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Splicing_Arrays_2

ABSTRACT: In this work, we have studied four closely related members of the five known Drosophila hnRNP A/B family, hrp36, hrp38, hrp40, and hrp48. Using splicing-sensitive microarrays, between 200 and 300 genes were detected as specifically regulated by each individual hrp protein following down regulation of the protein expression level by RNAi-mediated knock-down. Keywords: Genetic modification This set of arrays evaluate the off target effect of the RNAi. Two differerent non-overlapping dsRNA targeting hrp36 were used to knock down its expression. The net-expression value of each splicing junction was then extracted and compare.

ORGANISM(S): Drosophila melanogaster

SUBMITTER: Marco Blanchette

PROVIDER: E-GEOD-13944 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Genome-wide analysis of alternative pre-mRNA splicing and RNA-binding specificities of the Drosophila hnRNP A/B family members.

Blanchette Marco M Green Richard E RE MacArthur Stewart S Brooks Angela N AN Brenner Steven E SE Eisen Michael B MB Rio Donald C DC

Molecular cell 20090201 4

Heterogeneous nuclear ribonucleoproteins (hnRNPs) have been traditionally seen as proteins packaging RNA nonspecifically into ribonucleoprotein particles (RNPs), but evidence suggests specific cellular functions on discrete target pre-mRNAs. Here we report genome-wide analysis of alternative splicing patterns regulated by four Drosophila homologs of the mammalian hnRNP A/B family (hrp36, hrp38, hrp40, and hrp48). Analysis of the global RNA-binding distributions of each protein revealed both smal ...[more]

PMID: 19250905

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Splicing_Arrays_1

Project description:In this work, we have studied four closely related members of the five known Drosophila hnRNP A/B family, hrp36, hrp38, hrp40, and hrp48. Using splicing-sensitive microarrays, between 200 and 300 genes were detected as specifically regulated by each individual hrp protein following down regulation of the protein expression level by RNAi-mediated knock-down. Keywords: Genetic modification Each individual protein (four total) were individually knock-down. RNA from biological triplicates were isolated 4 days after the initial treatment. A non-specific RNAi control was performed and the RNA isolated from multiple replicates were pooled and used as control sample in the microarray.

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