Project description:Comparison of CoV 3'UTR cis-acting element interactome to link the cis-acting element to coronavirus replication by LC-MS/MS. The study is performed by in vitro-transcribed RNA followed by RNA-protein pull-down assay. In addition, the concluded results are decided by comparison between the biological processes derived from analysis of interactome and the replication efficiency.
Project description:Comparison of CoV 3'UTR cis-acting element interactome to link the cis-acting element to coronavirus replication by LC-MS/MS. The study is performed by in vitro-transcribed RNA followed by RNA-protein pull-down assay. In addition, the concluded results are decided by comparison between the biological processes derived from analysis of interactome and the replication efficiency.
Project description:We performed pulldown assays followed by mass-spectrometry analysis using biotin-tagged 13-cis retinoic acid to identify its binding targets in HeLa cells
Project description:cis-antisense RNAs (cis-asRNAs) in prokaryotes are more pervasive than originally thought. However, little is known about their expression patterns and functions. Here we determined transcriptomes and proteomes of E. coli at multiple time points in five culture conditions using directional RNA-seq and tandem mass spectrometry. We found that a highly varying portion (27.2%~90.8%) of transcribed genes had cis-asRNAs dependent on growth phases and culture conditions, and that almost all transcribed genes changed their cis-asRNA levels relative to the mRNA level at different growth phases and culture conditions. Intriguingly, the correlation between the protein and mRNA levels of genes is abolished the increasing cis-asRNA levels relative to the mRNA levels, suggesting that cis-asRNAs might directly or indirectly inhibit translation by forming duplexes with mRNAs. All data sets are available for data mining from a unified resource to support further biological discoveries and insights into cis-asRNA-mediated gene expressional regulation.