{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,11]],"date-time":"2026-03-11T23:29:25Z","timestamp":1773271765588,"version":"3.50.1"},"reference-count":62,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2008,10,8]],"date-time":"2008-10-08T00:00:00Z","timestamp":1223424000000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/2.0"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["BMC Bioinformatics"],"published-print":{"date-parts":[[2008,12]]},"DOI":"10.1186\/1471-2105-9-423","type":"journal-article","created":{"date-parts":[[2009,8,4]],"date-time":"2009-08-04T15:07:57Z","timestamp":1249398477000},"source":"Crossref","is-referenced-by-count":41,"title":["LC-MSsim \u2013 a simulation software for liquid chromatography mass spectrometry data"],"prefix":"10.1186","volume":"9","author":[{"given":"Ole","family":"Schulz-Trieglaff","sequence":"first","affiliation":[]},{"given":"Nico","family":"Pfeifer","sequence":"additional","affiliation":[]},{"given":"Clemens","family":"Gr\u00f6pl","sequence":"additional","affiliation":[]},{"given":"Oliver","family":"Kohlbacher","sequence":"additional","affiliation":[]},{"given":"Knut","family":"Reinert","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2008,10,8]]},"reference":[{"key":"2408_CR1","doi-asserted-by":"publisher","first-page":"198","DOI":"10.1038\/nature01511","volume":"422","author":"M Mann","year":"2003","unstructured":"Mann M, Aebersold R: Mass spectrometry-based proteomics. Nature 422 2003, 422: 198\u2013207. 10.1038\/nature01511","journal-title":"Nature 422"},{"issue":"10","key":"2408_CR2","doi-asserted-by":"publisher","first-page":"787","DOI":"10.1038\/nmeth1088","volume":"4","author":"AI Nesvizhskii","year":"2007","unstructured":"Nesvizhskii AI, Vitek O, Aebersold R: Analysis and validation of proteomic data generated by tandem mass spectrometry. Nat Meth 2007, 4(10):787\u2013797. 10.1038\/nmeth1088","journal-title":"Nat Meth"},{"issue":"15","key":"2408_CR3","doi-asserted-by":"publisher","first-page":"294A","DOI":"10.1021\/ac053431e","volume":"77","author":"M MacCoss","year":"2005","unstructured":"MacCoss M, Matthews DE: Quantitative MS for proteomics: Teaching a new dog old tricks. Anal Chem 2005, 77(15):294A-302A.","journal-title":"Anal Chem"},{"key":"2408_CR4","first-page":"473","volume-title":"Research in Computational Molecular Biology, 11th Annual International Conference, RECOMB 2007, Oakland, CA, USA, April 21\u201325, 2007, Proceedings, of Lecture Notes in Computer Science","author":"O Schulz-Trieglaff","year":"2007","unstructured":"Schulz-Trieglaff O, Hussong R, Gr\u00f6pl C, Hildebrandt A, Reinert K: A fast and accurate algorithm for the quantification of peptides from LC-MS data. In Research in Computational Molecular Biology, 11th Annual International Conference, RECOMB 2007, Oakland, CA, USA, April 21\u201325, 2007, Proceedings, of Lecture Notes in Computer Science. Volume 4453. Edited by: Speed TP, Huang H. Springer; 2007:473\u2013487."},{"issue":"15","key":"2408_CR5","doi-asserted-by":"publisher","first-page":"5620","DOI":"10.1021\/ac0700833","volume":"79","author":"M Hoopmann","year":"2007","unstructured":"Hoopmann M, Finney G, MacCoss M: High-Speed Data Reduction, Feature Detection, and MS\/MS Spectrum Quality Assessment of Shotgun Proteomics Data Sets Using High-Resolution Mass Spectrometry. Analytical Chemistry 2007, 79(15):5620\u20135632. 