RIP-CHIP data from CNOT6L WT and KO hepatocytes. Mus musculus

mRNA poly(A) tail plays a key role in post-transcriptional regulation of gene expression, including mRNA decay and translation. Deadenylation is a rate-limiting step in mRNA decay, which is catalyzed by the CCR4-NOT complex. To identify mRNAs associated with the CCR4-NOT complex, we have done RIP-CHIP (RNA-immunoprecipitation followed by DNA microarray) using primary hepatocytes from CNOT6L wild-type and knockout mice. Overall design: Primary hepatocytes were isolated from 8-week-old wild-type and Cnot6l knockout (KO) mice. Each sample was divided into two parts for input RNA extraction, and anti-CNOT6L immunoprecipitation followed by RNA extraction. Input mRNA and immunoprecipitated (IPed) mRNA were hybridized to separate Mouse Genome 430 2.0 Affymetrix microarrays. Cnot6l KO hepatocytes was used as a negative control. All experiments were done in triplicates, with immunoprecipitated and input RNA from wild-type and CNOT6L KO hepatocytes generated for a total of 12 microarrays.