{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,27]],"date-time":"2025-10-27T04:51:36Z","timestamp":1761540696281},"publisher-location":"Berlin, Heidelberg","reference-count":21,"publisher":"Springer Berlin Heidelberg","isbn-type":[{"type":"print","value":"9783540332954"},{"type":"electronic","value":"9783540332961"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2006]]},"DOI":"10.1007\/11732990_31","type":"book-chapter","created":{"date-parts":[[2006,3,28]],"date-time":"2006-03-28T12:59:27Z","timestamp":1143550767000},"page":"363-378","source":"Crossref","is-referenced-by-count":4,"title":["A New Approach to Protein Identification"],"prefix":"10.1007","author":[{"given":"Nuno","family":"Bandeira","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Dekel","family":"Tsur","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Ari","family":"Frank","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Pavel","family":"Pevzner","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","reference":[{"key":"31_CR1","doi-asserted-by":"publisher","first-page":"976","DOI":"10.1016\/1044-0305(94)80016-2","volume":"5","author":"J. Eng","year":"1994","unstructured":"Eng, J., McCormack, A., Yates, J.: An approach to correlate tandem mass-spectral data of peptides with amino acid sequences in a protein database. Journal Of The American Society For Mass Spectrometry\u00a05, 976\u2013989 (1994)","journal-title":"Journal Of The American Society For Mass Spectrometry"},{"key":"31_CR2","doi-asserted-by":"publisher","first-page":"3551","DOI":"10.1002\/(SICI)1522-2683(19991201)20:18<3551::AID-ELPS3551>3.0.CO;2-2","volume":"20","author":"D. Perkins","year":"1999","unstructured":"Perkins, D., Pappin, D., Creasy, D., Cottrell, J.: Probability-based protein identification by searching sequence databases using mass spectrometry data. Electrophoresis\u00a020, 3551\u20133567 (1999)","journal-title":"Electrophoresis"},{"key":"31_CR3","doi-asserted-by":"publisher","first-page":"1466","DOI":"10.1093\/bioinformatics\/bth092","volume":"20","author":"R. Craig","year":"2004","unstructured":"Craig, R., Beavis, R.: TANDEM: matching proteins with tandem mass spectra. Bioinformatics\u00a020, 1466\u20131467 (2004)","journal-title":"Bioinformatics"},{"key":"31_CR4","doi-asserted-by":"publisher","first-page":"4626","DOI":"10.1021\/ac050102d","volume":"77","author":"S. Tanner","year":"2005","unstructured":"Tanner, S., Shu, H., Frank, A., Wang, L., Zandi, E., Mumby, M., Pevzner, P., Bafna, V.: InsPecT: Fast and accurate identification of post-translationally modified peptides from tandem mass spectra. Anal. Chem.\u00a077, 4626\u20134639 (2005)","journal-title":"Anal. Chem."},{"key":"31_CR5","doi-asserted-by":"crossref","first-page":"3","DOI":"10.1016\/S1741-8372(04)02415-6","volume":"3","author":"E. Hunyadi-Gulyas","year":"2004","unstructured":"Hunyadi-Gulyas, E., Medzihradszky, K.: Factors that contribute to the complexity of protein digests. Drug Discovey Today: Targets - mass spectrometry in proteomics supplement\u00a03, 3\u201310 (2004)","journal-title":"Drug Discovey Today: Targets - mass spectrometry in proteomics supplement"},{"key":"31_CR6","doi-asserted-by":"publisher","first-page":"15036","DOI":"10.1073\/pnas.93.26.15036","volume":"93","author":"R. Levine","year":"1996","unstructured":"Levine, R., Mosoni, L., Berlett, B., Stadtman, E.: Methionine residues as endogenous antioxidants in