{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,21]],"date-time":"2025-10-21T15:31:37Z","timestamp":1761060697424},"reference-count":22,"publisher":"Springer Science and Business Media LLC","issue":"S14","license":[{"start":{"date-parts":[[2018,11,1]],"date-time":"2018-11-01T00:00:00Z","timestamp":1541030400000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["BMC Bioinformatics"],"published-print":{"date-parts":[[2018,11]]},"DOI":"10.1186\/s12859-018-2378-9","type":"journal-article","created":{"date-parts":[[2018,11,16]],"date-time":"2018-11-16T15:30:51Z","timestamp":1542382251000},"update-policy":"http:\/\/dx.doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":8,"title":["The predictive performance of short-linear motif features in the prediction of calmodulin-binding proteins"],"prefix":"10.1186","volume":"19","author":[{"given":"Yixun","family":"Li","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Mina","family":"Maleki","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Nicholas J.","family":"Carruthers","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Paul M.","family":"Stemmer","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Alioune","family":"Ngom","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Luis","family":"Rueda","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2018,11,20]]},"reference":[{"issue":"8","key":"2378_CR1","doi-asserted-by":"publisher","first-page":"906","DOI":"10.1139\/o83-115","volume":"61","author":"FC Stevens","year":"1983","unstructured":"Stevens FC. Calmodulin: an introduction. Can J Biochem Cell Biol. 1983; 61(8):906\u2013910.","journal-title":"Can J Biochem Cell Biol"},{"key":"2378_CR2","doi-asserted-by":"publisher","first-page":"8","DOI":"10.1023\/A:1011320027914","volume":"1","author":"KL Yap","year":"2000","unstructured":"Yap KL, Kim J, Truong K, Sherman M, Yuan T, Ikura M. Calmodulin Target Database. J Struct Funct Genom. 2000; 1:8\u201314.","journal-title":"J Struct Funct Genom"},{"key":"2378_CR3","doi-asserted-by":"publisher","first-page":"105","DOI":"10.1085\/jgp.201311140","volume":"144","author":"K Mruk","year":"2014","unstructured":"Mruk K, Farley BM, Ritacco AW, Kobertz WR. Calmodulation meta-analysis: Predicting calmodulin binding via canonical motif clustering. J Gen Physiol. 2014; 144:105\u201314.","journal-title":"J Gen Physiol"},{"key":"2378_CR4","doi-asserted-by":"publisher","first-page":"452","DOI":"10.1186\/1471-2164-9-452","volume":"9","author":"S Ren","year":"2008","unstructured":"Ren S, Yang G, He Y, Wang Y, Li Y, Chen Z. The conservation pattern of short linear motifs is highly correlated with the function of interacting protein domains. BMC Genomics. 2008; 9:452.","journal-title":"BMC Genomics"},{"key":"2378_CR5","doi-asserted-by":"publisher","first-page":"104","DOI":"10.1186\/1471-2105-13-104","volume":"13","author":"NJ Haslam","year":"2012","unstructured":"Haslam NJ, Niall J, Shields DC. Profile-based short linear protein motif discovery. BMC Bioinformatics. 2012; 13:104.","journal-title":"BMC Bioinformatics"},{"key":"2378_CR6","volume-title":"IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB 2014)","author":"L Rueda","year":"2014","unstructured":"Rueda L, Pandit M. A Model Based on Minimotifs for Classification of Stable Protein-protein Complexes. In: IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB 2014). Hawaii: IEEE Press: 2014. p. 1\u20136."},{"issue":"1","key":"2378_CR7","doi-asserted-by":"publisher","first-page":"163","DOI":"10.1186\/s12859-017-1570-7","volume":"18","author":"A Becerra","year":"2017","unstructured":"Becerra A, Bucheli V, Moreno P. Prediction of virus-host protein-protein interactions mediated by short linear motifs. BMC Bioinformatics. 2017; 18(1):163.","journal-title":"BMC Bioinformatics"},{"issue":"5","key":"2378_CR8","doi-asserted-by":"publisher","first-page":"c0155911","DOI":"10.1371\/journal.pone.0155911","volume":"11","author":"D Sarkar","year":"2016","unstructured":"Sarkar D, Patra P, Ghosh A, Saha S. Computational Framework for Prediction of Peptide Sequences That May Mediate Multiple Protein Interactions in Cancer-Associated Hub Proteins. PLoS ONE. 2016; 11(5):c0155911.","journal-title":"PLoS ONE"},{"key":"2378_CR9","doi-asserted-by":"publisher","first-page":"W534","DOI":"10.1093\/nar\/gkq440","volume":"38","author":"NE Davey","year":"2010","unstructured":"Davey NE, Haslam NJ, Shields DC, Edwards RJ. SLiMFinder: a web server to find novel, significantly over-represented, short protein motifs. Nucleic Acids Res. 2010; 38:W534\u20139.","journal-title":"Nucleic Acids Res"},{"issue":"2","key":"2378_CR10","doi-asserted-by":"publisher","first-page":"W56","DOI":"10.1093\/nar\/gkr402","volume":"39","author":"NE Davey","year":"2011","unstructured":"Davey NE, Haslam NJ, Shields DC, Edwards RJ. SLiMSearch 2.0: biological context for short linear motifs in proteins. Nucleic Acids Res. 2011; 39(2):W56\u2013W60.","journal-title":"Nucleic Acids Res"},{"key":"2378_CR11","doi-asserted-by":"publisher","first-page":"D252","DOI":"10.1093\/nar\/gkr1189","volume":"40","author":"T