Juo Lab Line Scanner

06/15/2022 - 08/15/2022

A Python-based pipeline for performing punctate quantitative analysis on C. elegans ventral cord fluorescence scans.

The first ionotropic glutamate receptor subunit to be characterized was found to play a key role in facilitating the worm’s nose-touch response. Mutations in this glr-1 interfere with the glutamatergic activity between sensory and command interneurons.

In order to localize these iGluRs, a functional fusion chimera between iGluRs and GFP was generated. In these transgenic worms, fluorescence can be observed in a punctate pattern along the ventral nerve cord. Functional glr-1::GFP proteins have proven to be invaluable in ascertaining the trafficking and recruitment of glr-1 containing receptors.

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This program takes these fluorescence scans and translates user-provided tracings into punctate traces for analysis. It includes a built-in graphical user interface for ease of use and optimizes of previous draw scanners by implementing the Billauer algorithm for peak detection.

Current version dependencies include:

  • PySimpleGUI

  • OpenCV

  • SciPy

  • Analyze Single Fluorescence Scans

  • Setup Experiments

  • Perform Batch Analyses

  • Specify Analysis Type

  • Perform ROI Analysis

  • Export Datasets and Graphs