RNA immunoprecipitation chip: Difference between revisions
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'''RIP-Chip''' is [[immunoprecipitation]] of an RNA-binding protein coupled to [[reverse transcription]] and a [[DNA microarray|microarray]]. It has been used to find interactions between [[RNA]] and [[protein]] (one protein but many RNA species per analysis).<ref>{{cite journal |author=Townley-Tilson WH, Pendergrass SA, Marzluff WF, Whitfield ML |title=Genome-wide analysis of mRNAs bound to the histone stem-loop binding protein |journal=RNA |volume=12 |issue=10 |pages=1853–67 |year=2006 |month=October |pmid=16931877 |pmc=1581977 |doi=10.1261/rna.76006}}</ref><ref>{{cite journal |author=Khalil AM, Guttman M, Huarte M, ''et al.'' |title=Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression |journal=Proc. Natl. Acad. Sci. U.S.A. |year=2009 |month=July |pmid=19571010 |pmc=2704857 |doi=10.1073/pnas.0904715106 |volume=106 |issue=28 |pages=11667–72}}</ref><ref>{{cite journal |author= Hendrickson DG, Hogan DH, Herschlag D, Ferrell JEF, Brown PB| title=Systematic Identification of mRNAs Recruited to Argonaute 2 by Specific microRNAs and Corresponding Changes in Transcript Abundance|journal=PLoS One| year = 2008}}</ref> |
'''RIP-Chip''' is [[immunoprecipitation]] of an RNA-binding protein coupled to [[reverse transcription]] and a [[DNA microarray|microarray]]. It has been used to find interactions between [[RNA]] and [[protein]] (one protein but many RNA species per analysis).<ref>{{cite journal |author=Townley-Tilson WH, Pendergrass SA, Marzluff WF, Whitfield ML |title=Genome-wide analysis of mRNAs bound to the histone stem-loop binding protein |journal=RNA |volume=12 |issue=10 |pages=1853–67 |year=2006 |month=October |pmid=16931877 |pmc=1581977 |doi=10.1261/rna.76006}}</ref><ref>{{cite journal |author=Khalil AM, Guttman M, Huarte M, ''et al.'' |title=Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression |journal=Proc. Natl. Acad. Sci. U.S.A. |year=2009 |month=July |pmid=19571010 |pmc=2704857 |doi=10.1073/pnas.0904715106 |volume=106 |issue=28 |pages=11667–72}}</ref><ref>{{cite journal |author= Hendrickson DG, Hogan DH, Herschlag D, Ferrell JEF, Brown PB| title=Systematic Identification of mRNAs Recruited to Argonaute 2 by Specific microRNAs and Corresponding Changes in Transcript Abundance|journal=PLoS One| year = 2008| pmid=18461144 | doi = 10.1371/journal.pone.0002126| pmc=2330160 }}</ref> |
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A similar technique is [[ChIP-on-chip]], which detects the binding of proteins to genomic DNA rather than RNA. A competing technique is [[CLIP-Seq]] (also called RIP-Seq), where [[high-throughput sequencing]] replaces the microarray. |
A similar technique is [[ChIP-on-chip]], which detects the binding of proteins to genomic DNA rather than RNA. A competing technique is [[CLIP-Seq]] (also called RIP-Seq), where [[high-throughput sequencing]] replaces the microarray. |
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Revision as of 19:57, 8 November 2011
RIP-Chip is immunoprecipitation of an RNA-binding protein coupled to reverse transcription and a microarray. It has been used to find interactions between RNA and protein (one protein but many RNA species per analysis).[1][2][3]
A similar technique is ChIP-on-chip, which detects the binding of proteins to genomic DNA rather than RNA. A competing technique is CLIP-Seq (also called RIP-Seq), where high-throughput sequencing replaces the microarray.
References
- ^ Townley-Tilson WH, Pendergrass SA, Marzluff WF, Whitfield ML (2006). "Genome-wide analysis of mRNAs bound to the histone stem-loop binding protein". RNA. 12 (10): 1853–67. doi:10.1261/rna.76006. PMC 1581977. PMID 16931877.
{{cite journal}}: Unknown parameter|month=ignored (help)CS1 maint: multiple names: authors list (link) - ^ Khalil AM, Guttman M, Huarte M; et al. (2009). "Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression". Proc. Natl. Acad. Sci. U.S.A. 106 (28): 11667–72. doi:10.1073/pnas.0904715106. PMC 2704857. PMID 19571010.
{{cite journal}}: Explicit use of et al. in:|author=(help); Unknown parameter|month=ignored (help)CS1 maint: multiple names: authors list (link) - ^ Hendrickson DG, Hogan DH, Herschlag D, Ferrell JEF, Brown PB (2008). "Systematic Identification of mRNAs Recruited to Argonaute 2 by Specific microRNAs and Corresponding Changes in Transcript Abundance". PLoS One. doi:10.1371/journal.pone.0002126. PMC 2330160. PMID 18461144.
{{cite journal}}: CS1 maint: multiple names: authors list (link) CS1 maint: unflagged free DOI (link)
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