Journal: Current biology : CB

Article Title: Recurrent circuitry sustains Drosophila courtship drive while priming itself for satiety

doi: 10.1016/j.cub.2019.08.015

Figure Lengend Snippet: KEY RESOURCES TABLE

Article Snippet: ROI-based FISH analysis (MATLAB) , This paper , https://github.com/CrickmoreRoguljaLabs/ROI_FISH_analysis.

Techniques: Virus, Recombinant, Luciferase, Reporter Assay, Sequencing, Control, Software, Fluorescence, Saline, Microscopy

Journal: bioRxiv

Article Title: Protein-lipid interactions drive presynaptic assembly upstream of cell adhesion molecules

doi: 10.1101/2023.11.17.567618

Figure Lengend Snippet: Supp 1A. Representative images of ROIs identified for DA9 neuron-specific CLA-1::GFP puncta in CTRL and nrx-1(-) strains. In each genotype, the top image is a representative linescan of CLA-1::GFP at presynapses, and the bottom image contains the ROIs (outlined in green) that were identified by our MATLAB script. The same thresholding and restriction parameters were applied to all images containing this marker. Scale, 5 μm. Supp 1B. Representative images of ROIs identified for an endogenous NRX-1::Skylan marker in a CTRL and syd-1(-) strain. The top image is a representative linescan of NRX-1::Skylan at synapses in the dorsal nerve cord, and the bottom image contains ROIs (outlined in green). The same thresholding and restriction parameters were applied to all images of the NRX-1::Skylan marker. Scale, 2.5 μm.

Article Snippet: Fluorescent puncta in the 32-bit linescan tifs were detected and segmented using a custom ROI-based MATLAB application (Image Processing Toolbox Release 2022a, The MathWorks, Inc.) that uses local means thresholding and ROI watershed segmentation followed by parametric restriction to remove noise pixels.

Techniques: Marker

Journal: Neuron

Article Title: Motivation, perception, and chance converge to make a binary decision

doi: 10.1016/j.neuron.2018.06.014

Figure Lengend Snippet: KEY RESOURCES TABLE

Article Snippet: ROI-based fluorescence quantification package (MATLAB) , Zhang et al., 2016 , https://github.com/CrickmoreRoguljaLabs/Blind-image-analysis.

Techniques: Virus, Recombinant, Software, Fluorescence, Saline

Journal: Neuron

Article Title: Distinct Contributions of Whisker Sensory Cortex and Tongue-Jaw Motor Cortex in a Goal-Directed Sensorimotor Transformation

doi: 10.1016/j.neuron.2019.07.008

Figure Lengend Snippet:

Article Snippet: To extract time-varying somatic calcium signals F Soma (t), we used the MATLAB-based Suite2p toolbox ( ) (see A for example regions of interests (ROIs)).

Techniques: Recombinant, Plasmid Preparation, Software