Paper Info
Title
Integration and Mining of Genomic Annotations: Experiences and Perspectives in GFINDer Data Warehousing
Abstract
Many tasks in bioinformatics require the comprehensive evaluation of different types of data, generally available in distributed and heterogeneous data sources. Several approaches, including federated databases, multi databases and mediator based systems, have been proposed to integrate data from multiple sources. Yet, data warehousing seams to be the most adequate when numerous data need to be integrated, efficiently processed, and mined comprehensively. To support biological interpretation of high-throughput gene lists, we previously developed GFINDer (Genome Functional INtegrated Discoverer, http://www.bioinformatics.polimi.it/GFINDer/), a web server that statistically analyzes and mines functional and phenotypic gene annotations sparsely available in numerous databanks to highlight annotation categories significantly enriched or depleted in the considered gene lists. GFINDer includes a data warehouse that integrates gene and protein annotations of several organisms expressed through various controlled terminologies and ontologies. Here, we describe GFINDer data warehouse and discuss the lessons learned in its construction and five-year maintenance and development.
Year
DOI
Venue
2009
10.1007/978-3-642-02879-3_8
DILS
Keywords
Field
DocType
gfinder data warehouse,data warehouse,phenotypic gene,gfinder data warehousing,data warehousing seam,genomic annotations,high-throughput gene list,heterogeneous data source,considered gene list,multi databases,numerous data,federated databases,high throughput,data warehousing,functional integration,genome annotation
Data warehouse,Ontology (information science),Data mining,Annotation,Computer science,Data type,Protein Annotation,Gene Annotation,Database,Web server
Conference
Volume
ISSN
Citations 
5647
0302-9743
8
PageRank 
References 
Authors
0.57
11
3
Name
Order
Citations
PageRank
Marco Masseroli140248.55
Stefano Ceri267721657.41
Alessandro Campi335730.08