proteins. Proc. Natl. Acad. Sci. USA\u00a093, 15036\u201315040 (1996)","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"31_CR7","doi-asserted-by":"publisher","first-page":"1287","DOI":"10.1021\/pr050011x","volume":"4","author":"A. Frank","year":"2005","unstructured":"Frank, A., Tanner, S., Bafna, V., Pevzner, P.: Peptide sequence tags for fast database search in mass-spectrometry. J. of Proteome Research\u00a04, 1287\u20131295 (2005)","journal-title":"J. of Proteome Research"},{"key":"31_CR8","doi-asserted-by":"publisher","first-page":"777","DOI":"10.1089\/10665270050514927","volume":"7","author":"P. Pevzner","year":"2000","unstructured":"Pevzner, P., Danc\u00edk, V., Tang, C.: Mutation-tolerant protein identification by mass spectrometry. J. Comput. Biol.\u00a07, 777\u2013787 (2000)","journal-title":"J. Comput. Biol."},{"key":"31_CR9","doi-asserted-by":"publisher","first-page":"1562","DOI":"10.1038\/nbt1168","volume":"23","author":"D. Tsur","year":"2005","unstructured":"Tsur, D., Tanner, S., Zandi, E., Bafna, V., Pevzner, P.A.: Identification of post-translational modifications by blind search of mass spectra. Nat. Biotechnol.\u00a023, 1562\u20131567 (2005)","journal-title":"Nat. Biotechnol."},{"key":"31_CR10","doi-asserted-by":"publisher","first-page":"7221","DOI":"10.1021\/ac0489162","volume":"76","author":"N. Bandeira","year":"2004","unstructured":"Bandeira, N., Tang, H., Bafna, V., Pevzner, P.: Shotgun protein sequencing by tandem mass spectra assembly. Analytical Chemistry\u00a076, 7221\u20137233 (2004)","journal-title":"Analytical Chemistry"},{"key":"31_CR11","doi-asserted-by":"publisher","first-page":"964","DOI":"10.1021\/ac048788h","volume":"77","author":"A. Frank","year":"2005","unstructured":"Frank, A., Pevzner, P.: PepNovo: De novo peptide sequencing via probabilistic network modeling. Analytical Chemistry\u00a077, 964\u2013973 (2005)","journal-title":"Analytical Chemistry"},{"key":"31_CR12","doi-asserted-by":"publisher","first-page":"281","DOI":"10.1089\/106652799318274","volume":"6","author":"A. Ben-Dor","year":"1999","unstructured":"Ben-Dor, A., Shamir, R., Yakhini, Z.: Clustering gene expression patterns. J. Comput. Biol.\u00a06, 281\u2013297 (1999)","journal-title":"J. Comput. Biol."},{"key":"31_CR13","series-title":"Lecture Notes in Bioinformatics","doi-asserted-by":"publisher","first-page":"357","DOI":"10.1007\/11415770_27","volume-title":"Research in Computational Molecular Biology","author":"M.W. Bern","year":"2005","unstructured":"Bern, M.W., Goldberg, D.: Eigenms: de novo analysis of peptide tandem mass spectra by spectral graph partitioning. In: Miyano, S., Mesirov, J., Kasif, S., Istrail, S., Pevzner, P.A., Waterman, M. (eds.) RECOMB 2005. LNCS (LNBI), vol.\u00a03500, pp. 357\u2013372. Springer, Heidelberg (2005)"},{"key":"31_CR14","doi-asserted-by":"publisher","first-page":"325","DOI":"10.1089\/10665270152530872","volume":"8","author":"T. Chen","year":"2001","unstructured":"Chen, T., Kao, M., Tepel, M., Rush, J., Church, G.: A dynamic programming approach to de novo peptide sequencing via tandem mass spectrometry. J. Comput. Biol.\u00a08, 325\u2013337 (2001)","journal-title":"J. Comput. Biol."