10.1021\/ac0700833","journal-title":"Analytical Chemistry"},{"issue":"11","key":"2408_CR6","doi-asserted-by":"publisher","first-page":"1394","DOI":"10.1093\/bioinformatics\/btm083","volume":"23","author":"P Du","year":"2007","unstructured":"Du P, Sudha R, Prystowsky MB, Angeletti RH: Data reduction of isotope-resolved LC-MS spectra. Bioinformatics 2007, 23(11):1394\u20131400. 10.1093\/bioinformatics\/btm083","journal-title":"Bioinformatics"},{"issue":"3","key":"2408_CR7","doi-asserted-by":"publisher","first-page":"423","DOI":"10.1074\/mcp.M500133-MCP200","volume":"5","author":"A Prakash","year":"2006","unstructured":"Prakash A, Mallick P, Whiteaker J, Zhang H, Paulovich A, Flory M, Lee H, Aebersold R, Schwikowski B: Signal Maps for Mass Spectrometry-based Comparative Proteomics. Mol Cell Proteomics 2006, 5(3):423\u2013432.","journal-title":"Mol Cell Proteomics"},{"issue":"13","key":"2408_CR8","doi-asserted-by":"publisher","first-page":"i273","DOI":"10.1093\/bioinformatics\/btm209","volume":"23","author":"E Lange","year":"2007","unstructured":"Lange E, Gr\u00f6pl C, Schulz-Trieglaff O, Leinenbach A, Huber C, Reinert K: A geometric approach for the alignment of liquid chromatography mass spectrometry data. Bioinformatics 2007, 23(13):i273\u2013281. 10.1093\/bioinformatics\/btm209","journal-title":"Bioinformatics"},{"issue":"17","key":"2408_CR9","doi-asserted-by":"publisher","first-page":"6140","DOI":"10.1021\/ac0605344","volume":"78","author":"J Prince","year":"2006","unstructured":"Prince J, Marcotte E: Chromatographic Alignment of ESI-LC-MS Proteomics Data Sets by Ordered Bijective Interpolated Warping. Analytical Chemistry 2006, 78(17):6140\u20136152. 10.1021\/ac0605344","journal-title":"Analytical Chemistry"},{"issue":"4","key":"2408_CR10","doi-asserted-by":"publisher","first-page":"419","DOI":"10.1074\/mcp.R500005-MCP200","volume":"4","author":"J Listgarten","year":"2005","unstructured":"Listgarten J, Emili A: Statistical and computational methods for comparative proteomic profiling using liquid chromatography-tandem mass spectrometry. Mol Cell Proteomics 2005, 4(4):419\u2013434. 10.1074\/mcp.R500005-MCP200","journal-title":"Mol Cell Proteomics"},{"issue":"15","key":"2408_CR11","doi-asserted-by":"publisher","first-page":"1902","DOI":"10.1093\/bioinformatics\/btl276","volume":"22","author":"M Bellew","year":"2006","unstructured":"Bellew M, Coram M, Fitzgibbon M, Igra M, Randolph T, Wang P, May D, Eng J, Fang R, Lin CW, Chen J, Goodlett D, Whiteaker J, Paulovich A, McIntosh M: A suite of algorithms for the comprehensive analysis of complex protein mixtures using high-resolution LC-MS. Bioinformatics 2006, 22(15):1902\u20131909. 10.1093\/bioinformatics\/btl276","journal-title":"Bioinformatics"},{"key":"2408_CR12","doi-asserted-by":"publisher","first-page":"179","DOI":"10.1186\/1471-2105-6-179","volume":"6","author":"M Katajamaa","year":"2005","unstructured":"Katajamaa M, Ore\u0161i\u010d M: Processing methods for differential analysis of LC\/MS profile data. BMC Bioinformatics 2005, 6: 179. 10.1186\/1471-2105-6-179","journal-title":"BMC Bioinformatics"},{"issue":"2","key":"2408_CR13","doi-asserted-by":"publisher","first-page":"e191","DOI":"10.1093\/bioinformatics\/btl299","volume":"23","author":"O Kohlbacher","year":"2007","unstructured":"Kohlbacher O, Reinert K, Gr\u00f6pl C, Lange E, Pfeifer N, Schulz-Trieglaff O, Sturm M: TOPP-the OpenMS proteomics pipeline. Bioinformatics 2007, 23(2):e191\u2013197. 