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An Evaluation of the Information Technology of Gene Expression Profiles Processing Stability for Different Levels of Noise Components

1
Department of Informatics, Jan Evangelista Purkyne University in Usti nad Labem, 400 96 Ústí nad Labem-město, Czech Republic
2
Department of Information Technologies, IT Step University, 79019 Lviv, Ukraine
This paper is an extended version of conference paper: Babichev, S.; Lytvynenko, V.; Škvor, J.; Korobchynskyi, M.; Voronenko, M. Information Technology of Gene Expression Profiles Processing for Purpose of Gene Regulatory Networks Reconstruction. In Proceedings of the 2018 IEEE Second International Conference on Data Stream Mining and Processing (DSMP), Lviv, Ukraine, 21–25 August 2018; pp. 336–341.
Received: 10 September 2018 / Revised: 29 October 2018 / Accepted: 1 November 2018 / Published: 5 November 2018
(This article belongs to the Special Issue Data Stream Mining and Processing)
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Abstract

This paper presents the results of research concerning the evaluation of stability of information technology of gene expression profiles processing with the use of gene expression profiles, which contain different levels of noise components. The information technology is presented as a structural block-chart, which contains all stages of the studied data processing. The hybrid model of objective clustering based on the SOTA algorithm and the technology of gene regulatory networks reconstruction have been investigated to evaluate the stability to the level of the noise components. The results of the simulation have shown that the hybrid model of the objective clustering has high level of stability to noise components and vice versa, the technology of gene regulatory networks reconstruction is rather sensitive to the level of noise component. The obtained results indicate the importance of gene expression profiles preprocessing at the early stage of the gene regulatory network reconstruction in order to remove background noise and non-informative genes in terms of the used criteria. View Full-Text
Keywords: objective clustering; biclustering; gene regulatory networks; reconstruction; validation; gene expression profiles; noise component; systems stability objective clustering; biclustering; gene regulatory networks; reconstruction; validation; gene expression profiles; noise component; systems stability
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This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited (CC BY 4.0).
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Babichev, S. An Evaluation of the Information Technology of Gene Expression Profiles Processing Stability for Different Levels of Noise Components. Data 2018, 3, 48.

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