dandiarchive-dataset/s3://dandiarchive/dandisets/000488/0.230602.2022/dandiset.yaml

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  status: dandi:OpenAccess
assetsSummary:
  approach:
  - name: microscopy approach; cell population imaging
    schemaKey: ApproachType
  - name: behavioral approach
    schemaKey: ApproachType
  dataStandard:
  - identifier: RRID:SCR_015242
    name: Neurodata Without Borders (NWB)
    schemaKey: StandardsType
  measurementTechnique:
  - name: behavioral technique
    schemaKey: MeasurementTechniqueType
  - name: surgical technique
    schemaKey: MeasurementTechniqueType
  - name: analytical technique
    schemaKey: MeasurementTechniqueType
  numberOfBytes: 61460302104
  numberOfFiles: 43
  numberOfSubjects: 14
  schemaKey: AssetsSummary
  species:
  - identifier: http://purl.obolibrary.org/obo/NCBITaxon_10090
    name: Mus musculus - House mouse
    schemaKey: SpeciesType
  variableMeasured:
  - PlaneSegmentation
  - ImagingPlane
  - BehavioralTimeSeries
  - ProcessingModule
  - OpticalChannel
citation: Lecoq, Jerome A.; Garrett, Marina; Choi, Hannah; Mazzucato, Luca; Wyrick,
  David (2023) Allen Institute Openscope - Differential encoding of temporal context
  and expectation (Version 0.230602.2022) [Data set]. DANDI archive. https://dandiarchive.org/dandiset/000488/0.230602.2022
contributor:
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  identifier: https://ror.org/03cpe7c52
  includeInCitation: false
  name: Allen Institute
  roleName:
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  url: https://alleninstitute.org/
- affiliation: []
  email: jeromel@alleninstitute.org
  identifier: 0000-0002-0131-0938
  includeInCitation: true
  name: Lecoq, Jerome A.
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  - dcite:Methodology
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  - dcite:Supervision
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  schemaKey: Person
- affiliation: []
  email: marinag@alleninstitute.org
  identifier: 0000-0002-5271-2291
  includeInCitation: true
  name: Garrett, Marina
  roleName:
  - dcite:Conceptualization
  - dcite:FormalAnalysis
  - dcite:Methodology
  - dcite:ProjectLeader
  - dcite:Software
  - dcite:Supervision
  - dcite:Author
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  email: hannahch@gatech.edu
  identifier: 0000-0002-8192-1121
  includeInCitation: true
  name: Choi, Hannah
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  schemaKey: Person
- affiliation: []
  email: lmazzuca@uoregon.edu
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  name: Mazzucato, Luca
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- affiliation: []
  email: davidgwyrick@gmail.com
  includeInCitation: true
  name: Wyrick, David
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dateCreated: '2023-04-21T17:07:16.030644+00:00'
datePublished: '2023-06-02T20:22:54.169162+00:00'
description: "This dataset was collected for the Predictive Coding project, as part
  of the Allen Institute for Brain Science's OpenScope project. \n\nThe experimental
  design involved visual stimulation with sequences of 4 natural scene images (ABCD)
  that are repeated many times, with an occasional rare oddball image in the 4th place
  in the sequence (ABCX). There are 10 unique oddball images which are each shown
  10 times during the recording session. The main sequence (ABCD) is shown thousands
  of times. In addition to the oddball blocks there are control conditions where the
  4 main sequence images and 10 oddball images are shown either entirely randomly,
  or where pairwise image transitions are maintained, but the overall sequence is
  shuffled (example pairs: AB, BC, CD, CX, XA, etc). \n\nDuring this stimulus paradigm,
  2-photon calcium imaging was used to record neural activity in three cortical areas
  (one area per recording session): the primary visual cortex, higher order visual
  area PM, and the retrosplenial cortex, across multiple cortical depths. During the
  recordings, mice were free to run on a circular disk and running speed was measured,
  along with pupil diameter and eye position. In each mouse, two of the three areas
  were imaged, and the third had a retrograde tracer (rAAV-mRuby2) injected to label
  inputs to that region. No differences in physiology were identified between retrogradely
  labeled and non-labeled neurons, thus this information was not included in the primary
  study of this dataset. \n\nResults are provided in the form of normalized calcium
  traces (dF/F) for all recorded neurons, along with running speed, pupil measurements,
  and the timing of all stimulus events. "
ethicsApproval:
- contactPoint:
    schemaKey: ContactPoint
  identifier: Allen Institute institutional Animal Care and Use Committee
  schemaKey: EthicsApproval
id: DANDI:000488/0.230602.2022
identifier: DANDI:000488
keywords:
- neocortex
- pyramidal neurons
- two-photon calcium imaging
- mouse VisP
- prediction
- predictive coding
license:
- spdx:CC-BY-4.0
manifestLocation:
- https://dandiarchive.s3.amazonaws.com/dandisets/000488/0.230602.2022/assets.yaml
name: Allen Institute Openscope - Differential encoding of temporal context and expectation
protocol:
- https://doi.org/10.1038/s41593-019-0550-9
publishedBy:
  endDate: '2023-06-02T20:22:54.169162+00:00'
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  name: DANDI publish
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  startDate: '2023-06-02T20:22:54.169162+00:00'
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    identifier: RRID:SCR_017571
    name: DANDI API
    schemaKey: Software
    version: 0.1.0
relatedResource: []
repository: https://dandiarchive.org
schemaKey: Dandiset
schemaVersion: 0.6.4
studyTarget:
- 'The objective of this study was to ask whether prediction (expected sequence information)
  and prediction error (unexpected oddball) signals are present at different stages
  of the visual hierarchy. Retrosplenial cortex is an associational area involved
  in scene processing and spatial navigation that provides feedback to the primary
  visual cortex (VISp), and to higher visual area PM (VISpm). The predictive coding
  framework posits that prediction error signals are produced in lower regions and
  propagated up to higher areas in the higherarchy to update internal predictions
  about the environment, while predictions based on learned expectations are feed
  back to lower areas to minimize activity associated with expected stimuli. This
  dataset allows testing of these predictions in 3 hierarchically connected areas
  using naturalistic stimuli in behaving mice.  . '
url: https://dandiarchive.org/dandiset/000488/0.230602.2022
version: 0.230602.2022
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