CROPPER: a metagene creator resource for cross-platform and cross-species compendium studies

Current genomic research methods provide researchers with enormous amounts of data. Combining data from different high-throughput research technologies commonly available in biological databases can lead to novel findings and increase research efficiency. However, combining data from different heter...

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Bibliographic Details
Published in:BMC bioinformatics 2006-09, Vol.7 (1), p.418-418, Article 418
Main Authors: Paananen, Jussi, Storvik, Markus, Wong, Garry
Format: Article
Language:English
Subjects:
Animals
Computational Biology - methods
Databases, Genetic
Genomics - methods
Humans
Internet
Programming Languages
Software
Species Specificity
User-Computer Interface
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Summary:Current genomic research methods provide researchers with enormous amounts of data. Combining data from different high-throughput research technologies commonly available in biological databases can lead to novel findings and increase research efficiency. However, combining data from different heterogeneous sources is often a very arduous task. These sources can be different microarray technology platforms, genomic databases, or experiments performed on various species. Our aim was to develop a software program that could facilitate the combining of data from heterogeneous sources, and thus allow researchers to perform genomic cross-platform/cross-species studies and to use existing experimental data for compendium studies. We have developed a web-based software resource, called CROPPER that uses the latest genomic information concerning different data identifiers and orthologous genes from the Ensembl database. CROPPER can be used to combine genomic data from different heterogeneous sources, allowing researchers to perform cross-platform/cross-species compendium studies without the need for complex computational tools or the requirement of setting up one's own in-house database. We also present an example of a simple cross-platform/cross-species compendium study based on publicly available Parkinson's disease data derived from different sources. CROPPER is a user-friendly and freely available web-based software resource that can be successfully used for cross-species/cross-platform compendium studies.
ISSN:1471-2105
1471-2105
DOI:10.1186/1471-2105-7-418