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GiSAO.db: a database for ageing research.

Hofer E, Laschober GT, Hackl M, Thallinger GG, Lepperdinger G, Grillari J, Jansen-Dürr P, Trajanoski Z - BMC Genomics (2011)

Bottom Line: KEGG pathways were incorporated and links to external databases augment the information in GiSAO.db.Search functions facilitate retrieval of data which can also be exported for further processing.We have developed a centralized database that is very well suited for the management of data for ageing research.

View Article: PubMed Central - HTML - PubMed

Affiliation: Division for Bioinformatics, Biocenter, Innsbruck Medical University, Schöpfstrasse, Austria.

ABSTRACT

Background: Age-related gene expression patterns of Homo sapiens as well as of model organisms such as Mus musculus, Saccharomyces cerevisiae, Caenorhabditis elegans and Drosophila melanogaster are a basis for understanding the genetic mechanisms of ageing. For an effective analysis and interpretation of expression profiles it is necessary to store and manage huge amounts of data in an organized way, so that these data can be accessed and processed easily.

Description: GiSAO.db (Genes involved in senescence, apoptosis and oxidative stress database) is a web-based database system for storing and retrieving ageing-related experimental data. Expression data of genes and miRNAs, annotation data like gene identifiers and GO terms, orthologs data and data of follow-up experiments are stored in the database. A user-friendly web application provides access to the stored data. KEGG pathways were incorporated and links to external databases augment the information in GiSAO.db. Search functions facilitate retrieval of data which can also be exported for further processing.

Conclusions: We have developed a centralized database that is very well suited for the management of data for ageing research. The database can be accessed at https://gisao.genome.tugraz.at and all the stored data can be viewed with a guest account.

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Related in: MedlinePlus

Gene search result. For the queried gene all the information stored in the database, i.e. tags, gene expression data, annotation data and orthologs data are listed.
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Figure 4: Gene search result. For the queried gene all the information stored in the database, i.e. tags, gene expression data, annotation data and orthologs data are listed.

Mentions: A comprehensive search function that takes gene and miRNA Ids as parameters provides access to all data about a gene or miRNA in GiSAO.db. The search yields expression data, annotation data, orthologs, experimental data tags and favourite lists of the specified gene or miRNA (Figure 4). An export mechanism which enables further processing of data from the database in external tools is seamlessly included into GiSAO.db. Lists of expression values, favorite genes and orthologs can be written to plain text files, PDF files or files in comma separated values (CSV) format.


GiSAO.db: a database for ageing research.

Hofer E, Laschober GT, Hackl M, Thallinger GG, Lepperdinger G, Grillari J, Jansen-Dürr P, Trajanoski Z - BMC Genomics (2011)

Gene search result. For the queried gene all the information stored in the database, i.e. tags, gene expression data, annotation data and orthologs data are listed.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3113790&req=5

Figure 4: Gene search result. For the queried gene all the information stored in the database, i.e. tags, gene expression data, annotation data and orthologs data are listed.
Mentions: A comprehensive search function that takes gene and miRNA Ids as parameters provides access to all data about a gene or miRNA in GiSAO.db. The search yields expression data, annotation data, orthologs, experimental data tags and favourite lists of the specified gene or miRNA (Figure 4). An export mechanism which enables further processing of data from the database in external tools is seamlessly included into GiSAO.db. Lists of expression values, favorite genes and orthologs can be written to plain text files, PDF files or files in comma separated values (CSV) format.

Bottom Line: KEGG pathways were incorporated and links to external databases augment the information in GiSAO.db.Search functions facilitate retrieval of data which can also be exported for further processing.We have developed a centralized database that is very well suited for the management of data for ageing research.

View Article: PubMed Central - HTML - PubMed

Affiliation: Division for Bioinformatics, Biocenter, Innsbruck Medical University, Schöpfstrasse, Austria.

ABSTRACT

Background: Age-related gene expression patterns of Homo sapiens as well as of model organisms such as Mus musculus, Saccharomyces cerevisiae, Caenorhabditis elegans and Drosophila melanogaster are a basis for understanding the genetic mechanisms of ageing. For an effective analysis and interpretation of expression profiles it is necessary to store and manage huge amounts of data in an organized way, so that these data can be accessed and processed easily.

Description: GiSAO.db (Genes involved in senescence, apoptosis and oxidative stress database) is a web-based database system for storing and retrieving ageing-related experimental data. Expression data of genes and miRNAs, annotation data like gene identifiers and GO terms, orthologs data and data of follow-up experiments are stored in the database. A user-friendly web application provides access to the stored data. KEGG pathways were incorporated and links to external databases augment the information in GiSAO.db. Search functions facilitate retrieval of data which can also be exported for further processing.

Conclusions: We have developed a centralized database that is very well suited for the management of data for ageing research. The database can be accessed at https://gisao.genome.tugraz.at and all the stored data can be viewed with a guest account.

Show MeSH
Related in: MedlinePlus