GelInsight: Open-source software for large-sample DNA fragmentation quality control in gel electrophoresis images
Kathlyne Jayne B. Bautista, Marjan Mehrab-Mohseni, Sultan A. Kiradoh, Paul A. Dayton, Samantha G. Pattenden
TL;DR
GelInsight is an open-source software that automates DNA fragmentation analysis from gel electrophoresis images, offering a cost-effective and efficient alternative to commercial tools.
Contribution
GelInsight introduces an automated, MATLAB-based tool for high-throughput DNA fragmentation quality control with accurate and reproducible metrics.
Findings
GelInsight provides automated image processing and calculates key DNA fragmentation metrics with accuracy comparable to commercial systems.
The software's peak base-pair accuracy is within 2 ± 2 bp of open-source tools and 64 ± 24 bp of commercial assays.
A user-friendly GUI enhances data interaction and visualization for efficient DNA fragmentation pattern analysis.
Abstract
High throughput DNA fragmentation technology for next generation sequencing have become widely available, but there remains a need for affordable and efficient DNA fragmentation pattern analysis. Commercial electrophoresis platforms, such as the TapeStation, are costly, time-consuming, and have limited batch-processing capabilities. Traditional gel electrophoresis provides a low-cost, high-throughput alternative. However, existing open-source software, such as ImageJ, for gel electrophoresis image analysis typically requires extensive manual pre-processing and yields limited quantitative metrics relevant to DNA fragmentation quality control. Here, we have developed an open-source MATLAB-based software, GelInsight, for bulk analysis of gel electrophoresis images for analysis and quality control of DNA fragmentation patterns. GelInsight integrates automated image and signal processing…
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Taxonomy
TopicsDNA Repair Mechanisms · Cancer Genomics and Diagnostics · Genetics, Bioinformatics, and Biomedical Research