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Two Dimensional Gel Electrophoresis Image Inpainting for Improving Protein Spot Detection

by Shaheera Rashwan, Ashraf Khalil
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International Journal of Computer Applications
Foundation of Computer Science (FCS), NY, USA
Volume 176 - Number 38
Year of Publication: 2020
Authors: Shaheera Rashwan, Ashraf Khalil
10.5120/ijca2020920474

Shaheera Rashwan, Ashraf Khalil . Two Dimensional Gel Electrophoresis Image Inpainting for Improving Protein Spot Detection. International Journal of Computer Applications. 176, 38 ( Jul 2020), 38-41. DOI=10.5120/ijca2020920474

@article{ 10.5120/ijca2020920474,
author = { Shaheera Rashwan, Ashraf Khalil },
title = { Two Dimensional Gel Electrophoresis Image Inpainting for Improving Protein Spot Detection },
journal = { International Journal of Computer Applications },
issue_date = { Jul 2020 },
volume = { 176 },
number = { 38 },
month = { Jul },
year = { 2020 },
issn = { 0975-8887 },
pages = { 38-41 },
numpages = {9},
url = { https://ijcaonline.org/archives/volume176/number38/31454-2020920474/ },
doi = { 10.5120/ijca2020920474 },
publisher = {Foundation of Computer Science (FCS), NY, USA},
address = {New York, USA}
}
%0 Journal Article
%1 2024-02-07T00:44:33.694490+05:30
%A Shaheera Rashwan
%A Ashraf Khalil
%T Two Dimensional Gel Electrophoresis Image Inpainting for Improving Protein Spot Detection
%J International Journal of Computer Applications
%@ 0975-8887
%V 176
%N 38
%P 38-41
%D 2020
%I Foundation of Computer Science (FCS), NY, USA
Abstract

Many specialized software programs are available for processing two dimensional gel electrophoresis (2-DGE) images. However, the anomalies existing in these images make the achievement of a reliable system for 2-DGE image analysis still difficult to reach. In this paper, we propose a new preprocessing technique applied to 2-DGE images. The new technique is based on image inpainting using Mumford Shah Euler Lagrange to discard anomalies such as vertical and horizontal streaking from these images. We also present a comparison of the analysis of 2-DGE images inpainted by the proposed technique and non-inpainted images using the known commercial software Delta2D. We compute the F-measure in both cases for three different 2-DGE images. The degree of improvement in F-measure reaches 18.5% in first image and 5.9% in second image and 3.8% in third image. Our new 2D Gel image preprocessing method based on Mumford Shah inpainting shows a significant improvement when comparing analysis of inpainted images with non-inpainted images.

References
  1. Magdeldin, Sameh, Shymaa Enany, Yutaka Yoshida, Bo Xu, Ying Zhang, Zam Zureena, Ilambarthi Lokamani, Eishin Yaoita, and Tadashi Yamamoto. "Basics and recent advances of two dimensional-polyacrylamide gel electrophoresis." Clinical proteomics 11, no. 1 (2014): 16.
  2. Goez, Manuel Mauricio, Maria Constanza Torres-Madroñero, Sarah Röthlisberger, and Edilson Delgado-Trejos. "Preprocessing of 2-dimensional gel electrophoresis images applied to proteomic analysis: a review." Genomics, proteomics & bioinformatics 16, no. 1 (2018): 63-72.
  3. He L, Wang Y. Iterative support detection-based split bregman method for wavelet frame-based image inpainting. IEEE Transactions on Image Processing. 2014 Dec;23(12):5470-85.
  4. Chen DQ, Zhou Y. Inexact alternating direction method based on proximity projection operator for image inpainting in wavelet domain. Neurocomputing. 2016 May 12;189:145-59.
  5. Wen F, Adhikari L, Pei L, Marcia RF, Liu P, Qiu RC. Nonconvex regularization-based sparse recovery and demixing with application to color image inpainting. IEEE Access. 2017;5:11513-27.
  6. Alilou VK, Yaghmaee F. Non-texture image inpainting using histogram of oriented gradients. Journal of Visual Communication and Image Representation. 2017 Oct 1;48:43-53.
  7. Wang H, Jiang L, Liang R, Li XX. Exemplar-based image inpainting using structure consistent patch matching. Neurocomputing. 2017 Dec 20;269:90-6.
  8. Chen Z, Dai C, Jiang L, Sheng B, Zhang J, Lin W, Yuan Y. Structure-aware image inpainting using patch scale optimization. Journal of Visual Communication and Image Representation. 2016 Oct 1;40:312-23.
  9. Patil BH, Patil PM. Crow search algorithm with discrete wavelet transform to aid Mumford Shah inpainting model. Evolutionary Intelligence. 2018 Oct 1;11(1-2):73-87.
  10. Shen J. Inpainting and the fundamental problem of image processing. SIAM news. 2003 Jun;36(5):1-4.
  11. Esedoglu S, Shen J. Digital inpainting based on the Mumford–Shah–Euler image model. European Journal of Applied Mathematics. 2002 Aug;13(4):353-70.
  12. 2D Gel databases http://bioinformatics.org/lecb2dgeldb/ (last accessed 5-5-2019)
  13. DECODON Delta 2D https://www.decodon.com/delta2d.html (last accessed 5-5-2019)
  14. Faheem, Muhamed Talaat, Shaheera Rashwan, Amany Sarhan, and Bayumy A. Youssef. "De-noising 2D gel images using wavelet transform based on genetic algorithm." In Proc 10th WSEAS Int Conf Appl Comput Appl Comput Sci, pp. 187-94. 2011.
  15. Rashwan, Shaheera, Talaat Faheem, Amany Sarhan, and Bayumy AB Youssef. "A relational fuzzy c-means algorithm for detecting protein spots in two-dimensional gel images." In Advances in Computational Biology, pp. 215-227. Springer, New York, NY, 2010.
Index Terms

Computer Science
Information Sciences

Keywords

Two Dimensional Gel Electrophoresis (2-DGE) Image Inpainting 2-DGE image preprocessing Mumford Shah Inpainting Model.

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