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HiComet: a high-throughput comet analysis tool for large-scale DNA damage assessment

Cited 7 time in Web of Science Cited 9 time in Scopus
Authors
Lee, Taehoon; Lee, Sungmin; Sim, Woo Young; Jung, Yu Mi; Han, Sunmi; Won, Joong-Ho; Min, Hyeyoung; Yoon, Sungroh
Issue Date
2018-02-19
Publisher
BioMed Central
Citation
BMC Bioinformatics, 19(Suppl 1):44
Keywords
Comet assaySingle cell electrophoresisImage processingSegmentation
Abstract
Background
DNA damage causes aging, cancer, and other serious diseases. The comet assay can detect multiple types of DNA lesions with high sensitivity, and it has been widely applied. Although comet assay platforms have improved the limited throughput and reproducibility of traditional assays in recent times, analyzing large quantities of comet data often requires a tremendous human effort. To overcome this challenge, we proposed HiComet, a computational tool that can rapidly recognize and characterize a large number of comets, using little user intervention.

Results
We tested HiComet with real data from 35 high-throughput comet assay experiments, with over 700 comets in total. The proposed method provided unprecedented levels of performance as an automated comet recognition tool in terms of robustness (measured by precision and recall) and throughput.

Conclusions
HiComet is an automated tool for high-throughput comet-assay analysis and could significantly facilitate characterization of individual comets by accelerating its most rate-limiting step. An online implementation of HiComet is freely available at
https://github.com/taehoonlee/HiComet/
.
ISSN
1471-2105
Language
English
URI
https://hdl.handle.net/10371/139615
DOI
https://doi.org/10.1186/s12859-018-2015-7
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College of Engineering/Engineering Practice School (공과대학/대학원)Dept. of Computer Science and Engineering (컴퓨터공학부)Journal Papers (저널논문_컴퓨터공학부)
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