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T-HOD: a literature-based candidate gene database for hypertension, obesity and diabetes

Researchers are finding it more and more difficult to follow the changing status of disease candidate genes due to the exponential increase in gene mapping studies. The Text-mined Hypertension, Obesity and Diabetes candidate gene database (T-HOD) is developed to help trace existing research on three...

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Autores principales: Dai, Hong-Jie, Wu, Johnny Chi-Yang, Tsai, Richard Tzong-Han, Pan, Wen-Harn, Hsu, Wen-Lian
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2013
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3570736/
https://www.ncbi.nlm.nih.gov/pubmed/23406793
http://dx.doi.org/10.1093/database/bas061
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author Dai, Hong-Jie
Wu, Johnny Chi-Yang
Tsai, Richard Tzong-Han
Pan, Wen-Harn
Hsu, Wen-Lian
author_facet Dai, Hong-Jie
Wu, Johnny Chi-Yang
Tsai, Richard Tzong-Han
Pan, Wen-Harn
Hsu, Wen-Lian
author_sort Dai, Hong-Jie
collection PubMed
description Researchers are finding it more and more difficult to follow the changing status of disease candidate genes due to the exponential increase in gene mapping studies. The Text-mined Hypertension, Obesity and Diabetes candidate gene database (T-HOD) is developed to help trace existing research on three kinds of cardiovascular diseases: hypertension, obesity and diabetes, with the last disease categorized into Type 1 and Type 2, by regularly and semiautomatically extracting HOD-related genes from newly published literature. Currently, there are 837, 835 and 821 candidate genes recorded in T-HOD for hypertension, obesity and diabetes, respectively. T-HOD employed the state-of-art text-mining technologies, including a gene/disease identification system and a disease–gene relation extraction system, which can be used to affirm the association of genes with three diseases and provide more evidence for further studies. The primary inputs of T-HOD are the three kinds of diseases, and the output is a list of disease-related genes that can be ranked based on their number of appearance, protein–protein interactions and single-nucleotide polymorphisms. Unlike manually constructed disease gene databases, the content of T-HOD is regularly updated by our text-mining system and verified by domain experts. The interface of T-HOD facilitates easy browsing for users and allows T-HOD curators to verify data efficiently. We believe that T-HOD can help life scientists in search for more disease candidate genes in a less time- and effort-consuming manner. Database URL: http://bws.iis.sinica.edu.tw/THOD
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spelling pubmed-35707362013-02-13 T-HOD: a literature-based candidate gene database for hypertension, obesity and diabetes Dai, Hong-Jie Wu, Johnny Chi-Yang Tsai, Richard Tzong-Han Pan, Wen-Harn Hsu, Wen-Lian Database (Oxford) Original Article Researchers are finding it more and more difficult to follow the changing status of disease candidate genes due to the exponential increase in gene mapping studies. The Text-mined Hypertension, Obesity and Diabetes candidate gene database (T-HOD) is developed to help trace existing research on three kinds of cardiovascular diseases: hypertension, obesity and diabetes, with the last disease categorized into Type 1 and Type 2, by regularly and semiautomatically extracting HOD-related genes from newly published literature. Currently, there are 837, 835 and 821 candidate genes recorded in T-HOD for hypertension, obesity and diabetes, respectively. T-HOD employed the state-of-art text-mining technologies, including a gene/disease identification system and a disease–gene relation extraction system, which can be used to affirm the association of genes with three diseases and provide more evidence for further studies. The primary inputs of T-HOD are the three kinds of diseases, and the output is a list of disease-related genes that can be ranked based on their number of appearance, protein–protein interactions and single-nucleotide polymorphisms. Unlike manually constructed disease gene databases, the content of T-HOD is regularly updated by our text-mining system and verified by domain experts. The interface of T-HOD facilitates easy browsing for users and allows T-HOD curators to verify data efficiently. We believe that T-HOD can help life scientists in search for more disease candidate genes in a less time- and effort-consuming manner. Database URL: http://bws.iis.sinica.edu.tw/THOD Oxford University Press 2013-02-12 /pmc/articles/PMC3570736/ /pubmed/23406793 http://dx.doi.org/10.1093/database/bas061 Text en © The Author(s) 2013. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/3.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0/), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Original Article
Dai, Hong-Jie
Wu, Johnny Chi-Yang
Tsai, Richard Tzong-Han
Pan, Wen-Harn
Hsu, Wen-Lian
T-HOD: a literature-based candidate gene database for hypertension, obesity and diabetes
title T-HOD: a literature-based candidate gene database for hypertension, obesity and diabetes
title_full T-HOD: a literature-based candidate gene database for hypertension, obesity and diabetes
title_fullStr T-HOD: a literature-based candidate gene database for hypertension, obesity and diabetes
title_full_unstemmed T-HOD: a literature-based candidate gene database for hypertension, obesity and diabetes
title_short T-HOD: a literature-based candidate gene database for hypertension, obesity and diabetes
title_sort t-hod: a literature-based candidate gene database for hypertension, obesity and diabetes
topic Original Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3570736/
https://www.ncbi.nlm.nih.gov/pubmed/23406793
http://dx.doi.org/10.1093/database/bas061
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