SQUAT: A Tool for Mining Gene Expression Data
Author Information
Author(s): Leyritz Johan, Schicklin Stéphane, Blachon Sylvain, Keime Céline, Robardet Céline, Boulicaut Jean-François, Besson Jérémy, Pensa Ruggero G, Gandrillon Olivier
Primary Institution: Université de Lyon
Hypothesis
Can we create a web tool that allows biologists to effectively mine and analyze SAGE data from multiple species?
Conclusion
SQUAT is a user-friendly platform that enables biologists to perform complex queries on gene expression data.
Supporting Evidence
- SQUAT provides access to raw SAGE data and mined patterns for human, mouse, and chicken.
- The tool allows for both simple and complex queries, enhancing the analysis of gene expression.
- SQUAT integrates external databases to enrich biological interpretations.
Takeaway
SQUAT is like a search engine for scientists that helps them find information about genes and how they work in different situations.
Methodology
SQUAT integrates SAGE data from three species and allows users to perform various types of queries on this data.
Limitations
The tool currently relies on pre-calculated patterns and does not allow users to modify key parameters like over-expression thresholds.
Digital Object Identifier (DOI)
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