biostudies-literatureJohansson MJNIGMS NIH HHS20872-7https://www.ebi.ac.uk/biostudies/studies/S-EPMC2409234biostudies-literatureUnknown104(52)Nonsense-mediated mRNA decay (NMD) is a surveillance mechanism that detects and degrades transcripts containing premature translation termination codons. Gene expression profiling experiments have shown that inactivation of the NMD pathway leads to the accumulation of both aberrant, nonsense-containing mRNAs, and many apparently wild-type transcripts. Such increases in transcript steady-state levels could arise from direct changes in the respective mRNA half-lives, or indirectly, as a consequence of the stabilization of transcripts encoding specific regulatory proteins. Here, we distinguished direct from indirect substrates by virtue of their association with the Saccharomyces cerevisiae Upf1 protein. Analyses of this dataset, and its comparison to the sets of transcripts that respectivelyProceedings of the National Academy of Sciences of the United States of AmericaAssociation of yeast Upf1p with direct substrates of the NMD pathway.PMC2409234R37 GM027757R37GM27757R01 GM027757Jacobson AHe FLi CSpatrick PJohansson MJfalseAssociation of yeast Upf1p with direct substrates of the NMD pathway.Nonsense-mediated mRNA decay (NMD) is a surveillance mechanism that detects and degrades transcripts containing premature translation termination codons. Gene expression profiling experiments have shown that inactivation of the NMD pathway leads to the accumulation of both aberrant, nonsense-containing mRNAs, and many apparently wild-type transcripts. Such increases in transcript steady-state levels could arise from direct changes in the respective mRNA half-lives, or indirectly, as a consequence of the stabilization of transcripts encoding specific regulatory proteins. Here, we distinguished direct from indirect substrates by virtue of their association with the Saccharomyces cerevisiae Upf1 protein. Analyses of this dataset, and its comparison to the sets of transcripts that respectively2007-01-01T00:00:00Z2007 Dec2026-05-05T00:10:36.682Z2019-03-27T00:15:20ZS-EPMC24092341808704210.1073/pnas.0709257105