Studying Natural Antisense Transcripts Using Affymetrix GeneChips
Author Information
Author(s): Oeder Sebastian, Mages Joerg, Flicek Paul, Lang Roland
Primary Institution: Technical University Munich
Hypothesis
Can Affymetrix GeneChips be used to quantitatively assess the expression of natural antisense transcripts (NATs)?
Conclusion
Affymetrix GeneChips can effectively measure the expression of many NATs, providing valuable data for understanding their regulation.
Supporting Evidence
- More than 50% of the probe sets with 'Negative Strand Matching Probes' were confirmed as detecting NATs.
- Expression of selected antisense transcripts was confirmed using strand-specific RT-PCR.
- A significant number of SAS transcript pairs were found to be positively correlated.
- Affymetrix datasets can be mined to reveal information about NAT expression and regulation.
Takeaway
This study shows that special chips can help scientists find and measure tiny RNA molecules that work against other RNA molecules in cells.
Methodology
The study used Affymetrix GeneChips to analyze NAT expression and confirmed findings with strand-specific RT-PCR.
Limitations
Only a fraction of all NATs can be detected due to the design of the microarrays, which are limited to the 3' region of mRNAs.
Statistical Information
P-Value
1.09*10-6
Statistical Significance
p = 1.09*10-6
Digital Object Identifier (DOI)
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