{"@context":{"@vocab":"https://cir.nii.ac.jp/schema/1.0/","rdfs":"http://www.w3.org/2000/01/rdf-schema#","dc":"http://purl.org/dc/elements/1.1/","dcterms":"http://purl.org/dc/terms/","foaf":"http://xmlns.com/foaf/0.1/","prism":"http://prismstandard.org/namespaces/basic/2.0/","cinii":"http://ci.nii.ac.jp/ns/1.0/","datacite":"https://schema.datacite.org/meta/kernel-4/","ndl":"http://ndl.go.jp/dcndl/terms/","jpcoar":"https://github.com/JPCOAR/schema/blob/master/2.0/"},"@id":"https://cir.nii.ac.jp/crid/1360574094802829184.json","@type":"Article","productIdentifier":[{"identifier":{"@type":"DOI","@value":"10.1073/pnas.1222534110"}},{"identifier":{"@type":"URI","@value":"https://pnas.org/doi/pdf/10.1073/pnas.1222534110"}}],"dc:title":[{"@value":"Deciphering the rules by which 5′-UTR sequences affect protein expression in yeast"}],"description":[{"type":"abstract","notation":[{"@value":"<jats:title>Significance</jats:title><jats:p>This study quantifies how protein levels are determined by the underlying 5′-UTR sequence of an mRNA. We accurately measured protein abundance in 2,041 5′-UTR sequence variants, differing only in positions −10 to −1. We show that a few nucleotide substitutions can significantly alter protein expression. We also developed a predictive model that explains two-thirds of the expression variation. We provide convincing evidence that key regulatory elements, including AUG sequence context, mRNA secondary structure, and out-of-frame upstream AUGs conjointly modulate protein levels. Our study can aid in synthetic biology applications, by suggesting sequence manipulations for fine-tuning protein expression in a predictable manner.</jats:p>"}]}],"creator":[{"@id":"https://cir.nii.ac.jp/crid/1380576216618350464","@type":"Researcher","foaf:name":[{"@value":"Shlomi Dvir"}],"jpcoar:affiliationName":[{"@value":"Departments of aComputer Science and Applied Mathematics and"},{"@value":"Molecular Cell Biology, Weizmann Institute of Science, Rehovot 76100, Israel; and"}]},{"@id":"https://cir.nii.ac.jp/crid/1380576216618350466","@type":"Researcher","foaf:name":[{"@value":"Lars Velten"}],"jpcoar:affiliationName":[{"@value":"Genome Biology Unit, European Molecular Biology Laboratory (EMBL), Meyerhofstrasse 1, 69117 Heidelberg, Germany"}]},{"@id":"https://cir.nii.ac.jp/crid/1380576216618350469","@type":"Researcher","foaf:name":[{"@value":"Eilon Sharon"}],"jpcoar:affiliationName":[{"@value":"Departments of aComputer Science and Applied Mathematics and"},{"@value":"Molecular Cell Biology, Weizmann Institute of Science, Rehovot 76100, Israel; and"}]},{"@id":"https://cir.nii.ac.jp/crid/1380576216618350470","@type":"Researcher","foaf:name":[{"@value":"Danny Zeevi"}],"jpcoar:affiliationName":[{"@value":"Departments of aComputer Science and Applied Mathematics and"},{"@value":"Molecular Cell Biology, Weizmann Institute of Science, Rehovot 76100, Israel; and"}]},{"@id":"https://cir.nii.ac.jp/crid/1380576216618350468","@type":"Researcher","foaf:name":[{"@value":"Lucas B. Carey"}],"jpcoar:affiliationName":[{"@value":"Departments of aComputer Science and Applied Mathematics and"},{"@value":"Molecular Cell Biology, Weizmann Institute of Science, Rehovot 76100, Israel; and"}]},{"@id":"https://cir.nii.ac.jp/crid/1380576216618350465","@type":"Researcher","foaf:name":[{"@value":"Adina Weinberger"}],"jpcoar:affiliationName":[{"@value":"Departments of aComputer Science and Applied Mathematics and"},{"@value":"Molecular Cell Biology, Weizmann Institute of Science, Rehovot 76100, Israel; and"}]},{"@id":"https://cir.nii.ac.jp/crid/1380576216618350467","@type":"Researcher","foaf:name":[{"@value":"Eran Segal"}],"jpcoar:affiliationName":[{"@value":"Departments of aComputer Science and Applied Mathematics and"},{"@value":"Molecular Cell Biology, Weizmann Institute of Science, Rehovot 76100, Israel; and"}]}],"publication":{"publicationIdentifier":[{"@type":"PISSN","@value":"00278424"},{"@type":"EISSN","@value":"10916490"}],"prism:publicationName":[{"@value":"Proceedings of the National Academy of Sciences"}],"dc:publisher":[{"@value":"Proceedings of the National Academy of Sciences"}],"prism:publicationDate":"2013-07-05","prism:volume":"110","prism:number":"30","prism:startingPage":"E2792"},"reviewed":"false","url":[{"@id":"https://pnas.org/doi/pdf/10.1073/pnas.1222534110"}],"createdAt":"2013-07-06","modifiedAt":"2024-05-13","relatedProduct":[{"@id":"https://cir.nii.ac.jp/crid/1050021218879199104","@type":"Article","resourceType":"学術雑誌論文(journal article)","relationType":["isReferencedBy"],"jpcoar:relatedTitle":[{"@language":"en","@value":"Designing strong inducible synthetic promoters in yeasts"}]},{"@id":"https://cir.nii.ac.jp/crid/1360002218362006912","@type":"Article","resourceType":"学術雑誌論文(journal article)","relationType":["isReferencedBy"],"jpcoar:relatedTitle":[{"@value":"Identification of Arabidopsis genic and non‐genic promoters by paired‐end sequencing of <scp>TSS</scp> tags"}]},{"@id":"https://cir.nii.ac.jp/crid/1390845712973619712","@type":"Article","relationType":["isReferencedBy"],"jpcoar:relatedTitle":[{"@language":"en","@value":"R-STEINER: Generation Method of 5'UTR for Increasing the Amount of Translated Proteins"}]}],"dataSourceIdentifier":[{"@type":"CROSSREF","@value":"10.1073/pnas.1222534110"},{"@type":"CROSSREF","@value":"10.1111/tpj.13511_references_DOI_DLIM1VYVoN7Jivul4GIpAIdwg10"},{"@type":"CROSSREF","@value":"10.1038/s41467-024-54865-z_references_DOI_DLIM1VYVoN7Jivul4GIpAIdwg10"},{"@type":"CROSSREF","@value":"10.2197/ipsjtbio.11.14_references_DOI_DLIM1VYVoN7Jivul4GIpAIdwg10"}]}