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Simultaneously recorded physiology and imaging data from single cells in slice

Key Investigators

Andrew Landau (Harvard Medical School) Bernardo Sabatini (Harvard Medical School)

Project Description

Goals:

1. Integrate single-cell physiology and imaging data in NWB:N.
2. File extension for kymograph data - probably an extension of time series linked to an image.

General Challenges:

1. Physiology and imaging data recorded at different sampling rates
2. Acquisitions for each ROI are hierarchically labeled, Cell-Dendrite-Spine

Objectives

Objective A: Develop a NWB:N organization method for saving discrete acquisitions of single cell physiology and imaging data. The key is that a recording from each cell has many time series associated with it grouped into separate discrete epochs.

Objective B: Develop an extension for kymographs - useful for single cell imaging and lots of cell biology. These are a data format organized as a matrix with time on one axis and space on another axis.

Approach and Plan

For Objective B:

• create a “kymograph” extension for time series data.
  • it will be a linear vector (time series) where each line scan is concatenated consecutively
  • meta data:
    • number of pixels per line
    • spatial position of each pixel
    • sampling rate
    • flag for whether each line was recording in the same direction (to accomodate bidirectional scans)

Progress and Next Steps

Materials

Background and References