Integrated Analysis of Tissue-Specific Gene Expression in Diabetes by Tensor Decomposition Can Identify Possible Associated Diseases
In the field of gene expression analysis, methods of integrating multiple gene expression profiles are still being developed and the existing methods have scope for improvement. The previously proposed tensor decomposition-based unsupervised feature extraction method was improved by introducing stan...
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| Format: | Article |
| Language: | English |
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MDPI AG
2022-06-01
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| Series: | Genes |
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| Online Access: | https://www.mdpi.com/2073-4425/13/6/1097 |
| _version_ | 1797487016037842944 |
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| author | Y-H. Taguchi Turki Turki |
| author_facet | Y-H. Taguchi Turki Turki |
| author_sort | Y-H. Taguchi |
| collection | DOAJ |
| description | In the field of gene expression analysis, methods of integrating multiple gene expression profiles are still being developed and the existing methods have scope for improvement. The previously proposed tensor decomposition-based unsupervised feature extraction method was improved by introducing standard deviation optimization. The improved method was applied to perform an integrated analysis of three tissue-specific gene expression profiles (namely, adipose, muscle, and liver) for diabetes mellitus, and the results showed that it can detect diseases that are associated with diabetes (e.g., neurodegenerative diseases) but that cannot be predicted by individual tissue expression analyses using state-of-the-art methods. Although the selected genes differed from those identified by the individual tissue analyses, the selected genes are known to be expressed in all three tissues. Thus, compared with individual tissue analyses, an integrated analysis can provide more in-depth data and identify additional factors, namely, the association with other diseases. |
| first_indexed | 2024-03-09T23:42:39Z |
| format | Article |
| id | doaj.art-2c0850bf2bee4b86a6a656f1a23b47cb |
| institution | Directory Open Access Journal |
| issn | 2073-4425 |
| language | English |
| last_indexed | 2024-03-09T23:42:39Z |
| publishDate | 2022-06-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Genes |
| spelling | doaj.art-2c0850bf2bee4b86a6a656f1a23b47cb2023-11-23T16:49:14ZengMDPI AGGenes2073-44252022-06-01136109710.3390/genes13061097Integrated Analysis of Tissue-Specific Gene Expression in Diabetes by Tensor Decomposition Can Identify Possible Associated DiseasesY-H. Taguchi0Turki Turki1Department of Physics, Chuo University, Tokyo 112-8551, JapanDepartment of Computer Science, King Abdulaziz University, Jeddah 21589, Saudi ArabiaIn the field of gene expression analysis, methods of integrating multiple gene expression profiles are still being developed and the existing methods have scope for improvement. The previously proposed tensor decomposition-based unsupervised feature extraction method was improved by introducing standard deviation optimization. The improved method was applied to perform an integrated analysis of three tissue-specific gene expression profiles (namely, adipose, muscle, and liver) for diabetes mellitus, and the results showed that it can detect diseases that are associated with diabetes (e.g., neurodegenerative diseases) but that cannot be predicted by individual tissue expression analyses using state-of-the-art methods. Although the selected genes differed from those identified by the individual tissue analyses, the selected genes are known to be expressed in all three tissues. Thus, compared with individual tissue analyses, an integrated analysis can provide more in-depth data and identify additional factors, namely, the association with other diseases.https://www.mdpi.com/2073-4425/13/6/1097gene expressiontensor decompositiondiabetes mellitusneurodegenerative diseases |
| spellingShingle | Y-H. Taguchi Turki Turki Integrated Analysis of Tissue-Specific Gene Expression in Diabetes by Tensor Decomposition Can Identify Possible Associated Diseases Genes gene expression tensor decomposition diabetes mellitus neurodegenerative diseases |
| title | Integrated Analysis of Tissue-Specific Gene Expression in Diabetes by Tensor Decomposition Can Identify Possible Associated Diseases |
| title_full | Integrated Analysis of Tissue-Specific Gene Expression in Diabetes by Tensor Decomposition Can Identify Possible Associated Diseases |
| title_fullStr | Integrated Analysis of Tissue-Specific Gene Expression in Diabetes by Tensor Decomposition Can Identify Possible Associated Diseases |
| title_full_unstemmed | Integrated Analysis of Tissue-Specific Gene Expression in Diabetes by Tensor Decomposition Can Identify Possible Associated Diseases |
| title_short | Integrated Analysis of Tissue-Specific Gene Expression in Diabetes by Tensor Decomposition Can Identify Possible Associated Diseases |
| title_sort | integrated analysis of tissue specific gene expression in diabetes by tensor decomposition can identify possible associated diseases |
| topic | gene expression tensor decomposition diabetes mellitus neurodegenerative diseases |
| url | https://www.mdpi.com/2073-4425/13/6/1097 |
| work_keys_str_mv | AT yhtaguchi integratedanalysisoftissuespecificgeneexpressionindiabetesbytensordecompositioncanidentifypossibleassociateddiseases AT turkiturki integratedanalysisoftissuespecificgeneexpressionindiabetesbytensordecompositioncanidentifypossibleassociateddiseases |