Mi","year":"2012","unstructured":"Mi T, Merlin JC, Deverasetty S, Gryk MR, Bill TJ, Brooks AW. Minimotif Miner 3.0: database expansion and significantly improved reduction of false-positive predictions from consensus sequences. Nucleic Acids Res. 2012; 40:D252\u2013D260.","journal-title":"Nucleic Acids Res"},{"key":"2378_CR12","first-page":"21","volume":"3","author":"TL Bailey","year":"1995","unstructured":"Bailey TL, Elkan CJ. The value of prior knowledge in discovering motifs with MEME. ISMB. 1995; 3:21\u201329.","journal-title":"ISMB"},{"issue":"Web Server Issu","key":"2378_CR13","doi-asserted-by":"publisher","first-page":"W369","DOI":"10.1093\/nar\/gkl198","volume":"34","author":"TL Bailey","year":"2006","unstructured":"Bailey TL, Williams N, Misleh C, Li W. MEME: discovering and analyzing DNA and protein sequence motifs. Nucleic Acids Res. 2006; 34(Web Server Issue):W369\u2013W373.","journal-title":"Nucleic Acids Res"},{"key":"2378_CR14","doi-asserted-by":"publisher","first-page":"107","DOI":"10.1007\/978-3-319-56154-7_11","volume-title":"Bioinformatics and Biomedical Engineering","author":"Yixun Li","year":"2017","unstructured":"Li Y, Maleki M, Carruthers NJ, Rueda L, Stemmer PM, Ngom A. Prediction of Calmodulin Binding Proteins Using Short Linear Motifs. In: Proceedings of the 5th International Work-conference on Bioinformatics and Biomedical Engineering (IWBBIO).2017. p. 107\u201317."},{"key":"2378_CR15","doi-asserted-by":"publisher","first-page":"D204","DOI":"10.1093\/nar\/gku989","volume":"43","author":"Consortium TU","year":"2015","unstructured":"Consortium TU. UniProt: a hub for protein information. Nucleic Acids Res. 2015; 43:D204\u2013D212.","journal-title":"Nucleic Acids Res"},{"key":"2378_CR16","volume-title":"Pattern Classification","author":"R Duda","year":"2000","unstructured":"Duda R, Hart P, Stork D. Pattern Classification, 2nd edition. New York: Wiley; 2000."},{"key":"2378_CR17","doi-asserted-by":"publisher","first-page":"10","DOI":"10.1145\/1656274.1656278","volume":"11","author":"M Hall","year":"2009","unstructured":"Hall M, Frank E, Holmes G, Pfahringer B, Reutemann P, Witten IH. The WEKA Data Mining Software: An Update. SIGKDD Explor. 2009; 11:10\u201318.","journal-title":"SIGKDD Explor"},{"issue":"4","key":"2378_CR18","first-page":"1925","volume":"2","author":"TC Sharma","year":"2016","unstructured":"Sharma TC, Jain M. WEKA approach for comparative study of classification algorithm. Int J Adv Res Comput Commun Eng. 2016; 2(4):1925\u201331.","journal-title":"Int J Adv Res Comput Commun Eng"},{"key":"2378_CR19","unstructured":"Theodoridis S, Koutroumbas K. Pattern Recognition. Elsevier Academic Press; 2006."},{"issue":"9","key":"2378_CR20","doi-asserted-by":"publisher","first-page":"2507","DOI":"10.1093\/bioinformatics\/btm344","volume":"23","author":"Y Saeys","year":"2007","unstructured":"Saeys Y, Inza I, Larraaga P. A review of feature selection techniques in bioinformatics. Bioinformatics. 2007; 23(9):2507\u201317.","journal-title":"Bioinformatics"},{"key":"2378_CR21","doi-asserted-by":"publisher","first-page":"119","DOI":"10.2298\/YJOR1101119N","volume":"21","author":"J Novakovic","year":"2011","unstructured":"Novakovic J, Strbac P, Bulatovic D. Toward optimal feature selection using ranking methods and classification algorithms. Yugoslav J Oper Res. 2011; 21:119\u201335.","journal-title":"Yugoslav J Oper Res"},{"key":"2378_CR22","unstructured":"Abagyan R, Orry A, Raush E, Totrov M. ICM-Browser & ActiveICM Guide v.3.8; 2017. \n                    http:\/\/www.molsoft.com\/browser\/index.html\n                    \n                  ."}],"container-title":["BMC Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/s12859-018-2378-9.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/article\/10.1186\/s12859-018-2378-9\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/s12859-018-2378-9.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2019,11,20]],"date-time":"2019-11-20T00:07:56Z","timestamp":1574208476000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcbioinformatics.biomedcentral.com\/articles\/10.1186\/s12859-018-2378-9"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2018,11]]},"references-count":22,"journal-issue":{"issue":"S14","published-print":{"date-parts":[[2018,11]]}},"alternative-id":["2378"],"URL":"https:\/\/doi.org\/10.1186\/s12859-018-2378-9","relation":{},"ISSN":["1471-2105"],"issn-type":[{"value":"1471-2105","type":"electronic"}],"subject":[],"published":{"date-parts":[[2018,11]]},"assertion":[{"value":"20 November 2018","order":1,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"Not applicable.","order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Consent for publication"}},{"value":"The authors declare that there are no competing interests.","order":2,"name":"Ethics","group":{"name":"EthicsHeading","label":"Competing interests"}},{"value":"Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.","order":3,"name":"Ethics","group":{"name":"EthicsHeading","label":"Publisher\u2019s Note"}}],"article-number":"410"}}