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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.

Show MeSH
GiSAO overview. Four different types of data are stored in the database: gene expression data obtained from Affymetrix microarray experiments and miRNA expression data from Exiqon microarray experiments, annotations for genes and miRNAs including GO terms, orthologs data provided by Affymetrix as well as manually entered verified orthologs data and experimental data of follow-up experiments.
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Figure 1: GiSAO overview. Four different types of data are stored in the database: gene expression data obtained from Affymetrix microarray experiments and miRNA expression data from Exiqon microarray experiments, annotations for genes and miRNAs including GO terms, orthologs data provided by Affymetrix as well as manually entered verified orthologs data and experimental data of follow-up experiments.

Mentions: GiSAO.db is a database for storing and managing expression data of genes involved in senescence, apoptosis and oxidative stress. It is connected to a web application which provides an easy and controlled access to this data. Specifically, the database is capable of storing four data types: expression data, annotation data, orthologous data and data of follow-up experiments (Figure 1).


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)

GiSAO overview. Four different types of data are stored in the database: gene expression data obtained from Affymetrix microarray experiments and miRNA expression data from Exiqon microarray experiments, annotations for genes and miRNAs including GO terms, orthologs data provided by Affymetrix as well as manually entered verified orthologs data and experimental data of follow-up experiments.
© Copyright Policy - open-access
Related In: Results  -  Collection

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

Figure 1: GiSAO overview. Four different types of data are stored in the database: gene expression data obtained from Affymetrix microarray experiments and miRNA expression data from Exiqon microarray experiments, annotations for genes and miRNAs including GO terms, orthologs data provided by Affymetrix as well as manually entered verified orthologs data and experimental data of follow-up experiments.
Mentions: GiSAO.db is a database for storing and managing expression data of genes involved in senescence, apoptosis and oxidative stress. It is connected to a web application which provides an easy and controlled access to this data. Specifically, the database is capable of storing four data types: expression data, annotation data, orthologous data and data of follow-up experiments (Figure 1).

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