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MGA repository: a curated data resource for ChIP-seq and other genome annotated data
René Dréos1, Giovanna Ambrosini1,2, Romain Groux1
1Swiss Institute of Bioinformatics (SIB), CH-1015 Lausanne, Switzerland.
Nucleic Acids Research
|October 26, 2017
Summary
The Mass Genome Annotation (MGA) repository standardizes next-generation sequencing and genome annotation data for 10 model organisms. This resource enables diverse analyses, including heat maps and custom track generation for genomic visualization.
Area of Science:
- Genomics
- Bioinformatics
- Data Management
Background:
- Next-generation sequencing (NGS) generates vast amounts of data.
- Standardizing genome annotation data is crucial for comparative analysis.
- Existing repositories may lack comprehensive, standardized data for multiple model organisms.
Purpose of the Study:
- To establish the Mass Genome Annotation (MGA) repository for storing standardized genome annotation data.
- To provide a comprehensive resource for 10 model organisms.
- To facilitate diverse downstream analyses of genomic data.
Main Methods:
- Data curation and manual editing of documentation files.
- Local processing of raw sequencing data to meet strict MGA format requirements.
- Integration with analysis tools like ChIP-Seq and SSA servers.
Main Results:
- The MGA repository currently houses over 24,000 samples.
- Data is standardized across 10 model organisms, including Homo sapiens and Mus musculus.
- The repository supports various analyses, such as aggregation plots, heat maps, and custom track generation.
Conclusions:
- The MGA repository offers a valuable, standardized resource for genomic data.
- It enhances the utility of published sequencing data for research.
- Facilitates advanced statistical analysis and genomic visualization.
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