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Updated: Aug 6, 2025

A High-throughput Cell Microarray Platform for Correlative Analysis of Cell Differentiation and Traction Forces

A High-throughput Cell Microarray Platform for Correlative Analysis of Cell Differentiation and Traction Forces

Published on: March 1, 2017

Interpreting Image-based Profiles using Similarity Clustering and Single-Cell Visualization.

Fernanda Garcia-Fossa^1,2, Mario Costa Cruz¹, Marzieh Haghighi¹

¹Imaging Platform, Broad Institute of Harvard and MIT, Cambridge, Massachusetts.

Current Protocols

|March 15, 2023

Summary

This summary is machine-generated.

This study presents two protocols for analyzing image-based profiling data. These methods help researchers interpret cellular changes and speed up scientific discovery by visualizing complex datasets.

Keywords:

Morpheus high-dimensional data image-based profiling morphological analysis profiling single-cell visualization

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Last Updated: Aug 6, 2025

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Rapid Analysis and Exploration of Fluorescence Microscopy Images

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Published on: March 19, 2014

Area of Science:

Cellular Biology
Bioimaging
Data Analysis

Background:

Image-based profiling uses microscopy to quantify cellular responses to perturbations.
Interpreting the vast datasets generated by these experiments is challenging.
Understanding these cellular changes is crucial for drug discovery and biological research.

Purpose of the Study:

To provide two complementary protocols for exploring and interpreting image-based profiling data.
To enable researchers to better understand cellular responses to various treatments.
To accelerate the pace of research in image-based cell analysis.

Main Methods:

Protocol 1: Analyzes profile similarities and identifies feature-driving differences using the Morpheus tool for heatmap visualization.
Protocol 2: Facilitates interactive exploration of images alongside numerical data, with scripts for single-cell and image-site visualizations.
Utilizes open-source tools and provides scripts for reproducible analysis.

Main Results:

Demonstrates how to examine feature-driving differences and visualize correlations between cellular features and treatments.
Enables interactive exploration of images and numerical data for a deeper understanding of cellular morphology.
Provides methods to link observed numerical changes back to the original cellular images.

Conclusions:

These protocols offer a comprehensive approach to interpreting image-based profiling data.
By visualizing and exploring data interactively, researchers can accelerate the understanding of cellular perturbations.
The provided methods enhance the utility of image-based profiling in biological and pharmaceutical research.