Immunofluorescence (IF) and in situ proximity ligation assay (isPLA) are techniques that are used for in situ protein expression and colocalisation analysis, respectively.However, an efficient quantitative method to analyse both IF and isPLA staining on skin sections is lacking. Therefore, we developed a new method for semi-automatic quantitative layer-by-layer measurement of protein expression and colocalisation in skin sections using the free open-source software CellProfiler. As a proof of principle, IF and isPLA of ichthyosis-related proteins TGm-1 and SDR9C7 were examined. The results indicate that this new method can be used for protein expression and colocalisation analysis in skin sections. [1] isPLA signals, each representing one colocalisation, are seen as fluorescent spots under the microscope.[1]Both IF and isPLA have already been applied in subjective and semi-quantitative analysis of protein expression and colocalisation in skin sections. [2,3] However, an efficient quantitative image analysis method for IF and isPLA is lacking. A previous report described advanced automatic segmentation of the epidermal part of the images using the commercial scripting tool Matlab. [4] Another study used the open-source software ImageJ to quantify colorimetric staining of melanin in skin without segmentation of the epidermis. [5] CellProfiler is also a free and open-source software and does not require any programming skills, which makes it easy to handle.
| QUESTION ADDRESSEDWe developed a new, efficient method for objective quantitative image analysis of protein expression and colocalisation in different epidermal layers of skin sections.
| EXPERIMENTAL DESIGN
| Human skin samplesThis study was conducted in conformity with Declaration of Helsinki Principles and approved by Regional Ethical Review Board at Uppsala University. After informed and written consent and local anaesthesia, punch biopsies (3 mm) were obtained from healthy skin donors, fixed in 4% buffered formalin and embedded in paraffin.
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METHODS LETTERS TO THE EDITOR
| Immunofluorescence (IF) and in situ proximity ligation assay (isPLA)IF staining was performed as described in Supporting Information. The isPLA was performed according to the manufacturer's instructions (Sigma-Aldrich, St. Louis, MO, USA). Microscopy images of IF and isPLA staining were acquired as described in Supporting Information.Images for IF were collected in single focal plane, whereas isPLA images were collected as z-stacks to enable detection of signals present at different depths in the skin sections.
| Quantitative analysis of IF staining and isPLA signalsA detailed instruction on how to use the CellProfiler pipelines, Pipeline I projection, Pipeline II region-of-interest (ROI) and Pipeline III measurement, can be found in the Supporting Information. The CellProfiler software and the pipelines used in this study will be available for downloading at www.cellprofiler.org.