10.1093\/bioinformatics\/btl299","journal-title":"Bioinformatics"},{"issue":"19","key":"2408_CR14","doi-asserted-by":"publisher","first-page":"3470","DOI":"10.1002\/pmic.200700057","volume":"7","author":"LN Mueller","year":"2007","unstructured":"Mueller LN, Rinner O, Schmidt A, Letarte S, Bodenmiller B, Brusniak MY, Vitek O, Aebersold R, M\u00fcller M: SuperHirn \u2013 a novel tool for high resolution LC-MS-based peptide\/protein profiling. Proteomics 2007, 7(19):3470\u20133480. 10.1002\/pmic.200700057","journal-title":"Proteomics"},{"key":"2408_CR15","doi-asserted-by":"publisher","first-page":"51","DOI":"10.1021\/pr700758r","volume":"7","author":"LN Mueller","year":"2008","unstructured":"Mueller LN, Brusniak MY, Mani DR, Aebersold R: An Assessment of Software Solutions for the Analysis of Mass Spectrometry Based Quantitative Proteomics Data. Journal of Proteome Research 2008, 7: 51\u201361. 10.1021\/pr700758r","journal-title":"Journal of Proteome Research"},{"issue":"7","key":"2408_CR16","doi-asserted-by":"publisher","first-page":"1527","DOI":"10.1021\/pr050436j","volume":"5","author":"B Piening","year":"2006","unstructured":"Piening B, Wang P, Bangur C, Whiteaker J, Zhang H, Feng LC, Keane J, Eng J, Tang H, Prakash A, McIntosh M, Paulovich A: Quality Control Metrics for LC-MS Feature Detection Tools Demonstrated on Saccharomyces cerevisiae Proteomic Profiles. Journal of Proteome Research 2006, 5(7):1527\u20131534. 10.1021\/pr050436j","journal-title":"Journal of Proteome Research"},{"key":"2408_CR17","doi-asserted-by":"publisher","first-page":"87","DOI":"10.1093\/bioinformatics\/15.1.87","volume":"15","author":"JD Thompson","year":"1999","unstructured":"Thompson JD, Plewniak F, Poch O: BAliBASE: a benchmark alignment database for theevaluation ofmultiple alignment programs. Bioinformatics 1999, 15: 87\u201388. 10.1093\/bioinformatics\/15.1.87","journal-title":"Bioinformatics"},{"key":"2408_CR18","doi-asserted-by":"publisher","first-page":"127","DOI":"10.1002\/prot.20527","volume":"61","author":"D Julie","year":"2005","unstructured":"Julie D, Thompson RR, Patrice Koehl, Poch O: BAliBASE 3.0: Latest developments of the multiplesequence alignmentbenchmark. Proteins: Structure, Function, and Bioinformatics 2005, 61: 127\u2013136. 10.1002\/prot.20527","journal-title":"Proteins: Structure, Function, and Bioinformatics"},{"issue":"5","key":"2408_CR19","doi-asserted-by":"publisher","first-page":"1792","DOI":"10.1093\/nar\/gkh340","volume":"32","author":"RC Edgar","year":"2004","unstructured":"Edgar RC: MUSCLE: multiple sequence alignment with high accuracy andhighthroughput. Nucleic Acids Research 2004, 32(5):1792\u20131797. 10.1093\/nar\/gkh340","journal-title":"Nucleic Acids Research"},{"key":"2408_CR20","doi-asserted-by":"publisher","first-page":"140","DOI":"10.1186\/1471-2105-5-140","volume":"5","author":"P Gardner","year":"2004","unstructured":"Gardner P, Giegerich R: A comprehensive comparison of comparative RNA structure prediction approaches. BMC Bioinformatics 2004, 5: 140. 10.1186\/1471-2105-5-140","journal-title":"BMC Bioinformatics"},{"key":"2408_CR21","doi-asserted-by":"publisher","first-page":"R9","DOI":"10.1186\/gb-2004-6-1-r9","volume":"6","author":"F Desiere","year":"2004","unstructured":"Desiere F, Deutsch E, Nesvizhskii A, Mallick P, King N, Eng J, Aderem A, Boyle R, Brunner E, Donohoe S, Fausto N, Hafen E, Hood L, Katze M, Kennedy K, Kregenow F, Lee H, Lin B, Martin D, Ranish J, Rawlings D, Samelson L, Shiio Y, Watts J, Wollscheid B, Wright M, Yan W, Yang L, Yi E, Zhang H, Aebersold R: Integration with the human genome of peptide sequences obtained by high-throughput mass spectrometry. Genome Biology 2004, 6: R9. 