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DNA Microarrays

DNA Microarrays

Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...

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Updated: Jun 19, 2026

Counting Proteins in Single Cells with Addressable Droplet Microarrays

Counting Proteins in Single Cells with Addressable Droplet Microarrays

Published on: July 6, 2018

Arraycount, an algorithm for automatic cell counting in microwell arrays.

Nezamoddin Kachouie¹, Lifeng Kang, Ali Khademhosseini

¹Center for Biomedical Engineering, Department of Medicine, Brigham and Women's Hospital, Harvard Medical School, Cambridge, MA, USA.

|October 27, 2009

Summary

This summary is machine-generated.

Arraycount software automates cell counting in microwell arrays using fluorescent imaging and template matching. This high-throughput method accurately quantifies live and dead cells, improving microscale biological experiments.

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Last Updated: Jun 19, 2026

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Area of Science:

Biotechnology
Microfluidics
Cell Biology

Background:

Microscale technologies enable biological system manipulation and experiment miniaturization.
Lack of complementary software hinders high-throughput applications of microscale techniques.

Purpose of the Study:

To develop Arraycount, an automated software for cell counting in microwell arrays.
To improve the efficiency and accuracy of cell enumeration in microscale experiments.

Main Methods:

Fluorescent microscopy of cells in microwell arrays.
Computer-based image analysis using template matching for cell and microwell recognition.
Separate processing of green (live) and red (dead) fluorescent images.
High-throughput recording of cell counts per microwell.

Main Results:

Arraycount accurately identifies and counts cells within microwells.
Automated counting shows a small difference (1-2 cells) compared to manual counting.
Absolute difference in measurements ranged from 2.5-13% based on cell concentration.

Conclusions:

Arraycount provides an accurate and efficient automated solution for cell counting in microwell arrays.
The software facilitates high-throughput analysis, overcoming limitations of manual methods.
This advancement supports broader application of microscale technologies in biological research.