Interpreting Top-Down Mass Spectra Using Spectral Alignment Export

@article{citeulike:2746505, abstract = {PMID: 18302345 Recent advances in mass spectrometry instrumentation, such as FTICR and OrbiTrap, have made it possible to generate high-resolution spectra of entire proteins. While these methods offer new opportunities for performing top-down studies of proteins, the computational tools for analyzing top-down data are still scarce. In this paper we investigate the application of spectral alignment to the problem of identifying protein forms in top-down mass spectra (i.e., identifying the modifications, mutations, insertions, and deletions). We demonstrate how spectral alignment efficiently discovers protein forms even in the presence of numerous modifications and how the algorithm can be extended to discover positional isomers from spectra of mixtures of isobaric protein forms.}, address = {Department of Computer Science and Engineering, University of California, San Diego, La Jolla, California 92093-0404, and Center for Biophysics and Computational Biology, Department of Cell and Developmental Biology, and Center for Top Down Proteomics, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801}, author = {Frank, Ari M. and Pesavento, James J. and Mizzen, Craig A. and Kelleher, Neil L. and Pevzner, Pavel A.}, citeulike-article-id = {2746505}, citeulike-linkout-0 = {http://dx.doi.org/10.1021/ac702324u}, citeulike-linkout-1 = {http://pubs.acs.org/doi/abs/10.1021/ac702324u}, citeulike-linkout-2 = {http://view.ncbi.nlm.nih.gov/pubmed/18302345}, citeulike-linkout-3 = {http://www.hubmed.org/display.cgi?uids=18302345}, day = {1}, doi = {10.1021/ac702324u}, journal = {Analytical Chemistry}, keywords = {proteomics, tandem-mass-spectrometry, top-down}, month = {April}, number = {7}, pages = {2499--2505}, posted-at = {2009-09-30 21:32:59}, priority = {2}, title = {Interpreting Top-Down Mass Spectra Using Spectral Alignment}, url = {http://dx.doi.org/10.1021/ac702324u}, volume = {80}, year = {2008} }

TY - JOUR ID - citeulike:2746505 L3 - citeulike-article-id:2746505 N2 - PMID: 18302345 Recent advances in mass spectrometry instrumentation, such as FTICR and OrbiTrap, have made it possible to generate high-resolution spectra of entire proteins. While these methods offer new opportunities for performing top-down studies of proteins, the computational tools for analyzing top-down data are still scarce. In this paper we investigate the application of spectral alignment to the problem of identifying protein forms in top-down mass spectra (i.e., identifying the modifications, mutations, insertions, and deletions). We demonstrate how spectral alignment efficiently discovers protein forms even in the presence of numerous modifications and how the algorithm can be extended to discover positional isomers from spectra of mixtures of isobaric protein forms. IS - 7 JF - Analytical Chemistry AD - Department of Computer Science and Engineering, University of California, San Diego, La Jolla, California 92093-0404, and Center for Biophysics and Computational Biology, Department of Cell and Developmental Biology, and Center for Top Down Proteomics, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801 EP - 2505 TI - Interpreting Top-Down Mass Spectra Using Spectral Alignment VL - 80 SP - 2499 KW - proteomics KW - tandem-mass-spectrometry KW - top-down AU - Frank, Ari AU - Pesavento, James AU - Mizzen, Craig AU - Kelleher, Neil AU - Pevzner, Pavel PY - 2008/04/01/ UR - http://dx.doi.org/10.1021/ac702324u ER -