10.1186\/gb-2004-6-1-r9","journal-title":"Genome Biology"},{"key":"2408_CR22","volume-title":"Journal of Proteome Research","author":"J Klimek","year":"2007","unstructured":"Klimek J, Eddes J, Hohmann L, Jackson J, Peterson A, Letarte S, Gafken P, Katz J, Mallick P, Lee H, Schmidt A, Ossola R, Eng J, Aebersold R, Martin D: The Standard Protein Mix Database: A Diverse Data Set To Assist in the Production of Improved Peptide and Protein Identification Software Tools. Journal of Proteome Research 2007."},{"issue":"4","key":"2408_CR23","doi-asserted-by":"publisher","first-page":"471","DOI":"10.1038\/nbt0404-471","volume":"22","author":"JT Prince","year":"2004","unstructured":"Prince JT, Carlson MW, Wang R, Lu P, Marcotte EM: The need for a public proteomics repository. Nat Biotech 2004, 22(4):471\u2013472. 10.1038\/nbt0404-471","journal-title":"Nat Biotech"},{"key":"2408_CR24","volume-title":"Mol Syst Biol","author":"B Bodenmiller","year":"2007","unstructured":"Bodenmiller B, Malmstrom J, Gerrits B, Campbell D, Lam H, Schmidt A, Rinner O, Mueller LN, Shannon PT, Pedrioli PG, Panse C, Lee HK, Schlapbach R, Aebersold R: PhosphoPep[mdash]a phosphoproteome resource for systems biology research in Drosophila Kc167 cells. Mol Syst Biol 2007., 3:"},{"key":"2408_CR25","doi-asserted-by":"publisher","first-page":"D659","DOI":"10.1093\/nar\/gkj138","volume":"34","author":"P Jones","year":"2006","unstructured":"Jones P, Cote RG, Martens L, Quinn AF, Taylor CF, Derache W, Hermjakob H, Apweiler R: PRIDE: a public repository of protein and peptide identifications for the proteomics community. Nucl Acids Res 2006, 34: D659\u2013663. 10.1093\/nar\/gkj138","journal-title":"Nucl Acids Res"},{"key":"2408_CR26","volume-title":"Cancer Informatics","author":"KR Coombes","year":"2005","unstructured":"Coombes KR, Koomen J, Baggerly KA, Morris JS, Kobayashi R: Understanding the Characteristics of Mass Spectrometry Data Through the Use of Simulation. Cancer Informatics 2005., 1:"},{"issue":"9","key":"2408_CR27","doi-asserted-by":"publisher","first-page":"1187","DOI":"10.1002\/jms.894","volume":"40","author":"JWH Wong","year":"2005","unstructured":"Wong JWH, Downard KM: Performance of the computer algorithm COMPLX for the detection of protein complexes in the mass spectra of simulated biological mixtures. Journal of Mass Spectrometry 2005, 40(9):1187\u20131196. 10.1002\/jms.894","journal-title":"Journal of Mass Spectrometry"},{"key":"2408_CR28","unstructured":"ExPASy: Isotopident[\n                    http:\/\/education.expasy.org\/student_projects\/isotopident\/htdocs\/\n                    \n                  ]"},{"key":"2408_CR29","unstructured":"ProteinProspector (MS-Isotope)[\n                    http:\/\/prospector.ucsf.edu\/\n                    \n                  ]"},{"key":"2408_CR30","doi-asserted-by":"publisher","first-page":"1632","DOI":"10.1073\/pnas.77.3.1632","volume":"77","author":"JL Meek","year":"1980","unstructured":"Meek JL: Prediction of Peptide Retention Times in High-Pressure Liquid Chromatography on the Basis of Amino Acid Composition. PNAS 1980, 77: 1632\u20131636. 10.1073\/pnas.77.3.1632","journal-title":"PNAS"},{"issue":"14","key":"2408_CR31","doi-asserted-by":"publisher","first-page":"5026","DOI":"10.1021\/ac060143p","volume":"78","author":"K Petritis","year":"2006","unstructured":"Petritis K, Kangas LJ, Yan B, Monroe ME, Strittmatter EF, Qian WJ, Adkins JN, Moore RJ, Xu Y, Lipton MS, Camp DG, Smith RD: Improved peptide elution time prediction for reversed-phase liquid chromatography-MS by incorporating peptide sequence information. Anal Chem 2006, 78(14):5026\u20135039. 