RNA regulons: coordination of post-transcriptional events

By Jack D. Keene. Nature reviews genetics, 2007

1,381 citations recorded by the source corpus.

View Paper: https://www.semanticscholar.org/paper/79a24d84b4244e9219f4a650c62b012b483ff2e0

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In Molecular Biology

Citations in the corpus

Progressive lengthening of 3′ untranslated regions of mRNAs by alternative polyadenylation during mouse embryonic development (2009, background): “Filipowicz W, Bhattacharyya SN, Sonenberg N (2008) Mechanisms of post-transcriptional regulation by microRNAs: Are the answers in sight? Nat Rev Genet 9(2):102–114.”
Extensive cross-regulation of post-transcriptional regulatory networks in Drosophila (2015, positive): “This is consistent with previous reports (Nogueira and Springer 2000; Keene 2007) that genes involved in post-transcriptional regulation tend to be regulated post-transcriptionally.”
Integrative regulatory mapping indicates that the RNA-binding protein HuR (ELAVL1) couples pre-mRNA processing and mRNA stability (2011, background): “These include early events such as splicing and polyadenylation, as well as export to and localization in the cytoplasm, where they coordinately regulate the stability and translation of subsets of mRNAs (Keene, 2007).”
Diverse RNA-Binding Proteins Interact with Functionally Related Sets of RNAs, Suggesting an Extensive Regulatory System (2008, background): “For cDNA microarray experiments, this corresponds to probes that match the following regular expression: Y[AP][RL][0–9]f3g[WC][-ABC]* (Datasets S1–S3).”
Genome-wide characterization of transcriptional start sites in humans by integrative transcriptome analysis. (2011, result): “…than that of ‘‘AP2’’, although the Western blot analyses suggested that protein expression levels are similar, which is consistent with the RNA-seq information obtained from the polysomal fraction, and these results may reflect post-transcriptional expression control of this gene (Keene 2007).”
PARalyzer: definition of RNA binding sites from PAR-CLIP short-read sequence data (2011, background): “All steps of RNA processing and function, including splicing, nuclear export, localization, stability, and small RNA-mediated regulation, are controlled by different RBPs and ribonucleoproteins [1].”
A compendium of RNA-binding motifs for decoding gene regulation (2013, positive): “To systematically seek possible roles for RBPs in mRNA stability, we identified cases in which there is a relationship between (1) the appearance of one or more strong motifs for an RBP in the 39 UTR, and (2) (anti-)correlation of the abundance of the transcript and the mRNA expression level of the ”
HITS-CLIP yields genome-wide insights into brain alternative RNA processing (2008, neutral): “Genome-wide screens have been used to establish correlations between the action of RNABPs and biologic diversity6,7,26-30, but are unable to identify direct sites of RNA regulation.”
A herpesvirus protein selectively inhibits cellular mRNA nuclear export (2016, background): “It has been proposed that expression of functionally related genes can be coordinately regulated at a post-transcriptional level to facilitate efficient responses to cellular needs (Keene, 2007).”
A census of human RNA-binding proteins (2014, background): “their constituents differentially affects RNA regulation (Dreyfuss et al., 2002; Glisovic et al., 2008; Keene, 2007; Mitchell and Parker, 2014; Müller-McNicoll and Neugebauer, 2013).”
Cell-type-specific isolation of ribosome-associated mRNA from complex tissues (2009, methodology): “The translational control of specific mRNAs has been extensively studied and shown to play a critical role in development as well as neuronal function (15, 16, 21).”
Genome instability: a mechanistic view of its causes and consequences (2008, background): “Transcription is coupled to numerous mRNA metabolic processes, including 5′- and 3′-end mRNA processing and mRNP assembly in eukaryote”
Transcriptome-wide identification of RNA-binding protein and microRNA target sites by PAR-CLIP (2010, background): “To understand how the interplay of these RNA-binding factors affects the regulation of individual transcripts, high resolution maps of in vivo protein-RNA interactions are necessary (Keene, 2007).”