Simulated and recorded responses of mouse retinal bipolar cells to the chirp stimulus

Larissa Höfling bd16a3d41e Update references		пре 2 година
bio	db2e288ae4 gin commit from DESKTOP-R4TJ65L	пре 2 година
ipl	3d5ed1865e Add IPL info files	пре 2 година
silico	4f17f0ea1f Add simulated dataset	пре 2 година
LICENSE	ddae18601f Initial commit	пре 2 година
README.md	03ff7e1465 Update file descriptions	пре 2 година
datacite.yml	bd16a3d41e Update references	пре 2 година

Data: Removing Inter-Experimental Variability from Functional Data in Systems Neuroscience

This repository hosts the data of https://www.biorxiv.org/content/10.1101/2021.10.29.466492v2 (Gonschorek, Höfling et al. (2021), Removing Inter-Experimental Variability from Functional Data in Systems Neuroscience, NeurIPS 2021). The corresponding code for the implementation can be found on GitHub: https://github.com/eulerlab/rave.

The files contain the following data and information:

bio/bc_dataset_A (pickle):
- This file contains the preprocessed bipolar cell data in response to the local and full-field chirp, their IPL (inner plexiform layer) depths and cell type labels obtained from Franke, Berens et al. (2017), Inhibition decorrelates visual feature representation in the inner retina, Nature.
bio/bc_dataset_B (pickle)
- This file contains the preprocessed bipolar cell data in response to the local and full-field chirp and their IPL depths obtained from Zhao, Klindt et al. (2020), The temporal structure of the inner retina at a single glance, Scientific Reports.
ipl/BC_Profiles_Helmstaedter (txt)
- This file contains electron-microscopy (EM) data of axonal stratification profiles of bipolar cell types.
- array of shape 400x14, array[d, t] = p(IPL depth = d|BC type = t)
ipl/ipl (mat)
- Matlab file containing a dictionary with keys "d" and "prior"; d: 400x1 array, IPL depth samples; prior: 400 x 14 array, with entry [d, t] = p(BC type = t|IPL depth = d).
silico/sim_dataset (pickle)
- This file contains the dataset object of simulated bipolar cell data from Schröder, Klindt et al. (2020), System Identification with Biophysical Constraints: A Circuit Model of the Inner Retina, NeurIPS 2020.

datacite.yml
Title	Simulated and recorded responses of mouse retinal bipolar cells to the chirp stimulus
Authors	Gonschorek,Dominic;University of Tübingen Höfling,Larissa;University of Tübingen Szatko,Klaudia;University of Tübingen Franke,Katrin;University of Tübingen Schubert,Timm;University of Tübingen Dunn,Benjamin;Norwegian University of Science and Technology Berens,Philipp;University of Tübingen Klindt,David;University of Tübingen Euler,Thomas;University of Tübingen
Description	Simulated and recorded responses of mouse retinal bipolar cells to the chirp stimulus
License	Creative Commons CC BY-NC-SA (https://creativecommons.org/licenses/by-nc-sa/4.0/)
References	Removing Inter-Experimental Variability from Functional Data in Systems Neuroscience (2021) Dominic Gonschorek, Larissa Hoefling, Klaudia P Szatko, Katrin Franke, Timm Schubert, Benjamin Dunn, Philipp Berens, David A Klindt, Thomas Euler bioRxiv 2021.10.29.466492; doi: https://doi.org/10.1101/2021.10.29.466492 [doi:10.1101/2021.10.29.466492 ] (IsSupplementTo) Franke, K., Berens, P., Schubert, T., Bethge, M., Euler, T., & Baden, T. (2017). Inhibition decorrelates visual feature representations in the inner retina. Nature, 542(7642), 439–444. https://doi.org/10.1038/nature21394 [10.1038/nature21394] (IsSupplementTo) Zhao, Z., Klindt, D. A., Maia Chagas, A., Szatko, K. P., Rogerson, L., Protti, D. A., … Euler, T. (2020). The temporal structure of the inner retina at a single glance. Scientific Reports, 10(1), 4399. https://doi.org/10.1038/s41598-020-60214-z [10.1038/s41598-020-60214-z] (IsSupplementTo) Helmstaedter, M., Briggman, K. L., Turaga, S. C., Jain, V., Seung, H. S., & Denk, W. (2013). Connectomic reconstruction of the inner plexiform layer in the mouse retina. Nature, 500(7461), 168–174. https://doi.org/10.1038/nature12346 [10.1038/nature12346] (IsDescribedBy) Behrens, C., Schubert, T., Haverkamp, S., Euler, T., & Berens, P. (2016). Connectivity map of bipolar cells and photoreceptors in the mouse retina. ELife, 5(NOVEMBER2016), 1–20. https://doi.org/10.7554/eLife.20041 [10.7554/eLife.20041] (IsDescribedBy)
Funding	DFG, 335549539/GRK2381 DFG, 276693517/CRC1233 DFG, Machine Learning Cluster of Excellence, EXC number 2064/1 - Project #390727645 BMBF, Tübingen AI Center, FKZ: 01IS18039A Research Council of Norway, 90532703/FRIPRO
Keywords	neuroscience retina bipolar cells two-photon microscopy synthetic data inter-experimental variability
Resource Type	Dataset

README.md

Data: Removing Inter-Experimental Variability from Functional Data in Systems Neuroscience