MIST-Explorer

MIST-Explorer is a tool for researchers and scientists working in single-cell proteomics. It lets you load, process, visualize, and analyze protein distribution at the single-cell level — from raw multi-cycle microscopy images through to statistical and spatial analysis of individual cells.

Key Features

• Extract Tab: Crop, rotate, flip, register and align images. Segment cells with StarDist or CellProfiler, then quantify per-cell protein intensities.

• View Tab: Visualize multi-channel protein expression data as layered overlays with independent opacity, contrast, and color tinting per channel. Export to PNG or multi-channel TIFF.

• Analysis Tab: Draw regions of interest (rectangle, circle, polygon) and generate box plots, z-score heatmaps, spatial heatmaps, pie charts, histograms, and UMAP projections.

Requirements

• Operating System: Windows, macOS (tested)

• Minimum Hardware: 8 GB RAM, 2 GHz processor

• Installation
• Tutorial
  • Getting Started
  • Extracting and Processing Your Images
  • Visualizing Protein Expression
  • Analyzing Regions of Interest
  • Video Tutorials
• Extract Tab
  • Transform
  • Bright Field Alignment
  • Segmentation
  • Quantification
• View Tab
  • Interface Overview
  • Loading Data
  • Layer Management
  • Export
  • UMAP Launcher
  • Usage Tips
• Analysis Tab
  • Interface Overview
  • Region of Interest (ROI) Selection
  • Navigating Multiple ROIs
  • Protein Selection
  • Visualizations
  • Working with Visualizations
  • Full Image Analysis
  • Typical Workflow
  • Usage Tips