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Real-Time Quantification of the Effects of IS200/IS605 Family-Associated TnpB on Transposon Activity
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C-GATE - catalogue of genes affected by transposable elements
Rita Rebollo1, Sharareh Farivar, Dixie L Mager
1Terry Fox Laboratory, British Columbia Cancer Agency, 675 West 10th Avenue, Vancouver, BC, V5Z1L3, Canada. rrebollo@bccrc.ca.
Mobile DNA
|May 25, 2012
Summary
Transposable elements (TEs) can be exapted by host genes, influencing gene expression. We created C-GATE, a new catalog of verified TE exaptations and predicted TE-gene partnerships to aid research.
Area of Science:
- Genomics
- Molecular Biology
- Evolutionary Biology
Background:
- Transposable elements (TEs) contain functional regulatory sequences.
- TEs are frequently exapted by host genes, impacting gene expression.
- Existing literature contains numerous examples of TE-host gene interactions.
Purpose of the Study:
- To establish a comprehensive catalog of genes affected by transposable elements (TEs).
- To provide a centralized resource for researchers studying TE exaptations.
- To facilitate future statistical analyses of TE impact on host gene expression.
Main Methods:
- Compilation of biologically verified TE exaptation cases.
- In silico identification of TE-gene partnerships.
- Development of an interactive online catalog (C-GATE).
Main Results:
- The C-GATE catalog contains 221 verified TE exaptation cases.
- Over 10,000 in silico TE-gene partnerships have been identified.
- C-GATE is interactive, allowing user contributions and providing graphical representations.
Conclusions:
- C-GATE serves as a valuable resource for the transposable element research community.
- The catalog is also beneficial for researchers in other fields who utilize TE data.
- C-GATE aims to advance the understanding of TE roles in host gene regulation.
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