10.1021\/ac060143p","journal-title":"Anal Chem"},{"issue":"22","key":"2408_CR32","doi-asserted-by":"publisher","first-page":"7785","DOI":"10.1021\/ac060777w","volume":"78","author":"OV Krokhin","year":"2006","unstructured":"Krokhin OV: Sequence-specific retention calculator. Algorithm for peptide retention prediction in ion-pair RP-HPLC: application to 300- and 100-A pore size C18 sorbents. Anal Chem 2006, 78(22):7785\u20137795. 10.1021\/ac060777w","journal-title":"Anal Chem"},{"issue":"16","key":"2408_CR33","doi-asserted-by":"publisher","first-page":"6111","DOI":"10.1021\/ac070262k","volume":"79","author":"A Klammer","year":"2007","unstructured":"Klammer A, Yi X, MacCoss M, Noble W: Improving Tandem Mass Spectrum Identification Using Peptide Retention Time Prediction across Diverse Chromatography Conditions. Analytical Chemistry 2007, 79(16):6111\u20136118. 10.1021\/ac070262k","journal-title":"Analytical Chemistry"},{"key":"2408_CR34","doi-asserted-by":"publisher","first-page":"468","DOI":"10.1186\/1471-2105-8-468","volume":"8","author":"N Pfeifer","year":"2007","unstructured":"Pfeifer N, Leinenbach A, Huber CG, Kohlbacher O: Statistical learning of peptide retention behavior in chromatographic separations: a new kernel-based approach for computational proteomics. BMC Bioinformatics 2007, 8: 468. 10.1186\/1471-2105-8-468","journal-title":"BMC Bioinformatics"},{"key":"2408_CR35","doi-asserted-by":"publisher","first-page":"125","DOI":"10.1038\/nbt1275","volume":"25","author":"P Mallick","year":"2007","unstructured":"Mallick P, Schirle M, Chen SS, Flory MR, Lee H, Martin D, Ranish J, Raught B, Schmitt R, Werner T, Kuster B, Aebersold R: Computational prediction of proteotypic peptides for quantitative proteomics. Nat Biotech 2007, 25: 125\u2013131. 10.1038\/nbt1275","journal-title":"Nat Biotech"},{"issue":"14","key":"2408_CR36","doi-asserted-by":"publisher","first-page":"e481","DOI":"10.1093\/bioinformatics\/btl237","volume":"22","author":"H Tang","year":"2006","unstructured":"Tang H, Arnold RJ, Alves P, Xun Z, Clemmer DE, Novotny MV, Reilly JP, Radivojac P: A computational approach toward label-free protein quantification using predicted peptide detectability. Bioinformatics 2006, 22(14):e481\u2013488. 10.1093\/bioinformatics\/btl237","journal-title":"Bioinformatics"},{"key":"2408_CR37","volume-title":"BMC Bioinformatics","author":"M Sturm","year":"2008","unstructured":"Sturm M, Bertsch A, Groepl C, Hildebrandt A, Hussong R, Lange E, Pfeifer N, Schulz-Trieglaff O, Zerck A, Reinert K, Kohlbacher O: OpenMS \u2013 An open-source software framework for mass spectrometry. BMC Bioinformatics 2008., 9:"},{"issue":"5","key":"2408_CR38","doi-asserted-by":"publisher","first-page":"1207","DOI":"10.1162\/089976600300015565","volume":"12","author":"B Sch\u00f6lkopf","year":"2000","unstructured":"Sch\u00f6lkopf B, Smola AJ, Williamson RC, Bartlett PL: New Support Vector Algorithms. Neural Computation 2000, 12(5):1207\u20131245. 10.1162\/089976600300015565","journal-title":"Neural Computation"},{"issue":"Suppl 7","key":"2408_CR39","doi-asserted-by":"publisher","first-page":"S23","DOI":"10.1186\/1471-2105-8-S7-S23","volume":"8","author":"W Sanders","year":"2007","unstructured":"Sanders W, Bridges S, McCarthy F, Nanduri B, Burgess S: Prediction of peptides observable by mass spectrometry applied at the experimental set level. BMC Bioinformatics 2007, 8(Suppl 7):S23. 