task using either familiar or novel images. The recordings are from specific neuron populations (Excitatory, VIP, and SST) in multiple visual cortical brain areas (V1 and LM). This dataset is well supported with code and a dedicated project template. This would provide a more focused experience for beginner groups than the Steinmetz dataset. For more advanced groups, a separate dataloader is available using the Allen Institute SDK, which gives access to the entire dataset for more exploratory analyses. You can learn more about the dataset and find additional description and helpful tools on Allen Brain Atlas and SWDB databook.
Credit for data curation: Marina Garret, Iryna Yavorska, Doug Ollerenshaw
| Run | View | |
|---|---|---|
| Analyze one dataset | Open the project page | |
| Access to all data | Open in Colab | View in nbviewer |
You can read more about scientific discoveries related to this dataset in our preprint:¶
Garrett, M. et. al. (2023) Stimulus novelty uncovers coding diversity in visual cortical circuits. bioRxiv doi: https://
www .biorxiv .org /content /10 .1101 /2023 .02 .14 .528085v2
Project Templates¶
Click on each image below to see a full browser version!
Brain-wide map of neural activity during behaviour¶
Supervised and unsupervised learning in recordings of 80,000 neurons¶
Effect of stimulus context and behavior state on visual representations¶
- Benson, B., Benson, J., Birman, D., Bonacchi, N., Carandini, M., Catarino, J. A., Chapuis, G. A., Churchland, A. K., Dan, Y., Dayan, P., DeWitt, E. E., Engel, T. A., Fabbri, M., Faulkner, M., Fiete, I. R., Findling, C., Freitas-Silva, L., Gercek, B., Harris, K. D., … Davatolhagh, F. (2023). A Brain-Wide Map of Neural Activity during Complex Behaviour. 10.1101/2023.07.04.547681
- Findling, C., Hubert, F., Acerbi, L., Benson, B., Benson, J., Birman, D., Bonacchi, N., Bruijns, S., Carandini, M., Catarino, J. A., Chapuis, G. A., Churchland, A. K., Dan, Y., Davatolhagh, F., DeWitt, E. E., Engel, T. A., Fabbri, M., Faulkner, M., Fiete, I. R., … Pouget, A. (2023). Brain-wide representations of prior information in mouse decision-making. 10.1101/2023.07.04.547684
- Zhong, L., Baptista, S., Gattoni, R., Arnold, J., Flickinger, D., Stringer, C., & Pachitariu, M. (2025). Unsupervised pretraining in biological neural networks. Nature, 644(8077), 741–748. 10.1038/s41586-025-09180-y
- Zhong, L., Baptista, S., Gattoni, R., Arnold, J., Flickinger, D., Stringer, C., & Pachitariu, M. (2025). Unsupervised pretraining in biological neural network. Janelia Research Campus. 10.25378/JANELIA.28811129.V2