#AVERAGE IMAGE INTENSITY CELLPROFILER SOFTWARE#

They sequentially use modules for specialized image analysis with processing such as object form identification, color balance and extraction, object measurement, area quantification, and data exporting. Pipelines are small programs created in the graphical user interface (GUI) of CellProfiler™ that are easy to create, save, and share.

#AVERAGE IMAGE INTENSITY CELLPROFILER SOFTWARE#

The software (Stable version 3.1.9) can be installed on Windows ® and Mac ® computers and is available at (accessed on 7 July 2022). Some of its best features are modularity, ease of use, and the ability to automatically process hundreds or even millions of images using pipelines that can be exported to databases and used by everyone. The limitation of this method is its subjectivity since it depends on the visual interpretation of an expert pathologist, and it is not sensitive enough when there are small changes between samples.ĬellProfiler™ is a program designed for and by biologists to measure cells and analyze data obtained from biological samples. Many pathologists use a semiquantitative method, such as a score, according to the affected area and pattern of the injury in order to classify them into stages. Since kidney fibrosis is an area of extensive research for evaluating new antifibrogenic therapies, scientists need efficient and easy-to-use methods for quantifying fibrosis in those experimental models. Quantifying fibrosis is essential for knowing the degree of injury in the kidney and measuring the percentage of ECM in a trichrome-stained sample. All these models use a significant number of histological samples for morphometric analysis. In order to know how fibrosis leads to damage to the kidney structure, various experimental animal models are used because they emulate the damage, molecules, and biological processes that occur in the human body, especially in the kidney. The CellProfiler™ pipeline made here is a reliable, fast, and easy alternative for kidney fibrosis analysis and quantification in experimental animal models. The results were compared with those obtained by ImageJ, and no significant differences were found between both programs. A pipeline was created to analyze Masson’s trichrome-stained slides in a model of CDK induced by adenine at doses of 50 mg/kg and 100 mg/kg, in addition to samples with the vehicle (75% glycerin). This article explains how CellProfiler™ can be used to automatically analyze kidney histology photomicrographs from samples stained with Masson’s trichrome stain to assess the percentage of fibrosis in an experimental animal model of CKD. CellProfiler™ is a program designed to analyze data obtained from biological samples and can process multiple images through pipelines, and the results can be exported to databases. Different programs are used to calculate the percentage of fibrosis however, the analysis is time-consuming since one image must be performed at a time.

Most primary research on this disease requires evaluating the fibrosis index in animal model kidneys, specifically using Masson’s trichrome stain. AbstractĬhronic kidney disease (CKD) is a common and worldwide health problem and one of the most important causes of morbidity and mortality. With the help of this approach, researchers can make more studies faster and easier and find new antifibrogenic therapies to address the common and worldwide health problem caused by chronic kidney disease. The percentage of fibrosis using CellProfiler™ is similar to that obtained with the most widely used software for this kind of analysis called ImageJ. Here, we explain a method to conduct the same analysis but in a faster automated way with the assistance of a computer and a software package called CellProfiler™. However, this analysis is time-consuming because it needs to be made one image at a time and there are hundreds of samples in an animal model study. Some researchers use programs to make the evaluation of fibrosis easier. In these studies, it is essential to evaluate the percentage of fibrosis (growth of fibrotic tissue similar to a scar in response to damage) to know the degree of kidney damage.

Researchers use animals as models to replicate the human body’s behavior to understand this disease. Thus, they cannot filter blood effectively and cause waste accumulation in the organism, leading to serious health problems. Chronic kidney disease is a health problem in which the kidneys cannot function normally.

Average image intensity cellprofiler