{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,3,25]],"date-time":"2025-03-25T14:46:30Z","timestamp":1742913990047,"version":"3.40.3"},"publisher-location":"Cham","reference-count":28,"publisher":"Springer International Publishing","isbn-type":[{"type":"print","value":"9783319443317"},{"type":"electronic","value":"9783319443324"}],"license":[{"start":{"date-parts":[[2016,1,1]],"date-time":"2016-01-01T00:00:00Z","timestamp":1451606400000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/www.springer.com\/tdm"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2016]]},"DOI":"10.1007\/978-3-319-44332-4_9","type":"book-chapter","created":{"date-parts":[[2016,7,30]],"date-time":"2016-07-30T07:02:39Z","timestamp":1469862159000},"page":"114-128","update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":9,"title":["Alignment Free Dissimilarities for Nucleosome Classification"],"prefix":"10.1007","author":[{"given":"Giosu\u00e9","family":"Lo Bosco","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2016,7,31]]},"reference":[{"key":"9_CR1","doi-asserted-by":"publisher","first-page":"285","DOI":"10.1016\/S0092-8674(00)81958-3","volume":"98","author":"RD Kornberg","year":"1999","unstructured":"Kornberg, R.D., Lorch, Y.: Twenty-five years of the nucleosome, fundamental particle of the eukaryote chromosome. Cell 98, 285\u2013294 (1999)","journal-title":"Cell"},{"issue":"5532","key":"9_CR2","doi-asserted-by":"publisher","first-page":"1074","DOI":"10.1126\/science.1063127","volume":"293","author":"T Jenuwein","year":"2001","unstructured":"Jenuwein, T., Allis, C.: Translating the histone code. Science 293(5532), 1074\u20131080 (2001)","journal-title":"Science"},{"issue":"5734","key":"9_CR3","doi-asserted-by":"publisher","first-page":"626","DOI":"10.1126\/science.1112178","volume":"309","author":"GC Yuan","year":"2005","unstructured":"Yuan, G.C., Liu, Y.J., Dion, M.F., Slack, M.D., Wu, L.F., Altschuler, S.J., Rando, O.J.: Genome-scale identification of nucleosome positions in S. cerevisiae. Science 309(5734), 626\u2013630 (2005)","journal-title":"Science"},{"issue":"2","key":"9_CR4","doi-asserted-by":"publisher","first-page":"140","DOI":"10.1016\/j.ygeno.2008.09.012","volume":"93","author":"V Ges\u00f9 Di","year":"2009","unstructured":"Di Ges\u00f9, V., Lo Bosco, G., Pinello, L., Yuan, G.C., Corona, D.F.V.: A multi-layer method to study genome-scale positions of nucleosomes. Genomics 93(2), 140\u2013145 (2009)","journal-title":"Genomics"},{"issue":"11","key":"9_CR5","doi-asserted-by":"publisher","first-page":"1522","DOI":"10.1093\/bioinformatics\/btu083","volume":"30","author":"S-H Guo","year":"2014","unstructured":"Guo, S.-H., Deng, E.-Z., Xu, L.-Q., Ding, H., Lin, H., Chen, W., Chou, K.-C.: iNuc-PseKNC: a sequence-based predictor for predicting nucleosome positioning in genomes with pseudo k-tuple nucleotide composition. Bioinformatics 30(11), 1522\u20131529 (2014)","journal-title":"Bioinformatics"},{"issue":"4","key":"9_CR6","doi-asserted-by":"publisher","first-page":"693","DOI":"10.1016\/j.cell.2007.02.005","volume":"128","author":"T Kouzarides","year":"2007","unstructured":"Kouzarides, T.: Chromatin modifications and their function. Cell 128(4), 693\u2013705 (2007)","journal-title":"Cell"},{"issue":"3","key":"9_CR7","doi-asserted-by":"publisher","first-page":"267","DOI":"10.1038\/nsmb.2506","volume":"20","author":"K Struhl","year":"2013","unstructured":"Struhl, K., Segal, E.: Determinants of nucleosome positioning. Nat. Struct. Mol. Biol. 20(3), 267\u2013273 (2013)","journal-title":"Nat. Struct. Mol. Biol."},{"key":"9_CR8","doi-asserted-by":"publisher","first-page":"443","DOI":"10.1016\/0022-2836(70)90057-4","volume":"48","author":"SB Needleman","year":"1970","unstructured":"Needleman, S.B., Wunsch, C.D.: A general method applicable to the search for similarities in the amino acid sequence of two proteins. J. Mol. Biol. 48, 443\u2013453 (1970)","journal-title":"J. Mol. Biol."},{"key":"9_CR9","doi-asserted-by":"publisher","first-page":"195","DOI":"10.1016\/0022-2836(81)90087-5","volume":"147","author":"TF Smith","year":"1981","unstructured":"Smith, T.F., Waterman, M.S.: Identification of common molecular subsequences. J. Mol. Biol. 147, 195\u2013197 (1981)","journal-title":"J. Mol. Biol."},{"key":"9_CR10","doi-asserted-by":"publisher","first-page":"705","DOI":"10.1016\/0022-2836(82)90398-9","volume":"162","author":"O Gotoh","year":"1982","unstructured":"Gotoh, O.: An improved algorithm for matching biological sequences. J. Mol. Biol. 162, 705\u2013708 (1982)","journal-title":"J. Mol. Biol."