{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,7,2]],"date-time":"2025-07-02T18:35:06Z","timestamp":1751481306234},"reference-count":21,"publisher":"Oxford University Press (OUP)","issue":"W1","license":[{"start":{"date-parts":[[2016,10,4]],"date-time":"2016-10-04T00:00:00Z","timestamp":1475539200000},"content-version":"vor","delay-in-days":1214,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/3.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2013,7,1]]},"DOI":"10.1093\/nar\/gkt461","type":"journal-article","created":{"date-parts":[[2013,6,9]],"date-time":"2013-06-09T01:35:42Z","timestamp":1370741742000},"page":"W480-W485","source":"Crossref","is-referenced-by-count":14,"title":["SPARCS: a web server to analyze (un)structured regions in coding RNA sequences"],"prefix":"10.1093","volume":"41","author":[{"given":"Yang","family":"Zhang","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yann","family":"Ponty","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Mathieu","family":"Blanchette","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Eric","family":"L\u00e9cuyer","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"J\u00e9r\u00f4me","family":"Waldisp\u00fchl","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2013,6,8]]},"reference":[{"key":"key\n\t\t\t\t20171013123016_gkt461-B1","doi-asserted-by":"crossref","first-page":"S9","DOI":"10.1186\/1471-2148-7-S1-S9","article-title":"Detecting non-coding selective pressure in coding regions","volume":"7","author":"Chen","year":"2007","journal-title":"BMC Evol. Biol."},{"key":"key\n\t\t\t\t20171013123016_gkt461-B2","doi-asserted-by":"crossref","first-page":"103","DOI":"10.1038\/nature09322","article-title":"Genome-wide measurement of rna secondary structure in yeast","volume":"467","author":"Kertesz","year":"2010","journal-title":"Nature"},{"key":"key\n\t\t\t\t20171013123016_gkt461-B3","doi-asserted-by":"crossref","first-page":"1916","DOI":"10.1101\/gr.108753.110","article-title":"Locating protein-coding sequences under selection for additional, overlapping functions in 29 mammalian genomes","volume":"21","author":"Lin","year":"2011","journal-title":"Genome Res."},{"key":"key\n\t\t\t\t20171013123016_gkt461-B4","doi-asserted-by":"crossref","first-page":"614","DOI":"10.1093\/bioinformatics\/btk014","article-title":"Local RNA base pairing probabilities in large sequences","volume":"22","author":"Bernhart","year":"2006","journal-title":"Bioinformatics"},{"key":"key\n\t\t\t\t20171013123016_gkt461-B5","doi-asserted-by":"crossref","first-page":"14885","DOI":"10.1073\/pnas.0803169105","article-title":"Computational prediction of RNA structural motifs involved in posttranscriptional regulatory processes","volume":"105","author":"Rabani","year":"2008","journal-title":"Proc. Natl Acad. Sci. USA"},{"key":"key\n\t\t\t\t20171013123016_gkt461-B6","doi-asserted-by":"crossref","first-page":"711","DOI":"10.1038\/nature08237","article-title":"Architecture and secondary structure of an entire hiv-1 rna genome","volume":"460","author":"Watts","year":"2009","journal-title":"Nature"},{"key":"key\n\t\t\t\t20171013123016_gkt461-B7","doi-asserted-by":"crossref","first-page":"18","DOI":"10.1038\/nchembio.1131","article-title":"RNA shape analysis in living cells","volume":"9","author":"Spitale","year":"2013","journal-title":"Nat. Chem. Biol."},{"key":"key\n\t\t\t\t20171013123016_gkt461-B8","doi-asserted-by":"crossref","first-page":"4816","DOI":"10.1093\/nar\/27.24.4816","article-title":"No evidence that mRNAs have lower folding free energies than random sequences with the same dinucleotide distribution","volume":"27","author":"Workman","year":"1999","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20171013123016_gkt461-B9","doi-asserted-by":"crossref","first-page":"171","DOI":"10.1016\/0022-2836(83)90002-5","article-title":"Random sequences","volume":"163","author":"Fitch","year":"1983","journal-title":"J. Mol. Biol."},{"key":"key\n\t\t\t\t20171013123016_gkt461-B10","first-page":"526","article-title":"Significance of nucleotide sequence alignments: a method for random sequence permutation that preserves dinucleotide and codon usage","volume":"2","author":"Altschul","year":"1985","journal-title":"Mol. Biol. Evol."