Dataset of "History-dependent variability in population dynamics during evidence accumulation in cortex"

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README.md

PPC_2p_evidence_accumulation

Dataset of "History-dependent variability in population dynamics during evidence accumulation in cortex"

This repository contains pre-processed behavioral data and neural data collected from mice performing an evidence accumulation task in a virtual reality (VR) environment. Neural data are recorded from PPC using two-photon calcium imaging. Detailed information about data collection can be found in:

Morcos A. S., Harvey C. D. 2016. History-dependent variability in population dynamics during evidence accumulation in cortex, Nature Neuroscience. doi: https://doi.org/10.1038/nn.4403

Data contained in this repository were used in:

Valente M., Pica G., Runyan C. A., Morcos A. S., Harvey C. D., Panzeri S. 2020. Correlations enhance the behavioral readout of neural population activity in association cortex. BioRxiv. doi: https://doi.org/10.1101/2020.04.03.024133

Data are available in three different versions, that differ in how data is selected, organized and processed. In decreasing order of completeness:

Version 1 (AM*_yymmdd_processed.mat)

This data version contains one .mat file for each session (PPC) for a total of 11 sessions. Each .mat file contains a cell array called imTrials, with dimensionality equal to the number of trials. Each element of the cell array contains:

  • The field imaging with the following imaging data: o dF/F traces; o deconvolved traces; o spatial-binned deconvolved traces, averaged over 10 trial epochs described in Morcos et Harvey, Nat. Neurosci., 2016. o Neural variables consist of the deconvolved dF/F traces at the two-photon microscope sampling rate;
  • The field dat with other measured variables;
  • The field result with additional trial info (leftTurn, correct).

Version 2 (data_simple_morcos_per_Epoch.mat)

This data version consists of a single .mat file that contains a matlab struct with dimension equal to the number of sessions. Each row of the structure refers to a single session and contains the following fields:

  • Neural_data: spatial-binned deconvolved traces, averaged over 10 trial epochs described in Morcos et Harvey, Nat. Neurosci., 2016;
  • Stimuli: binary array with 1 for stimuli with net evidence on the left, 0 for stimuli with net evidence on the right;
  • Fine_evidence_last_cue: final net evidence (difference between left and right total evidence);
  • Choices: binary array with 1 for trials with left turn, 0 for for trial with right turn;
  • Lateral_speed: spatial-binned behavioral data, averaged over the same 10 trial epochs as imaging data (described in Morcos et Harvey, Nat. Neurosci., 2016).

Version 3 (data_simple_morcos_per_Window.mat)

This data version consists of a single .mat file that contains a matlab struct with dimension equal to the number of sessions. Each row of the structure refers to a single session and contains the following fields:

  • Neural_data: spatial-binned deconvolved traces, averaged over 7 turn-aligned windows of different length;
  • Stimuli: binary array with 1 for stimuli with net evidence on the left, 0 for stimuli with net evidence on the right;
  • Stimuli_fine: final net evidence (difference between left and right total evidence);
  • Choices: binary array with 1 for trials with left turn, 0 for for trial with right turn.
datacite.yml
Title Dataset of 'History-dependent variability in population dynamics during evidence accumulation in cortex'
Authors Morcos,Ari;Harvard Medical School, Boston, MA, USA;ORCID:0000-0001-5370-6515
Valente,Martina;Neural Computation Laboratory, Istituto Italiano di Tecnologia, Rovereto, Italy; Center for Mind and Brain Sciences (CIMeC), University of Trento, Rovereto, Italy
Pica,Giuseppe;Neural Computation Laboratory, Istituto Italiano di Tecnologia, Rovereto, Italy;ORCID:0000-0002-4506-0600
Bondanelli,Giulio;Neural Computation Laboratory, Istituto Italiano di Tecnologia, Rovereto, Italy;ORCID:0000-0001-6781-4939
Moroni,Monica;Neural Computation Laboratory, Istituto Italiano di Tecnologia, Rovereto, Italy;ORCID:0000-0003-1852-7217
Harvey,Christopher D.;Harvard Medical School, Boston, MA, USA;ORCID:0000-0002-0520-7882
Panzeri,Stefano;Neural Computation Laboratory, Istituto Italiano di Tecnologia, Rovereto, Italy;ORCID:0000-0003-1700-8909
Description Preprocessed behavioral data and two-photon calcium imaging neural data recorded from PPC of awake mice performing an evidence accumulation task in a virtual reality environment.
License Creative Commons Attribution-NonCommercial-ShareAlike 4.0 (https://creativecommons.org/licenses/by-nc-sa/4.0/)
References Morcos, A., Harvey, C. History-dependent variability in population dynamics during evidence accumulation in cortex. Nat Neurosci 19, 1672–1681 (2016). [doi:10.1038/nn.4403] (IsDescribedBy)
Valente, M., Pica, G., Runyan, C. A., Morcos, A. S., Harvey, C. D., Panzeri, S. (2020). Correlations enhance the behavioral readout of neural population activity in association cortex. bioRxiv: 2020.2004.2003.024133 [doi:10.1101/2020.04.03.024133] (IsReferencedBy)
Funding This work was supported by a Burroughs-Wellcome Fund Career Award at the Scientific Interface, the Searle Scholars Program, the New York Stem Cell Foundation, the Alfred P. Sloan Research Foundation, a NARSAD Brain and Behavior Research Young Investigator Award, NIH grants from the NIMH BRAINS program (R01-MH107620), NINDS (R01-NS089521) and the BRAIN Initiative (R01-NS108410 and U19-NS107464), a Stuart H.Q. & Victoria Quan Fellowship (A.S.M.) and the Fondation Bertarelli.
Keywords Neuroscience
Sound localization
Two-photon calcium imaging
Behavior
Posterior Parietal Cortex
Resource Type Dataset