},{"issue":"3","key":"9_CR11","doi-asserted-by":"publisher","first-page":"403","DOI":"10.1016\/S0022-2836(05)80360-2","volume":"25","author":"S Altschul","year":"1990","unstructured":"Altschul, S., Gish, W., Miller, W., et al.: Basic local alignment search tool. J. Mol. Biol. 25(3), 403\u2013410 (1990)","journal-title":"J. Mol. Biol."},{"issue":"4693","key":"9_CR12","doi-asserted-by":"publisher","first-page":"1435","DOI":"10.1126\/science.2983426","volume":"227","author":"D Lipman","year":"1985","unstructured":"Lipman, D., Pearson, W.: Rapid and sensitive protein similarity searches. Science 227(4693), 1435\u20131441 (1985)","journal-title":"Science"},{"issue":"3","key":"9_CR13","doi-asserted-by":"publisher","first-page":"297","DOI":"10.1002\/wsbm.1165","volume":"4","author":"GC Yuan","year":"2012","unstructured":"Yuan, G.C.: Linking genome to epigenome. Wiley Interdisc. Rev. Syst. Biol. Med. 4(3), 297\u2013309 (2012)","journal-title":"Wiley Interdisc. Rev. Syst. Biol. Med."},{"issue":"4","key":"9_CR14","doi-asserted-by":"publisher","first-page":"513","DOI":"10.1093\/bioinformatics\/btg005","volume":"19","author":"S Vinga","year":"2003","unstructured":"Vinga, S., Almeida, J.: Alignment-free sequence comparisona review. Bioinformatics 19(4), 513\u2013523 (2003)","journal-title":"Bioinformatics"},{"issue":"3","key":"9_CR15","doi-asserted-by":"publisher","first-page":"419","DOI":"10.1093\/bib\/bbt078","volume":"15","author":"L Pinello","year":"2013","unstructured":"Pinello, L., Lo Bosco, G., Yuan, G.-C.: Applications of alignment-free methods in epigenomics. Briefings Bioinf. 15(3), 419\u2013430 (2013)","journal-title":"Briefings Bioinf."},{"key":"9_CR16","doi-asserted-by":"publisher","DOI":"10.1017\/CBO9780511790492","volume-title":"Biological Sequence Analysis","author":"R Durbin","year":"1998","unstructured":"Durbin, R., Eddy, S.R., Krogh, A., Mitchison, G.: Biological Sequence Analysis. Cambridge University Press, Cambridge (1998)"},{"key":"9_CR17","series-title":"Lecture Notes in Computer Science","doi-asserted-by":"crossref","first-page":"49","DOI":"10.1007\/978-3-319-09042-9_4","volume-title":"Computational Intelligence Methods for Bioinformatics and Biostatistics","author":"M Rosa La","year":"2014","unstructured":"La Rosa, M., Fiannaca, A., Rizzo, R., Urso, A.: Genomic sequence classification using probabilistic topic modeling. In: Formenti, E., Tagliaferri, R., Wit, E. (eds.) CIBB 2013. LNCS, vol. 8452, pp. 49\u201361. Springer, Heidelberg (2014)"},{"key":"9_CR18","doi-asserted-by":"crossref","unstructured":"La Rosa, M., Fiannaca, A., Rizzo, R., Urso, A.: Probabilistic topic modeling for the analysis and classification of genomic sequences. BMC Bioinformatics 16(S6) (2015)","DOI":"10.1186\/1471-2105-16-S6-S2"},{"issue":"3","key":"9_CR19","doi-asserted-by":"publisher","first-page":"173","DOI":"10.1016\/j.artmed.2015.06.002","volume":"64","author":"M Rosa","year":"2015","unstructured":"Rosa, M., Fiannaca, A., Rizzo, R., Urso, A.: A k-mer-based barcode DNA classification methodology based on spectral representation and a neural gas network. Artif. Intell. Med. 64(3), 173\u2013184 (2015)","journal-title":"Artif. Intell. Med."},{"key":"9_CR20","series-title":"Lecture Notes in Computer Science","doi-asserted-by":"publisher","first-page":"142","DOI":"10.1007\/978-3-319-24462-4_13","volume-title":"Computational Intelligence Methods for Bioinformatics and Biostatistics","author":"R Rizzo","year":"2015","unstructured":"Rizzo, R., Fiannaca, A., Rosa, M., Urso, A.: The general regression neural network to classify barcode and mini-barcode DNA. CIBB 2014. LNCS, vol. 8623, pp. 142\u2013155. Springer, Heidelberg (2015)"},{"issue":"1","key":"9_CR21","doi-asserted-by":"publisher","first-page":"e13","DOI":"10.1371\/journal.pcbi.0040013","volume":"4","author":"GC Yuan","year":"2008","unstructured":"Yuan, G.C., Liu, J.S.: Genomic sequence is highly predictive of local nucleosome depletion. PLoS Comput. Biol. 4(1), e13 (2008)","journal-title":"PLoS Comput. Biol."