A Diagnostic Model for Alzheimer’s Disease Based on Blood Levels of Autophagy-Related Genes
Alzheimer’s disease (AD) is a common neurodegenerative disease. The major problems that exist in the diagnosis of AD include the costly examinations and the high-invasive sampling tissue. Therefore, it would be advantageous to develop blood biomarkers. Because AD’s pathological process is considered...
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| Format: | Article |
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Frontiers Media S.A.
2022-05-01
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| Series: | Frontiers in Aging Neuroscience |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fnagi.2022.881890/full |
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| author | Qiangqiang Qin Zhanfeng Gu Fei Li Yanbing Pan TianXiang Zhang Yang Fang Lesha Zhang |
| author_facet | Qiangqiang Qin Zhanfeng Gu Fei Li Yanbing Pan TianXiang Zhang Yang Fang Lesha Zhang |
| author_sort | Qiangqiang Qin |
| collection | DOAJ |
| description | Alzheimer’s disease (AD) is a common neurodegenerative disease. The major problems that exist in the diagnosis of AD include the costly examinations and the high-invasive sampling tissue. Therefore, it would be advantageous to develop blood biomarkers. Because AD’s pathological process is considered tightly related to autophagy; thus, a diagnostic model for AD based on ATGs may have more predictive accuracy than other models. We obtained GSE63060 dataset from the GEO database, ATGs from the HADb and screened 64 differentially expressed autophagy-related genes (DE-ATGs). We then applied them to Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses as well as DisGeNET and PaGenBase enrichment analyses. By using the univariate analysis, least absolute shrinkage and selection operator (LASSO) regression method and the multivariable logistic regression, nine DE-ATGs were identified as biomarkers, which are ATG16L2, BAK1, CAPN10, CASP1, RAB24, RGS19, RPS6KB1, ULK2, and WDFY3. We combined them with sex and age to establish a nomogram model. To evaluate the model’s distinguishability, consistency, and clinical applicability, we applied the receiver operating characteristic (ROC) curve, C-index, calibration curve, and on the validation datasets GSE63061, GSE54536, GSE22255, and GSE151371 from GEO database. The results show that our model demonstrates good prediction performance. This AD diagnosis model may benefit both clinical work and mechanistic research. |
| first_indexed | 2024-12-12T04:11:29Z |
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| id | doaj.art-7b1f0d9e72ab4dc9ab18ba0c026f41fc |
| institution | Directory Open Access Journal |
| issn | 1663-4365 |
| language | English |
| last_indexed | 2024-12-12T04:11:29Z |
| publishDate | 2022-05-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Aging Neuroscience |
| spelling | doaj.art-7b1f0d9e72ab4dc9ab18ba0c026f41fc2022-12-22T00:38:35ZengFrontiers Media S.A.Frontiers in Aging Neuroscience1663-43652022-05-011410.3389/fnagi.2022.881890881890A Diagnostic Model for Alzheimer’s Disease Based on Blood Levels of Autophagy-Related GenesQiangqiang Qin0Zhanfeng Gu1Fei Li2Yanbing Pan3TianXiang Zhang4Yang Fang5Lesha Zhang6Second Institute of Clinical Medicine, Anhui Medical University, Hefei, ChinaSecond Institute of Clinical Medicine, Anhui Medical University, Hefei, ChinaSecond Institute of Clinical Medicine, Anhui Medical University, Hefei, ChinaSecond Institute of Clinical Medicine, Anhui Medical University, Hefei, ChinaSecond Institute of Clinical Medicine, Anhui Medical University, Hefei, ChinaDepartment of Physiology, School of Basic Medical Sciences, Anhui Medical University, Hefei, ChinaDepartment of Physiology, School of Basic Medical Sciences, Anhui Medical University, Hefei, ChinaAlzheimer’s disease (AD) is a common neurodegenerative disease. The major problems that exist in the diagnosis of AD include the costly examinations and the high-invasive sampling tissue. Therefore, it would be advantageous to develop blood biomarkers. Because AD’s pathological process is considered tightly related to autophagy; thus, a diagnostic model for AD based on ATGs may have more predictive accuracy than other models. We obtained GSE63060 dataset from the GEO database, ATGs from the HADb and screened 64 differentially expressed autophagy-related genes (DE-ATGs). We then applied them to Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses as well as DisGeNET and PaGenBase enrichment analyses. By using the univariate analysis, least absolute shrinkage and selection operator (LASSO) regression method and the multivariable logistic regression, nine DE-ATGs were identified as biomarkers, which are ATG16L2, BAK1, CAPN10, CASP1, RAB24, RGS19, RPS6KB1, ULK2, and WDFY3. We combined them with sex and age to establish a nomogram model. To evaluate the model’s distinguishability, consistency, and clinical applicability, we applied the receiver operating characteristic (ROC) curve, C-index, calibration curve, and on the validation datasets GSE63061, GSE54536, GSE22255, and GSE151371 from GEO database. The results show that our model demonstrates good prediction performance. This AD diagnosis model may benefit both clinical work and mechanistic research.https://www.frontiersin.org/articles/10.3389/fnagi.2022.881890/fullAlzheimer’s disease (AD)autophagyDEGsnomogramLASSO |
| spellingShingle | Qiangqiang Qin Zhanfeng Gu Fei Li Yanbing Pan TianXiang Zhang Yang Fang Lesha Zhang A Diagnostic Model for Alzheimer’s Disease Based on Blood Levels of Autophagy-Related Genes Frontiers in Aging Neuroscience Alzheimer’s disease (AD) autophagy DEGs nomogram LASSO |
| title | A Diagnostic Model for Alzheimer’s Disease Based on Blood Levels of Autophagy-Related Genes |
| title_full | A Diagnostic Model for Alzheimer’s Disease Based on Blood Levels of Autophagy-Related Genes |
| title_fullStr | A Diagnostic Model for Alzheimer’s Disease Based on Blood Levels of Autophagy-Related Genes |
| title_full_unstemmed | A Diagnostic Model for Alzheimer’s Disease Based on Blood Levels of Autophagy-Related Genes |
| title_short | A Diagnostic Model for Alzheimer’s Disease Based on Blood Levels of Autophagy-Related Genes |
| title_sort | diagnostic model for alzheimer s disease based on blood levels of autophagy related genes |
| topic | Alzheimer’s disease (AD) autophagy DEGs nomogram LASSO |
| url | https://www.frontiersin.org/articles/10.3389/fnagi.2022.881890/full |
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