Transcriptomics

Dataset Information

19

RNA-affinity isolations 13 RBPs


ABSTRACT: To identify RNAs specifically associated with potential RBPs, yeast cells expressing TAP-tagged RBP or the wild-type strain BY4741 (mock control) were grown to mid-log phase in rich medium and harvested by centrifugation. RNA affinity isolations were essentially performed as described (Gerber et al. 2004 PLoS Biol.; see protocol). In brief, TAP-tagged protein were captured from cell extracts with IgG coupled agarose beads (Sigma) and released by incubation with a site-specific protease (AcTEV, Sigma). from the extract (input) and from the affinity isolates was purified with the RNeasy Mini/ Micro Kit (Qiagen). RNAs were reverse transcribed using a mixture of oligo-dT and random nonamer oligos in the presence of amino-allyl dUTP/dNTP mixture. cDNAs were fluorescently labeled and hybridized on yeast oligo microarrays over night at 42 degrees in formamide-based hybridization buffer. Antigenic peptide used in IP: TAP-tag Overall design: An all pairs experiment design type is where all labeled extracts are compared to every other labeled extract.

INSTRUMENT(S): SMD Print_1381 Saccharomyces cerevisiae

ORGANISM(S): Saccharomyces cerevisiae  

SUBMITTER: Andre Gerber   

PROVIDER: GSE21864 | GEO | 2010-12-06

SECONDARY ACCESSION(S): PRJNA129321

REPOSITORIES: GEO

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