10.1186\/1471-2105-8-S7-S23","journal-title":"BMC Bioinformatics"},{"key":"2408_CR40","doi-asserted-by":"publisher","DOI":"10.1007\/978-1-4757-2440-0","volume-title":"The nature of statistical learning theory","author":"VN Vapnik","year":"1995","unstructured":"Vapnik VN: The nature of statistical learning theory. New York, NY, USA: Springer-Verlag New York, Inc; 1995."},{"key":"2408_CR41","volume-title":"Probability estimates for multi-class classification by pairwise coupling","author":"T Wu","year":"2003","unstructured":"Wu T, Lin C, Weng R: Probability estimates for multi-class classification by pairwise coupling. 2003."},{"key":"2408_CR42","volume-title":"LIBSVM: a library for support vector machines","author":"CC Chang","year":"2001","unstructured":"Chang CC, Lin CJ:LIBSVM: a library for support vector machines. 2001. [\n                    http:\/\/www.csie.ntu.edu.tw\/~cjlin\/libsvm\n                    \n                  ]"},{"issue":"11","key":"2408_CR43","doi-asserted-by":"publisher","first-page":"976","DOI":"10.1016\/S1044-0305(00)00169-0","volume":"11","author":"AT Iavarone","year":"2000","unstructured":"Iavarone AT, Jurchen JC, Williams ER: Effects of solvent on the maximum charge state and charge state distribution of protein ions produced by electrospray ionization. Journal of the American Society for Mass Spectrometry 2000, 11(11):976\u2013985. 10.1016\/S1044-0305(00)00169-0","journal-title":"Journal of the American Society for Mass Spectrometry"},{"issue":"23","key":"2408_CR44","doi-asserted-by":"publisher","first-page":"6534","DOI":"10.1021\/jp070720t","volume":"111","author":"L Konermann","year":"2007","unstructured":"Konermann L: A Minimalist Model for Exploring Conformational Effects on the Electrospray Charge State Distribution of Proteins. Journal of Physical Chemistry B 2007, 111(23):6534\u20136543. 10.1021\/jp070720t","journal-title":"Journal of Physical Chemistry B"},{"issue":"11","key":"2408_CR45","doi-asserted-by":"publisher","first-page":"1086","DOI":"10.1016\/1044-0305(95)00532-3","volume":"6","author":"PD Schnier","year":"1995","unstructured":"Schnier PD, Gross DS, Williams ER: On the Maximum Charge State and Proton Transfer Reactivity of Peptide and Protein Ions Formed By Electrospray Ionization. Journal of the American Society for Mass Spectrometry 1995, 6(11):1086\u20131097. 10.1016\/1044-0305(95)00532-3","journal-title":"Journal of the American Society for Mass Spectrometry"},{"key":"2408_CR46","doi-asserted-by":"publisher","first-page":"107","DOI":"10.1016\/S0003-2670(00)83059-7","volume":"247","author":"H Kubinyi","year":"1991","unstructured":"Kubinyi H: Calculation of Isotope Distributions in Mass Spectrometry. A Trivial Solution for a Non-Trivial Problem. Anal Chim Acta 1991, 247: 107\u2013109. 10.1016\/S0003-2670(00)83059-7","journal-title":"Anal Chim Acta"},{"issue":"11","key":"2408_CR47","doi-asserted-by":"publisher","first-page":"1733","DOI":"10.1021\/ac60319a011","volume":"44","author":"E Grushka","year":"1972","unstructured":"Grushka E: Characterization of exponentially modified Gaussian peaks in chromatography. Anal Chem 1972, 44(11):1733\u20131738. [First peak on application of EMG for elution profiles] 10.1021\/ac60319a011","journal-title":"Anal Chem"},{"issue":"1\u20132","key":"2408_CR48","doi-asserted-by":"publisher","first-page":"63","DOI":"10.1016\/S0021-9673(02)00090-0","volume":"952","author":"J Li","year":"2002","unstructured":"Li J: Comparison of the capability of peak functions in describing real chromatographic peaks. Journal of Chromatography A 2002, 952(1\u20132):63\u201370. 