GAAD: A Gene and Autoimmiune Disease Association Database
Autoimmune diseases (ADs) arise from an abnormal immune response of the body against substances and tissues normally present in the body. More than a hundred of ADs have been described in the literature so far. Although their etiology remains largely unclear, various types of ADs tend to share more...
| Main Authors: | , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Oxford University Press
2018-08-01
|
| Series: | Genomics, Proteomics & Bioinformatics |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S1672022918303462 |
| _version_ | 1827160446763794432 |
|---|---|
| author | Guanting Lu Xiaowen Hao Wei-Hua Chen Shijie Mu |
| author_facet | Guanting Lu Xiaowen Hao Wei-Hua Chen Shijie Mu |
| author_sort | Guanting Lu |
| collection | DOAJ |
| description | Autoimmune diseases (ADs) arise from an abnormal immune response of the body against substances and tissues normally present in the body. More than a hundred of ADs have been described in the literature so far. Although their etiology remains largely unclear, various types of ADs tend to share more associated genes with other types of ADs than with non-AD types. Here we present GAAD, a gene and AD association database. In GAAD, we collected 44,762 associations between 49 ADs and 4249 genes from public databases and MEDLINE documents. We manually verified the associations to ensure the quality and credibility. We reconstructed and recapitulated the relationships among ADs using their shared genes, which further validated the quality of our data. We also provided a list of significantly co-occurring gene pairs among ADs; with embedded tools, users can query gene co-occurrences and construct customized co-occurrence network with genes of interest. To make GAAD more straightforward to experimental biologists and medical scientists, we extracted additional information describing the associations through text mining, including the putative diagnostic value of the associations, type and position of gene polymorphisms, expression changes of implicated genes, as well as the phenotypical consequences, and grouped the associations accordingly. GAAD is freely available at http://gaad.medgenius.info. Keywords: Autoimmune diseases, Disease–gene association, Database, Text mining |
| first_indexed | 2024-03-08T07:41:37Z |
| format | Article |
| id | doaj.art-053b947a0b5f4bc38eaedbdae47487f6 |
| institution | Directory Open Access Journal |
| issn | 1672-0229 |
| language | English |
| last_indexed | 2025-03-21T00:13:10Z |
| publishDate | 2018-08-01 |
| publisher | Oxford University Press |
| record_format | Article |
| series | Genomics, Proteomics & Bioinformatics |
| spelling | doaj.art-053b947a0b5f4bc38eaedbdae47487f62024-08-03T09:43:57ZengOxford University PressGenomics, Proteomics & Bioinformatics1672-02292018-08-01164252261GAAD: A Gene and Autoimmiune Disease Association DatabaseGuanting Lu0Xiaowen Hao1Wei-Hua Chen2Shijie Mu3Department of Blood Transfusion, Tangdu Hospital, Fourth Military Medical University, Xi'an 710032, ChinaMOE Key Laboratory of Molecular Biophysics, Hubei Key Laboratory of Bioinformatics and Molecular-imaging, Department of Bioinformatics and Systems Biology, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan 430074, ChinaMOE Key Laboratory of Molecular Biophysics, Hubei Key Laboratory of Bioinformatics and Molecular-imaging, Department of Bioinformatics and Systems Biology, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan 430074, China; Corresponding authors.Department of Blood Transfusion, Tangdu Hospital, Fourth Military Medical University, Xi'an 710032, China; Corresponding authors.Autoimmune diseases (ADs) arise from an abnormal immune response of the body against substances and tissues normally present in the body. More than a hundred of ADs have been described in the literature so far. Although their etiology remains largely unclear, various types of ADs tend to share more associated genes with other types of ADs than with non-AD types. Here we present GAAD, a gene and AD association database. In GAAD, we collected 44,762 associations between 49 ADs and 4249 genes from public databases and MEDLINE documents. We manually verified the associations to ensure the quality and credibility. We reconstructed and recapitulated the relationships among ADs using their shared genes, which further validated the quality of our data. We also provided a list of significantly co-occurring gene pairs among ADs; with embedded tools, users can query gene co-occurrences and construct customized co-occurrence network with genes of interest. To make GAAD more straightforward to experimental biologists and medical scientists, we extracted additional information describing the associations through text mining, including the putative diagnostic value of the associations, type and position of gene polymorphisms, expression changes of implicated genes, as well as the phenotypical consequences, and grouped the associations accordingly. GAAD is freely available at http://gaad.medgenius.info. Keywords: Autoimmune diseases, Disease–gene association, Database, Text mininghttp://www.sciencedirect.com/science/article/pii/S1672022918303462 |
| spellingShingle | Guanting Lu Xiaowen Hao Wei-Hua Chen Shijie Mu GAAD: A Gene and Autoimmiune Disease Association Database Genomics, Proteomics & Bioinformatics |
| title | GAAD: A Gene and Autoimmiune Disease Association Database |
| title_full | GAAD: A Gene and Autoimmiune Disease Association Database |
| title_fullStr | GAAD: A Gene and Autoimmiune Disease Association Database |
| title_full_unstemmed | GAAD: A Gene and Autoimmiune Disease Association Database |
| title_short | GAAD: A Gene and Autoimmiune Disease Association Database |
| title_sort | gaad a gene and autoimmiune disease association database |
| url | http://www.sciencedirect.com/science/article/pii/S1672022918303462 |
| work_keys_str_mv | AT guantinglu gaadageneandautoimmiunediseaseassociationdatabase AT xiaowenhao gaadageneandautoimmiunediseaseassociationdatabase AT weihuachen gaadageneandautoimmiunediseaseassociationdatabase AT shijiemu gaadageneandautoimmiunediseaseassociationdatabase |