The mRNA Decay Resource:Protocols and Resources

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Protocols

Yeast protocols

From the Kebaara, Baker and Atkin labs
Kebaara, B. W., K. E. Baker, K. D. Patefield and A. L. Atkin, 2012. Analysis of Nonsense-mediated mRNA decay in Saccharomyces cerevisiae. Current Protocols in Cell Biology Chapter 27:Unit27.3. [1]

From the Atkin lab Yeast polyribosome preparation for RNA
Yeast polyribosome preparation - Proteins
Gel electrophoresis of proteins in denaturing conditions
Electrotransfer of proteins from polyacrylamide gels to membranes
Immunoblotting
Kebaara et al., 2006. Determination of mRNA half-lives in Candida albicans using thiolutin as a transcription inhibitor. Genome. 49(8):894-9. [2]

From the Jacobson lab
He et al., 2008. Qualitative and quantitative assessment of the activity of the yeast nonsense-mediated mRNA decay pathway. Methods Enzymol. 449:127-47. [3]

From Fred Sherman
Sherman, 2002. Getting started with yeast. Methods Enzymol. 350:3-41. [4]

From Mike Culbertson
Global measurement of mRNA half lives. Guan et al., 2006. Impact of nonsense-mediated mRNA decay on the global expression profile of budding yeast. PLoS Genet. 2(11):e203. Epub 2006 Oct 18. [5]

General RNA Protocols

Capped RNAs:
Bajak and Hagedorn, 2008. Efficient 5' cap-dependent RNA purification: use in identifying and studying subsets of RNA. Methods Mol Biol. 419:147-60. [6]
Blewett et al., 2011. A quantitative assay for measuring mRNA decapping by splinted ligation reverse transcription polymerase chain reaction: qSL-RT-PCR. RNA 17(3):535-43. Epub 2011 Jan 10. [7]

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