},{"key":"key\n\t\t\t\t20171013123016_gkt461-B11","doi-asserted-by":"crossref","first-page":"2042","DOI":"10.1101\/gr.1257503","article-title":"Widespread selection for local RNA secondary structure in coding regions of bacterial genes","volume":"13","author":"Katz","year":"2003","journal-title":"Genome Res."},{"key":"key\n\t\t\t\t20171013123016_gkt461-B12","doi-asserted-by":"crossref","first-page":"2428","DOI":"10.1093\/nar\/gkl287","article-title":"A periodic pattern of mRNA secondary structure created by the genetic code","volume":"34","author":"Shabalina","year":"2006","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20171013123016_gkt461-B13","first-page":"49","article-title":"Multi-dimensional boltzmann sampling of languages","volume-title":"DMTCS Proceedings\u2014AOFA\u201910","author":"Bodini","year":"2010"},{"key":"key\n\t\t\t\t20171013123016_gkt461-B14","doi-asserted-by":"crossref","first-page":"1465","DOI":"10.1089\/cmb.2011.0181","article-title":"An unbiased adaptive sampling algorithm for the exploration of RNA mutational landscapes under evolutionary pressure","volume":"18","author":"Waldisp\u00fchl","year":"2011","journal-title":"J. Comput. Biol."},{"key":"key\n\t\t\t\t20171013123016_gkt461-B15","doi-asserted-by":"crossref","first-page":"281","DOI":"10.1016\/S0001-8708(77)80046-7","article-title":"A unified setting for sequencing, ranking, and selection algorithms for combinatorial objects","volume":"24","author":"Wilf","year":"1977","journal-title":"Adv. Math."},{"key":"key\n\t\t\t\t20171013123016_gkt461-B16","doi-asserted-by":"crossref","first-page":"3527","DOI":"10.1016\/j.tcs.2010.05.010","article-title":"Controlled non uniform random generation of decomposable structures","volume":"411","author":"Denise","year":"2010","journal-title":"Theor. Comput. Sci."},{"key":"key\n\t\t\t\t20171013123016_gkt461-B17","doi-asserted-by":"crossref","first-page":"103","DOI":"10.1002\/(SICI)1098-2418(199701\/03)10:1\/2<103::AID-RSA5>3.0.CO;2-Z","article-title":"Systems of functional equations","volume":"10","author":"Drmota","year":"1997","journal-title":"Random Struct. Algorithms"},{"key":"key\n\t\t\t\t20171013123016_gkt461-B18","doi-asserted-by":"crossref","first-page":"26","DOI":"10.1186\/1748-7188-6-26","article-title":"Viennarna package 2.0","volume":"6","author":"Lorenz","year":"2011","journal-title":"Algorithms Mol. Biol."},{"key":"key\n\t\t\t\t20171013123016_gkt461-B19","doi-asserted-by":"crossref","first-page":"5215","DOI":"10.1093\/nar\/gks181","article-title":"Global or local? predicting secondary structure and accessibility in mRNAs","volume":"40","author":"Lange","year":"2012","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20171013123016_gkt461-B20","doi-asserted-by":"crossref","first-page":"1319","DOI":"10.1016\/S1097-2765(02)00694-9","article-title":"Asymmetric sorting of ash1p in yeast results from inhibition of translation by localization elements in the mRNA","volume":"10","author":"Chartrand","year":"2002","journal-title":"Mol. Cell"},{"key":"key\n\t\t\t\t20171013123016_gkt461-B21","doi-asserted-by":"crossref","first-page":"337","DOI":"10.1016\/S0960-9822(99)80145-6","article-title":"ASH1 mRNA localization in yeast involves multiple secondary structural elements and Ash1 protein translation","volume":"9","author":"Gonzalez","year":"1999","journal-title":"Curr. Biol."}],"container-title":["Nucleic Acids Research"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/nar\/article-pdf\/41\/W1\/W480\/16944176\/gkt461.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2018,4,2]],"date-time":"2018-04-02T14:41:19Z","timestamp":1522680079000},"score":1,"resource":{"primary":{"URL":"http:\/\/academic.oup.com\/nar\/article\/41\/W1\/W480\/1109086\/SPARCS-a-web-server-to-analyze-unstructured"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2013,6,8]]},"references-count":21,"journal-issue":{"issue":"W1","published-online":{"date-parts":[[2013,6,8]]},"published-print":{"date-parts":[[2013,7,1]]}},"URL":"https:\/\/doi.org\/10.1093\/nar\/gkt461","relation":{},"ISSN":["1362-4962","0305-1048"],"issn-type":[{"value":"1362-4962","type":"electronic"},{"value":"0305-1048","type":"print"}],"subject":[],"published-other":{"date-parts":[[2013,7,1]]},"published":{"date-parts":[[2013,6,8]]}}}