A Robust Identification of the Protein Standard Bands in Two-Dimensional Electrophoresis Gel Images
The aim of the investigation presented in this paper was to develop a software-based assistant for the protein analysis workflow. The prior characterization of the unknown protein in two-dimensional electrophoresis gel images is performed according to the molecular weight and isoelectric point of ea...
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| Format: | Article |
| Language: | English |
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Riga Technical University Press
2017-12-01
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| Series: | Electrical, Control and Communication Engineering |
| Subjects: | |
| Online Access: | https://doi.org/10.1515/ecce-2017-0009 |
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| author | Serackis Artūras Matuzevičius Dalius Navakauskas Dalius Šabanovič Eldar Katkevičius Andrius Plonis Darius |
| author_facet | Serackis Artūras Matuzevičius Dalius Navakauskas Dalius Šabanovič Eldar Katkevičius Andrius Plonis Darius |
| author_sort | Serackis Artūras |
| collection | DOAJ |
| description | The aim of the investigation presented in this paper was to develop a software-based assistant for the protein analysis workflow. The prior characterization of the unknown protein in two-dimensional electrophoresis gel images is performed according to the molecular weight and isoelectric point of each protein spot estimated from the gel image before further sequence analysis by mass spectrometry. The paper presents a method for automatic and robust identification of the protein standard band in a two-dimensional gel image. In addition, the method introduces the identification of the positions of the markers, prepared by using pre-selected proteins with known molecular mass. The robustness of the method was achieved by using special validation rules in the proposed original algorithms. In addition, a self-organizing map-based decision support algorithm is proposed, which takes Gabor coefficients as image features and searches for the differences in preselected vertical image bars. The experimental investigation proved the good performance of the new algorithms included into the proposed method. The detection of the protein standard markers works without modification of algorithm parameters on two-dimensional gel images obtained by using different staining and destaining procedures, which results in different average levels of intensity in the images. |
| format | Article |
| id | doaj-art-590fa0fb637442578f1678d76ddebbc2 |
| institution | OA Journals |
| issn | 2255-9159 |
| language | English |
| publishDate | 2017-12-01 |
| publisher | Riga Technical University Press |
| record_format | Article |
| series | Electrical, Control and Communication Engineering |
| spelling | doaj-art-590fa0fb637442578f1678d76ddebbc22025-08-20T02:38:57ZengRiga Technical University PressElectrical, Control and Communication Engineering2255-91592017-12-01131636810.1515/ecce-2017-0009ecce-2017-0009A Robust Identification of the Protein Standard Bands in Two-Dimensional Electrophoresis Gel ImagesSerackis Artūras0Matuzevičius Dalius1Navakauskas Dalius2Šabanovič Eldar3Katkevičius Andrius4Plonis Darius5Professor, Vilnius Gediminas Technical UniversityProfessor, Vilnius Gediminas Technical UniversityProfessor, Vilnius Gediminas Technical UniversityJunior Researcher, Vilnius Gediminas Technical UniversityAssociate Professor, Vilnius Gediminas Technical UniversityAssociate Professor, Vilnius Gediminas Technical UniversityThe aim of the investigation presented in this paper was to develop a software-based assistant for the protein analysis workflow. The prior characterization of the unknown protein in two-dimensional electrophoresis gel images is performed according to the molecular weight and isoelectric point of each protein spot estimated from the gel image before further sequence analysis by mass spectrometry. The paper presents a method for automatic and robust identification of the protein standard band in a two-dimensional gel image. In addition, the method introduces the identification of the positions of the markers, prepared by using pre-selected proteins with known molecular mass. The robustness of the method was achieved by using special validation rules in the proposed original algorithms. In addition, a self-organizing map-based decision support algorithm is proposed, which takes Gabor coefficients as image features and searches for the differences in preselected vertical image bars. The experimental investigation proved the good performance of the new algorithms included into the proposed method. The detection of the protein standard markers works without modification of algorithm parameters on two-dimensional gel images obtained by using different staining and destaining procedures, which results in different average levels of intensity in the images.https://doi.org/10.1515/ecce-2017-0009biomedical imagingimage analysismolecular biomarkersproteinsquantization |
| spellingShingle | Serackis Artūras Matuzevičius Dalius Navakauskas Dalius Šabanovič Eldar Katkevičius Andrius Plonis Darius A Robust Identification of the Protein Standard Bands in Two-Dimensional Electrophoresis Gel Images Electrical, Control and Communication Engineering biomedical imaging image analysis molecular biomarkers proteins quantization |
| title | A Robust Identification of the Protein Standard Bands in Two-Dimensional Electrophoresis Gel Images |
| title_full | A Robust Identification of the Protein Standard Bands in Two-Dimensional Electrophoresis Gel Images |
| title_fullStr | A Robust Identification of the Protein Standard Bands in Two-Dimensional Electrophoresis Gel Images |
| title_full_unstemmed | A Robust Identification of the Protein Standard Bands in Two-Dimensional Electrophoresis Gel Images |
| title_short | A Robust Identification of the Protein Standard Bands in Two-Dimensional Electrophoresis Gel Images |
| title_sort | robust identification of the protein standard bands in two dimensional electrophoresis gel images |
| topic | biomedical imaging image analysis molecular biomarkers proteins quantization |
| url | https://doi.org/10.1515/ecce-2017-0009 |
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