Unknown,Transcriptomics,Genomics,Proteomics

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RNAi profiling of Drosophila SL2 cells knocked down for ISWI

ABSTRACT: Profiling of changes in steady state RNA levels upon RNAi-mediated knockdown of the nucleosome remodeling ATPase ISWI in Drosophila SL2 cells. Quantitation of the corresponding proteomes has been performed to describe transcriptome-proteome relations. The analysis indicates a limited correlation of the two expression steps. Experiment Overall Design: Drosophila SL2 cells were incubated 7 days after treatment with 10 ug of dsRNA directed against GST or ISWI, respectively. 3 biological replicates per experimental conditions have been collected.

ORGANISM(S): Drosophila melanogaster

SUBMITTER: Tobias Straub 

PROVIDER: E-GEOD-11164 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Combined use of RNAi and quantitative proteomics to study gene function in Drosophila.

Bonaldi Tiziana T   Straub Tobias T   Cox Jürgen J   Kumar Chanchal C   Becker Peter B PB   Mann Matthias M  

Molecular cell 20080901 5

RNA interference is a powerful way to study gene function and is frequently combined with microarray analysis. Here we introduce a similar technology at the protein level by simultaneously applying Stable Isotope Labeling by Amino acids in Cell culture (SILAC) and RNA interference (RNAi) to Drosophila SL2 cells. After knockdown of ISWI, an ATP-hydrolyzing motor of different chromatin remodeling complexes, we obtained a quantitative proteome of more than 4,000 proteins. ISWI itself was reduced 10  ...[more]

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