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dc.contributor.authorChen, Weijun
dc.contributor.authorMoore, Jill E.
dc.contributor.authorOzadam, Hakan
dc.contributor.authorShulha, Hennady P.
dc.contributor.authorRhind, Nicholas
dc.contributor.authorWeng, Zhiping
dc.contributor.authorMoore, Melissa J.
dc.date2022-08-11T08:07:58.000
dc.date.accessioned2022-08-23T15:37:58Z
dc.date.available2022-08-23T15:37:58Z
dc.date.issued2018-05-03
dc.date.submitted2018-06-11
dc.identifier.citation<p>Cell. 2018 May 3;173(4):1031-1044.e13. doi: 10.1016/j.cell.2018.03.062. <a href="https://doi.org/10.1016/j.cell.2018.03.062">Link to article on publisher's site</a></p>
dc.identifier.issn0092-8674 (Linking)
dc.identifier.doi10.1016/j.cell.2018.03.062
dc.identifier.pmid29727662
dc.identifier.urihttp://hdl.handle.net/20.500.14038/25835
dc.description.abstractFull understanding of eukaryotic transcriptomes and how they respond to different conditions requires deep knowledge of all sites of intron excision. Although RNA sequencing (RNA-seq) provides much of this information, the low abundance of many spliced transcripts (often due to their rapid cytoplasmic decay) limits the ability of RNA-seq alone to reveal the full repertoire of spliced species. Here, we present "spliceosome profiling," a strategy based on deep sequencing of RNAs co-purifying with late-stage spliceosomes. Spliceosome profiling allows for unambiguous mapping of intron ends to single-nucleotide resolution and branchpoint identification at unprecedented depths. Our data reveal hundreds of new introns in S. pombe and numerous others that were previously misannotated. By providing a means to directly interrogate sites of spliceosome assembly and catalysis genome-wide, spliceosome profiling promises to transform our understanding of RNA processing in the nucleus, much as ribosome profiling has transformed our understanding mRNA translation in the cytoplasm.
dc.language.isoen_US
dc.relation<p><a href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=pubmed&cmd=Retrieve&list_uids=29727662&dopt=Abstract">Link to Article in PubMed</a></p>
dc.relation.urlhttps://doi.org/10.1016/j.cell.2018.03.062
dc.subjectBiochemistry, Biophysics, and Structural Biology
dc.subjectBioinformatics
dc.subjectComputational Biology
dc.titleTranscriptome-wide Interrogation of the Functional Intronome by Spliceosome Profiling
dc.typeJournal Article
dc.source.journaltitleCell
dc.source.volume173
dc.source.issue4
dc.identifier.legacycoverpagehttps://escholarship.umassmed.edu/bioinformatics_pubs/127
dc.identifier.contextkey12289637
html.description.abstract<p>Full understanding of eukaryotic transcriptomes and how they respond to different conditions requires deep knowledge of all sites of intron excision. Although RNA sequencing (RNA-seq) provides much of this information, the low abundance of many spliced transcripts (often due to their rapid cytoplasmic decay) limits the ability of RNA-seq alone to reveal the full repertoire of spliced species. Here, we present "spliceosome profiling," a strategy based on deep sequencing of RNAs co-purifying with late-stage spliceosomes. Spliceosome profiling allows for unambiguous mapping of intron ends to single-nucleotide resolution and branchpoint identification at unprecedented depths. Our data reveal hundreds of new introns in S. pombe and numerous others that were previously misannotated. By providing a means to directly interrogate sites of spliceosome assembly and catalysis genome-wide, spliceosome profiling promises to transform our understanding of RNA processing in the nucleus, much as ribosome profiling has transformed our understanding mRNA translation in the cytoplasm.</p>
dc.identifier.submissionpathbioinformatics_pubs/127
dc.contributor.departmentProgram in Systems Biology
dc.contributor.departmentProgram in Bioinformatics and Integrative Biology
dc.contributor.departmentDepartment of Biochemistry and Molecular Pharmacology
dc.contributor.departmentRNA Therapeutics Institute
dc.source.pages1031-1044.e13


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