10.1016\/S0021-9673(02)00090-0","journal-title":"Journal of Chromatography A"},{"key":"2408_CR49","doi-asserted-by":"publisher","first-page":"285","DOI":"10.1007\/BF02268168","volume":"26","author":"P Naish","year":"1988","unstructured":"Naish P, Hartwell S: Exponentially Modified Gaussian functions: A good model for chromatographic peaks in isocratic HPLC? Chromatographia 1988, 26: 285\u2013296. 10.1007\/BF02268168","journal-title":"Chromatographia"},{"key":"2408_CR50","first-page":"23","volume-title":"IEEE Circuits Devices Mag","author":"TD R Sarpeshkar","year":"1993","unstructured":"R Sarpeshkar TD, Mead CA: White noise in MOS transistors and resistors. IEEE Circuits Devices Mag 1993, 23\u201329. 10.1109\/101.261888"},{"key":"2408_CR51","doi-asserted-by":"publisher","first-page":"193","DOI":"10.1002\/0470024135.ch8","volume-title":"Introduction to Random Signals and Noise","author":"WC van Etten","year":"2006","unstructured":"van Etten WC: Poisson Processes and Shot Noise. Introduction to Random Signals and Noise 2006, 193\u2013210."},{"key":"2408_CR52","doi-asserted-by":"publisher","first-page":"3575","DOI":"10.1093\/bioinformatics\/bth446","volume":"20","author":"M Anderle","year":"2004","unstructured":"Anderle M, Roy S, Lin H, Becker C, Joho K: Quantifying reproducibility for differential proteomics: noise analysis for protein liquid chromatography-mass spectrometry of human serum. Bioinformatics 2004, 20: 3575\u20133582. 10.1093\/bioinformatics\/bth446","journal-title":"Bioinformatics"},{"key":"2408_CR53","first-page":"1070","volume-title":"Bioinformatics","author":"P Du","year":"2008","unstructured":"Du P, Stolovitzky G, Horvatovich P, Bischoff R, Lim J, Suits F: A Noise Model for Mass Spectrometry Based Proteomics. Bioinformatics 2008, 1070\u20131077. 10.1093\/bioinformatics\/btn078"},{"key":"2408_CR54","volume-title":"American Association for Cancer Research (AACR) advances in proteomics in cancer research, Key Biscayne, FL","author":"H Shin","year":"2004","unstructured":"Shin H, Koomen J, Baggerly K, Markey M: Towards a noise model of MALDI TOF spectra. American Association for Cancer Research (AACR) advances in proteomics in cancer research, Key Biscayne, FL 2004."},{"key":"2408_CR55","doi-asserted-by":"publisher","first-page":"D521","DOI":"10.1093\/nar\/gkl923","volume":"35","author":"DS Wishart","year":"2007","unstructured":"Wishart DS, Tzur D, Knox C, Eisner R, Guo AC, Young N, Cheng D, Jewell K, Arndt D, Sawhney S, Fung C, Nikolai L, Lewis M, Coutouly MA, Forsythe I, Tang P, Shrivastava S, Jeroncic K, Stothard P, Amegbey G, Block D, Hau DD, Wagner J, Miniaci J, Clements M, Gebremedhin M, Guo N, Zhang Y, Duggan GE, MacInnis GD, Weljie AM, Dowlatabadi R, Bamforth F, Clive D, Greiner R, Li L, Marrie T, Sykes BD, Vogel HJ, Querengesser L: HMDB: the Human Metabolome Database. Nucl Acids Res 2007, 35: D521\u2013526. 10.1093\/nar\/gkl923","journal-title":"Nucl Acids Res"},{"key":"2408_CR56","doi-asserted-by":"publisher","first-page":"1328","DOI":"10.1074\/mcp.M500141-MCP200","volume":"4","author":"Xj Li","year":"2005","unstructured":"Li Xj, Yi EC, Kemp CJ, Zhang H, Aebersold R: A Software Suite for the Generation and Comparison of Peptide Arrays from Sets of Data Collected by Liquid Chromatography-Mass Spectrometry. Mol Cell Proteomics 2005, 4: 1328\u20131340. 