{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,26]],"date-time":"2025-10-26T22:47:05Z","timestamp":1761518825732},"publisher-location":"Berlin, Heidelberg","reference-count":14,"publisher":"Springer Berlin Heidelberg","isbn-type":[{"type":"print","value":"9783540341413"},{"type":"electronic","value":"9783540341420"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2006]]},"DOI":"10.1007\/11752578_134","type":"book-chapter","created":{"date-parts":[[2006,6,9]],"date-time":"2006-06-09T03:44:36Z","timestamp":1149824676000},"page":"1106-1113","source":"Crossref","is-referenced-by-count":1,"title":["Introducing Dependencies into Alignment Analysis and Its Use for Local Structure Prediction in Proteins"],"prefix":"10.1007","author":[{"given":"Szymon","family":"Nowakowski","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Krzysztof","family":"Fidelis","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jerzy","family":"Tiuryn","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","reference":[{"key":"134_CR1","doi-asserted-by":"crossref","unstructured":"Agarwal, P., Bafna, V.: Detecting Non-adjoining Correlations with Signals in DNA. In: RECOMB 1998, pp. 2\u20138 (1998)","DOI":"10.1145\/279069.279076"},{"key":"134_CR2","doi-asserted-by":"publisher","first-page":"436","DOI":"10.1002\/prot.10546","volume":"53","author":"P. Aloy","year":"2003","unstructured":"Aloy, P., Stark, A., Hadley, C., Russell, R.B.: Predictions Without Templates: New Folds, Secondary Structure, and Contacts in CASP5. Proteins: Struct. Funct. Genet.\u00a053, 436\u2013456 (2003)","journal-title":"Proteins: Struct. Funct. Genet."},{"key":"134_CR3","doi-asserted-by":"publisher","first-page":"555","DOI":"10.1016\/0022-2836(91)90193-A","volume":"219","author":"S.F. Altschul","year":"1991","unstructured":"Altschul, S.F.: Amino Acid Substitution Matrices from an Information Theoretic Perspective. JMB\u00a0219, 555\u2013565 (1991)","journal-title":"JMB"},{"key":"134_CR4","doi-asserted-by":"crossref","unstructured":"Barash, Y., Elidan, G., Friedman, N., Kaplan, T.: Modeling Dependencies in Protein-DNA Binding Sites. In: RECOMB 2003, pp. 28\u201337 (2003)","DOI":"10.1145\/640075.640079"},{"key":"134_CR5","doi-asserted-by":"publisher","first-page":"254","DOI":"10.1093\/nar\/28.1.254","volume":"28","author":"S.E. Brenner","year":"2000","unstructured":"Brenner, S.E., Koehl, P., Levitt, M.: The ASTRAL Compendium for Sequence and Structure Analysis. Nucleic Acids Research\u00a028, 254\u2013256 (2000)","journal-title":"Nucleic Acids Research"},{"key":"134_CR6","first-page":"47","volume-title":"ISMB 1993","author":"M.P. Brown","year":"1993","unstructured":"Brown, M.P., Hughey, R., Krogh, A., Mian, I.S., Sj\u00f6lander, K., Haussler, D.: Using Dirichlet Mixture Priors to Derive Hidden Markov Models for Protein Families. In: Hunter, L., Searls, D., Shavlik, J. (eds.) ISMB 1993, pp. 47\u201355. AAAI\/MIT Press, Menlo Park (1993)"},{"key":"134_CR7","doi-asserted-by":"publisher","first-page":"1255","DOI":"10.1093\/nar\/30.5.1255","volume":"30","author":"M.L. Bulyk","year":"2002","unstructured":"Bulyk, M.L., Johnson, P.L., Church, G.M.: Nucleotides of Transcription Factor Binding Sites Exert Interdependent Effects On the Binding Affinities of Transcription Factors. Nuc. Acids Res.\u00a030, 1255\u20131261 (2002)","journal-title":"Nuc. Acids Res."},{"key":"134_CR8","doi-asserted-by":"publisher","DOI":"10.1017\/CBO9780511790492","volume-title":"Biological Sequence Analysis","author":"R. Durbin","year":"1998","unstructured":"Durbin, R., Eddy, S., Krogh, A., Mitchison, G.: Biological Sequence Analysis. Cambridge University Press, Cambridge (1998)"},{"key":"134_CR9","doi-asserted-by":"publisher","first-page":"81","DOI":"10.1093\/bioinformatics\/btg1009","volume":"19","author":"R.H. Hvidsten","year":"2003","unstructured":"Hvidsten, R.H., Kryshtafovych, A., Komorowski, J., Fidelis, K.: A Novel Approach to Fold Recognition Using Sequence-Derived Properties From Sets of Structurally Similar Local Fragments of Proteins. Bioinformatics\u00a019, 81\u201391 (2003)","journal-title":"Bioinformatics"},{"key":"134_CR10","unstructured":"Karplus, K.: Regularizers for Estimating Distributions of Amino Acids from Small Samples. Technical Report UCSC-CRL-95-11, University of California, Santa Cruz, CA, USA (1995), ftp:\/\/ftp.cse.ucsc.edu\/pub\/tr\/ucsc-crl-95-11.ps.Z"},{"key":"134_CR11","doi-asserted-by":"crossref","unstructured":"Liu, X., Brutlag, D.L., Liu, J.S.: Bioprospector: Discovering Conserved DNA Motifs in Upstream Regulatory Regions of Co-expressed Genes. In: PSB 2001 (2001)","DOI":"10.1142\/9789814447362_0014"},{"key":"134_CR12","first-page":"327","volume":"12","author":"K. Sj\u00f6lander","year":"1996","unstructured":"Sj\u00f6lander, K., Karplus, K., Brown, M., Hughey, R., Krogh, A., Mian, I.S., Haussler, D.: Dirichlet Mixtures: a Method for Improved Detection of Weak but Significant Protein Sequence Homology. Computer Applications in Biosciences\u00a012, 327\u2013345 (1996)","journal-title":"Computer Applications in Biosciences"},{"key":"134_CR13","doi-asserted-by":"publisher","first-page":"118","DOI":"10.1073\/pnas.87.1.118","volume":"87","author":"R.F. Smith","year":"1990","unstructured":"Smith, R.F., Smith, T.F.: Automatic Generation of Primary Sequence Patterns from Sets of Related Protein Sequences. PNAS\u00a087, 118\u2013122 (1990)","journal-title":"PNAS"},{"key":"134_CR14","doi-asserted-by":"publisher","first-page":"12091","DOI":"10.1073\/pnas.91.25.12091","volume":"91","author":"R.L. Tatusov","year":"1994","unstructured":"Tatusov, R.L., Altschul, S.F., Koonin, E.V.: Detection of Conserved Segments in Proteins: Iterative Scanning of Sequence Databases with Alignment Blocks. PNAS\u00a091, 12091\u201312095 (1994)","journal-title":"PNAS"}],"container-title":["Lecture Notes in Computer Science","Parallel Processing and Applied Mathematics"],"original-title":[],"link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1007\/11752578_134.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2021,4,27]],"date-time":"2021-04-27T07:02:32Z","timestamp":1619506952000},"score":1,"resource":{"primary":{"URL":"http:\/\/link.springer.com\/10.1007\/11752578_134"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2006]]},"ISBN":["9783540341413","9783540341420"],"references-count":14,"URL":"https:\/\/doi.org\/10.1007\/11752578_134","relation":{},"ISSN":["0302-9743","1611-3349"],"issn-type":[{"type":"print","value":"0302-9743"},{"type":"electronic","value":"1611-3349"}],"subject":[],"published":{"date-parts":[[2006]]}}}