tissue

Junction Mapper

Workflow
Description

Junction Mapper is a semi-automated software (Java Desktop application) for analysing data from images of cells in close proximity to each other in monolayers. The focus of Junction Mapper is to measure the morphology of cell boundaries, define single junctions and quantify the length, area and intensity of the staining of different proteins localised at cell-cell contacts. The output are various unique parameters that assess the contacting interface between cells and up to two junctional markers.

has topic
Fluorescence microscopy
Confocal fluorescence microscopy
has function
Analysis
Filament tracing
Object feature extraction
Shape features
junction mapper

Tissue-IDR

Submitted by Perrine on Mon, 03/06/2023 - 16:36

The Image Data Resource (IDR) is a public repository of image datasets from published scientific studies, where the community can submit, search and access high-quality bio-image data. It is part of The BioImage Archive stores and distributes biological images that are useful to life-science researchers. Its development will provide data archiving services to the broader bioimaging database community. This includes added-value bioimaging data resources such as EMPIAR, Cell-IDR and Tissue-IDR.

 

Human colon tissue

Submitted by Perrine on Mon, 08/26/2019 - 11:30

One of the principal challenges in counting or segmenting cells or cell nuclei is dealing with clustered objects such as in tissues. To help assess algorithms' performance in this regard, synthetic 3D image sets of human colon tissue are provided in two diferent levels of quality: high SNR and low SNR. Ground truth is available as well.

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