10.1074\/mcp.M500141-MCP200","journal-title":"Mol Cell Proteomics"},{"key":"2408_CR57","unstructured":"NCRR Proteomics Resource at PNNL: Decon2LS.[\n                    http:\/\/ncrr.pnl.gov\/software\/\n                    \n                  ]"},{"issue":"4","key":"2408_CR58","doi-asserted-by":"publisher","first-page":"320","DOI":"10.1016\/S1044-0305(99)00157-9","volume":"11","author":"DM Horn","year":"2000","unstructured":"Horn DM, Zubarev RA, McLafferty FW: Automated reduction and interpretation of high resolution electrospray mass spectra of large molecules. Journal of the American Society for Mass Spectrometry 2000, 11(4):320\u2013332. 10.1016\/S1044-0305(99)00157-9","journal-title":"Journal of the American Society for Mass Spectrometry"},{"issue":"2","key":"2408_CR59","doi-asserted-by":"publisher","first-page":"210","DOI":"10.1016\/j.chroma.2006.09.072","volume":"1136","author":"C Schley","year":"2006","unstructured":"Schley C, Swart R, Huber C: Capillary scale monolithic trap column for desalting and preconcentration of peptides and proteins in one- and two-dimensional separations. J Chromatogr A 2006, 1136(2):210\u2013220. 10.1016\/j.chroma.2006.09.072","journal-title":"J Chromatogr A"},{"key":"2408_CR60","doi-asserted-by":"publisher","first-page":"414","DOI":"10.1021\/pr050344u","volume":"5","author":"BM Mayr","year":"2006","unstructured":"Mayr BM, Kohlbacher O, Reinert K, Sturm M, Gr\u00f6pl C, Lange E, Klein C, Huber C: Absolute Myoglobin Quantitation in Serum by Combining Two-Dimensional Liquid Chromatography-Electrospray Ionization Mass Spectrometry and Novel Data Analysis Algorithms. J Proteome Res 2006, 5: 414\u2013421. 10.1021\/pr050344u","journal-title":"J Proteome Res"},{"key":"2408_CR61","doi-asserted-by":"publisher","first-page":"229","DOI":"10.1016\/1044-0305(95)00017-8","volume":"6","author":"M Senko","year":"1995","unstructured":"Senko M, Beu S, McLafferty F: Determination of Monoisotopic Masses and Ion Populations for Large Biomolecules from Resolved Isotopic Distributions. Journal of the American Society for Mass Spectrometry 1995, 6: 229\u2013233. 10.1016\/1044-0305(95)00017-8","journal-title":"Journal of the American Society for Mass Spectrometry"},{"issue":"4","key":"2408_CR62","doi-asserted-by":"publisher","first-page":"731","DOI":"10.1002\/pmic.200700694","volume":"8","author":"AHP America","year":"2008","unstructured":"America AHP, Cordewener JHG: Comparative LC-MS: A landscape of peaks and valleys. Proteomics 2008, 8(4):731\u2013749. 10.1002\/pmic.200700694","journal-title":"Proteomics"}],"container-title":["BMC Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-9-423.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/article\/10.1186\/1471-2105-9-423\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-9-423.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2019,1,22]],"date-time":"2019-01-22T09:49:36Z","timestamp":1548150576000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcbioinformatics.biomedcentral.com\/articles\/10.1186\/1471-2105-9-423"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2008,10,8]]},"references-count":62,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2008,12]]}},"alternative-id":["2408"],"URL":"https:\/\/doi.org\/10.1186\/1471-2105-9-423","relation":{},"ISSN":["1471-2105"],"issn-type":[{"value":"1471-2105","type":"electronic"}],"subject":[],"published":{"date-parts":[[2008,10,8]]},"article-number":"423"}}