},{"key":"31_CR15","doi-asserted-by":"publisher","first-page":"303","DOI":"10.1089\/10665270050081540","volume":"7","author":"R. Karp","year":"2000","unstructured":"Karp, R., Shamir, R.: Algorithms for optical mapping. Journal of Computational Biology\u00a07, 303\u2013316 (2000)","journal-title":"Journal of Computational Biology"},{"key":"31_CR16","doi-asserted-by":"publisher","first-page":"505","DOI":"10.1089\/cmb.1998.5.505","volume":"5","author":"J.K. Lee","year":"1998","unstructured":"Lee, J.K., Danc\u00edk, V., Waterman, M.S.: Estimation for restriction sites observed by optical mapping using reversible-jump Markov Chain Monte Carlo. J. Comput. Biol.\u00a05, 505\u2013515 (1998)","journal-title":"J. Comput. Biol."},{"key":"31_CR17","doi-asserted-by":"publisher","first-page":"119","DOI":"10.1089\/cmb.1997.4.119","volume":"4","author":"V. Danc\u00edk","year":"1997","unstructured":"Danc\u00edk, V., Hannenhalli, S., Muthukrishnan, S.: Hardness of flip-cut problems from optical mapping. Journal of Computational Biology\u00a04, 119\u2013126 (1997)","journal-title":"Journal of Computational Biology"},{"key":"31_CR18","doi-asserted-by":"publisher","first-page":"207","DOI":"10.1089\/153623102760092805","volume":"6","author":"A. Keller","year":"2002","unstructured":"Keller, A., Purvine, S., Nesvizhskii, A., Stolyar, S., Goodlett, D., Kolker, E.: Experimental protein mixture for validating tandem mass spectral analysis. OMICS\u00a06, 207\u2013212 (2002)","journal-title":"OMICS"},{"key":"31_CR19","doi-asserted-by":"publisher","first-page":"1180","DOI":"10.1074\/mcp.T500009-MCP200","volume":"4","author":"M.M. Savitski","year":"2005","unstructured":"Savitski, M.M., Nielsen, M.L., Zubarev, R.A.: New data base-independent, sequence tag-based scoring of peptide ms\/ms data validates mowse scores, recovers below threshold data, singles out modified peptides, and assesses the quality of ms\/ms techniques. Mol. Cell Proteomics\u00a04, 1180\u20131188 (2005)","journal-title":"Mol. Cell Proteomics"},{"key":"31_CR20","doi-asserted-by":"publisher","first-page":"2348","DOI":"10.1021\/pr050288x","volume":"4","author":"M.M. Savitski","year":"2005","unstructured":"Savitski, M.M., Nielsen, M.L., Kjeldsen, F., Zubarev, R.A.: Proteomics-grade de novo sequencing approach. J. Proteome Res.\u00a04, 2348\u20132354 (2005)","journal-title":"J. Proteome Res."},{"key":"31_CR21","doi-asserted-by":"publisher","first-page":"1015","DOI":"10.1002\/(SICI)1097-0231(19970615)11:9<1015::AID-RCM958>3.0.CO;2-H","volume":"11","author":"A. Shevchenko","year":"1997","unstructured":"Shevchenko, A., Chernushevich, I., Ens, W., Standing, K., Thomson, B., Wilm, M., Mann, M.: Rapid \u2019de novo\u2019 peptide sequencing by a combination of nanoelectrospray, isotopic labeling and a quadrupole\/time-of-flight mass spectrometer. Rapid Commun. Mass Spectrom.\u00a011, 1015\u20131024 (1997)","journal-title":"Rapid Commun. Mass Spectrom."}],"container-title":["Lecture Notes in Computer Science","Research in Computational Molecular Biology"],"original-title":[],"link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1007\/11732990_31.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2021,4,27]],"date-time":"2021-04-27T06:52:50Z","timestamp":1619506370000},"score":1,"resource":{"primary":{"URL":"http:\/\/link.springer.com\/10.1007\/11732990_31"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2006]]},"ISBN":["9783540332954","9783540332961"],"references-count":21,"URL":"https:\/\/doi.org\/10.1007\/11732990_31","relation":{},"ISSN":["0302-9743","1611-3349"],"issn-type":[{"type":"print","value":"0302-9743"},{"type":"electronic","value":"1611-3349"}],"subject":[],"published":{"date-parts":[[2006]]}}}