An automated method for the analysis of stable isotope labeling data in proteomics.

@article{citeulike:2898716, abstract = {An algorithm is presented for the generation of a reliable peptide component peak table from liquid chromatography-mass spectrometry (LC-MS) and subsequent quantitative analysis of stable isotope coded peptide samples. The method uses chemical noise filtering, charge state fitting, and deisotoping toward improved analysis of complex peptide samples. Overlapping peptide signals in mass spectra were deconvoluted by correlation with modeled peptide isotopic peak profiles. Isotopic peak profiles for peptides were generated in silico from a protein database producing reference model distributions. Doublets of heavy and light labeled peak clusters were identified and compared to provide differential quantification of pairs of stable isotope coded peptides. Algorithms were evaluated using peptides from digests of a single protein and a seven-protein mixture that had been differentially coded with stable isotope labeling agents and mixed in known ratios. The experimental results correlated well with known mixing ratios.}, address = {Beyond Genomics Inc., Waltham, Massachusetts, USA. zhang100@purdue.edu}, author = {Zhang, X. and Hines, W. and Adamec, J. and Asara, J. M. and Naylor, S. and Regnier, F. E. }, citeulike-article-id = {2898716}, doi = {http://dx.doi.org/10.1016/j.jasms.2005.03.016}, issn = {1044-0305}, journal = {Journal of the American Society for Mass Spectrometry}, keywords = {isotope-cluster-modeling, isotope-label, mass-spectrometry, peak-detection, proteomics}, month = {July}, number = {7}, pages = {1181--1191}, posted-at = {2008-06-16 14:54:17}, priority = {2}, title = {An automated method for the analysis of stable isotope labeling data in proteomics.}, url = {http://dx.doi.org/10.1016/j.jasms.2005.03.016}, volume = {16}, year = {2005} }

TY - JOUR ID - citeulike:2898716 L3 - citeulike-article-id:2898716 TI - An automated method for the analysis of stable isotope labeling data in proteomics. JF - Journal of the American Society for Mass Spectrometry VL - 16 IS - 7 SP - 1181 EP - 1191 AD - Beyond Genomics Inc., Waltham, Massachusetts, USA. zhang100@purdue.edu SN - 1044-0305 N2 - An algorithm is presented for the generation of a reliable peptide component peak table from liquid chromatography-mass spectrometry (LC-MS) and subsequent quantitative analysis of stable isotope coded peptide samples. The method uses chemical noise filtering, charge state fitting, and deisotoping toward improved analysis of complex peptide samples. Overlapping peptide signals in mass spectra were deconvoluted by correlation with modeled peptide isotopic peak profiles. Isotopic peak profiles for peptides were generated in silico from a protein database producing reference model distributions. Doublets of heavy and light labeled peak clusters were identified and compared to provide differential quantification of pairs of stable isotope coded peptides. Algorithms were evaluated using peptides from digests of a single protein and a seven-protein mixture that had been differentially coded with stable isotope labeling agents and mixed in known ratios. The experimental results correlated well with known mixing ratios. KW - isotope-cluster-modeling KW - isotope-label KW - mass-spectrometry KW - peak-detection KW - proteomics AU - Zhang, X AU - Hines, W AU - Adamec, J AU - Asara, JM AU - Naylor, S AU - Regnier, FE PY - 2005/07// UR - http://dx.doi.org/10.1016/j.jasms.2005.03.016 ER -