},{"issue":"18","key":"9_CR22","doi-asserted-by":"publisher","first-page":"2939","DOI":"10.1093\/bioinformatics\/btv295","volume":"31","author":"R Giancarlo","year":"2015","unstructured":"Giancarlo, R., Rombo, S.E., Utro, F.: Epigenomic k-mer dictionaries: shedding light on how sequence composition influences in vivo nucleosome positioning. Bioinformatics 31(18), 2939\u20132946 (2015)","journal-title":"Bioinformatics"},{"key":"9_CR23","series-title":"Lecture Notes in Computer Science","doi-asserted-by":"publisher","first-page":"99","DOI":"10.1007\/978-3-319-24462-4_9","volume-title":"Computational Intelligence Methods for Bioinformatics and Biostatistics","author":"G Lo Bosco","year":"2015","unstructured":"Lo Bosco, G., Pinello, L.: A new feature selection methodology for k-mers representation of DNA sequences. In: Di Serio, C., Li\u00f2, P., Nonis, A., Tagliaferri, R. (eds.) CIBB 2014. LNCS, vol. 8623, pp. 99\u2013108. Springer, Heidelberg (2015)"},{"issue":"12","key":"9_CR24","doi-asserted-by":"publisher","first-page":"3250","DOI":"10.1109\/TIT.2004.838101","volume":"50","author":"M Li","year":"2004","unstructured":"Li, M., Chen, X., Li, X., Ma, B., Vitanyi, P.M.B.: The similarity metric. IEEE Trans. Inf. Theor. 50(12), 3250\u20133264 (2004)","journal-title":"IEEE Trans. Inf. Theor."},{"key":"9_CR25","doi-asserted-by":"crossref","unstructured":"Ferragina, P., Giancarlo, R., Greco, V., et al.: Compression based classification of biological sequences and structures. BMC Bioinf. 8(252) (2007)","DOI":"10.1186\/1471-2105-8-252"},{"key":"9_CR26","series-title":"Lecture Notes in Computer Science","doi-asserted-by":"publisher","first-page":"105","DOI":"10.1007\/978-3-642-38342-7_10","volume-title":"Computational Intelligence Methods for Bioinformatics and Biostatistics","author":"M Rosa La","year":"2013","unstructured":"La Rosa, M., Fiannaca, A., Rizzo, R., Urso, A.: A study of compression\u2013based methods for the analysis of barcode sequences. In: Peterson, L.E., Masulli, F., Russo, G. (eds.) CIBB 2012. LNCS, vol. 7845, pp. 105\u2013116. Springer, Heidelberg (2013)"},{"issue":"6","key":"9_CR27","doi-asserted-by":"publisher","first-page":"835","DOI":"10.1093\/bioinformatics\/btv679","volume":"32","author":"F Utro","year":"2016","unstructured":"Utro, F., Di Benedetto, V., Corona, D.F.V., Giancarlo, R.: The intrinsic combinatorial organization and information theoretic content of a sequence are correlated to the DNA encoded nucleosome organization of eukaryotic genomes. Bioinformatics 32(6), 835\u2013842 (2016)","journal-title":"Bioinformatics"},{"key":"9_CR28","unstructured":"http:\/\/lin.uestc.edu.cn\/server\/iNucPseKNC\/dataset"}],"container-title":["Lecture Notes in Computer Science","Computational Intelligence Methods for Bioinformatics and Biostatistics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1007\/978-3-319-44332-4_9","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2019,5,20]],"date-time":"2019-05-20T00:51:11Z","timestamp":1558313471000},"score":1,"resource":{"primary":{"URL":"http:\/\/link.springer.com\/10.1007\/978-3-319-44332-4_9"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2016]]},"ISBN":["9783319443317","9783319443324"],"references-count":28,"URL":"https:\/\/doi.org\/10.1007\/978-3-319-44332-4_9","relation":{},"ISSN":["0302-9743","1611-3349"],"issn-type":[{"type":"print","value":"0302-9743"},{"type":"electronic","value":"1611-3349"}],"subject":[],"published":{"date-parts":[[2016]]},"assertion":[{"value":"31 July 2016","order":1,"name":"first_online","label":"First Online","group":{"name":"ChapterHistory","label":"Chapter History"}},{"value":"CIBB","order":1,"name":"conference_acronym","label":"Conference Acronym","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"International Meeting on Computational Intelligence Methods for Bioinformatics and Biostatistics","order":2,"name":"conference_name","label":"Conference Name","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"Naples","order":3,"name":"conference_city","label":"Conference City","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"Italy","order":4,"name":"conference_country","label":"Conference Country","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"2015","order":5,"name":"conference_year","label":"Conference Year","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"10 September 2015","order":7,"name":"conference_start_date","label":"Conference Start Date","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"12 September 2015","order":8,"name":"conference_end_date","label":"Conference End Date","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"12","order":9,"name":"conference_number","label":"Conference Number","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"cibb2015","order":10,"name":"conference_id","label":"Conference ID","group":{"name":"ConferenceInfo","label":"Conference Information"}}]}}