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DDMGD: the database of text-mined associations between genes methylated in diseases from different species.

Bin Raies A, Mansour H, Incitti R, Bajic VB - Nucleic Acids Res. (2014)

Bottom Line: DDMGD provides a user-friendly interface facilitating retrieval of these associations ranked according to confidence scores.Submission of new associations to DDMGD is provided.A comparison analysis of DDMGD with several other databases focused on genes methylated in diseases shows that DDMGD is comprehensive and includes most of the recent information on genes methylated in diseases.

View Article: PubMed Central - PubMed

Affiliation: Computational Bioscience Research Center (CBRC), Computer, Electrical and Mathematical Sciences and Engineering Division (CEMSE), King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia.

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Example of search results. The system shows statistics about genes, diseases and species that were selected in users’ queries and the associations, links to other databases and graphs.
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Figure 2: Example of search results. The system shows statistics about genes, diseases and species that were selected in users’ queries and the associations, links to other databases and graphs.

Mentions: DDMGD provides basic statistics about genes, diseases, species and associations. Figure 2 shows partial output of query ‘RASSF1A, lung cancer, human’. For example, for each gene, DDMGD lists the number of diseases and species with which the gene is associated, as well as the number of sentences, PubMed abstracts and PubMed Central articles that include the gene. DDMGD provides bar graphs that show the frequency of the associations found and downloadable connectivity graphs. The table at the bottom of the page allows the user to select associations of their interest to get more information such as color-highlighted evidence sentences and confidence scores (Figure 3). If a sentence contains associations between several genes, diseases and/or species, each association is stored as a separate record as shown in Figure 3.


DDMGD: the database of text-mined associations between genes methylated in diseases from different species.

Bin Raies A, Mansour H, Incitti R, Bajic VB - Nucleic Acids Res. (2014)

Example of search results. The system shows statistics about genes, diseases and species that were selected in users’ queries and the associations, links to other databases and graphs.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4383966&req=5

Figure 2: Example of search results. The system shows statistics about genes, diseases and species that were selected in users’ queries and the associations, links to other databases and graphs.
Mentions: DDMGD provides basic statistics about genes, diseases, species and associations. Figure 2 shows partial output of query ‘RASSF1A, lung cancer, human’. For example, for each gene, DDMGD lists the number of diseases and species with which the gene is associated, as well as the number of sentences, PubMed abstracts and PubMed Central articles that include the gene. DDMGD provides bar graphs that show the frequency of the associations found and downloadable connectivity graphs. The table at the bottom of the page allows the user to select associations of their interest to get more information such as color-highlighted evidence sentences and confidence scores (Figure 3). If a sentence contains associations between several genes, diseases and/or species, each association is stored as a separate record as shown in Figure 3.

Bottom Line: DDMGD provides a user-friendly interface facilitating retrieval of these associations ranked according to confidence scores.Submission of new associations to DDMGD is provided.A comparison analysis of DDMGD with several other databases focused on genes methylated in diseases shows that DDMGD is comprehensive and includes most of the recent information on genes methylated in diseases.

View Article: PubMed Central - PubMed

Affiliation: Computational Bioscience Research Center (CBRC), Computer, Electrical and Mathematical Sciences and Engineering Division (CEMSE), King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia.

Show MeSH