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Fig. 2 | BMC Bioinformatics

Fig. 2

From: A novel automated image analysis pipeline for quantifying morphological changes to the endoplasmic reticulum in cultured human cells

Fig. 2

ER analysis pipeline workflow and preliminary steps. A Analysis pipeline workflow summary. ROI: Region of Interest. PM: plasma membrane B Example of segmentation of 7 × 7 imaging fields (left); identification of individual cells and cell regions: nucleus, PM and cytoplasm (right). Scale bars = 200 μm. C Filters based on nuclear morphological and intensity properties. (Left) Group of cells showing nuclei stained with Hoechst 33342. (Right) Filtered cells (green) and discarded cells: dividing cells (red) and multinucleated cells (blue). Scale bars = 50 μm. D Filters based on cytoplasmic ER marker (Sec61β-mEmerald) intensity. (Left) Group of cells showing ER labelled with Sec61β-mEmerald. (Right) Filtered cells (green) and discarded non-transfected cells (red). Scale bars = 50 μm

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