Journal of Isfahan Medical School

Journal of Isfahan Medical School

A New Method for Calculating Lane Average Width on the Pulsed Field Gel Electrophoresis (PFGE) Images for Lane Detection and Extraction Problem

Document Type : Original Article (s)

Authors
Mohammad Rezaei 1
Mahmood Amiri 2
Parviz Mohajeri 3
Mansour Rezaei 4
1 MSc Student, Department of Biomedical Engineering, School of Medicine AND Students Research Committee, Kermanshah University of Medical Sciences, Kermanshah, Iran
2 Assistant Professor, Medical Biology Research Center, Kermanshah University of Medical Sciences, Kermanshah, Iran
3 Associate Professor, Department of Microbiology, School of Medicine, Kermanshah University of Medical Sciences, Kermanshah, Iran
4 Associate professor, Department of Biostatistics, Social Development and Health Promotion Research Center, Kermanshah University of Medical Sciences, Kermanshah, Iran
Abstract
Background: We aimed to a new method to calculate the lane average width on the pulsed field gel electrophoresis (PFGE) images for lane detection and extraction problem. Although some studies are reported for lane detection based on vertical projection profile, they are not automatic with low error. Average width of lane is the most important parameter that is required for automatic image processing of PFGE images. This research with the aim of using the power spectrum density to calculate the lane average width was carried out.Methods: First, based on the power spectral density, PFGE images were processed. The proposed algorithm was trained using 10 PFGE images and then evaluated for 20 PFGE images which totally consisted of 300 lanes. These images were developed using Bio-Rad model of PFGE in Microbiology Laboratory of Kermanshah University of Medical Sciences, Iran.Findings: The power spectrum density procedure in contrast to intersection of the horizontal lane yields decreased 99.61% of calculation error for lane detection.Conclusion: Considering the lane average width is used in several stages for lane detection and extraction procedure, it can be concluded that the power spectrum density improves the process of lane extraction significantly.
Keywords
Power spectrum density
Average Lane width
Pulsed field gel electrophoresis (PFGE)
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Journal of Isfahan Medical School
Volume 33, Issue 359 - Serial Number 359
September and October 2016
Pages 1965-1972

  • Receive Date 24 June 2015
  • Accept Date 06 April 2022