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dc.contributor.authorZhu, Zhikai
dc.contributor.authorClark, Daniel Forrest
dc.contributor.authorGo, Eden P.
dc.contributor.authorDesaire, Heather
dc.date.accessioned2017-04-06T16:39:06Z
dc.date.available2017-04-06T16:39:06Z
dc.date.issued2013-05-21
dc.identifier.citationZhu, Z., Hua, D., Clark, D. F., Go, E. P., & Desaire, H. (2013). GlycoPep Detector: A tool for assigning mass spectrometry data of N-linked glycopeptides based on their ETD spectra. Analytical Chemistry, 85(10), 10.1021/ac400287n. http://doi.org/10.1021/ac400287nen_US
dc.identifier.urihttp://hdl.handle.net/1808/23588
dc.description.abstractElectron transfer dissociation (ETD) is commonly used in fragmenting N-linked glycopeptides in their mass spectral analyses to complement collision induced dissociation (CID) experiments. The glycan remains intact through ETD, while the peptide backbone is cleaved, providing the sequence of amino acids for a glycopeptide. Nonetheless, data analysis is a major bottleneck to high throughput glycopeptide identification based on ETD data, due to the complexity and diversity of ETD mass spectra compared to CID counterparts. GlycoPep Detector (GPD) is a web-based tool to address this challenge. It filters out noise peaks that interfere with glycopeptide sequencing, correlates input glycopeptide compositions with the ETD spectra, and assigns a score for each candidate. By considering multiple ion series (c-, z- and y-ions) and scoring them separately, the software gives more weighting to the ion series that matches peaks of high intensity in the spectra. This feature enables the correct glycopeptide to receive a high score while keeping scores of incorrect compositions low. GPD has been utilized to interpret data collected on six model glycoproteins (RNase B, avidin, fetuin, asialofetuin, transferrin and AGP) as well as a clade C HIV envelope glycoprotein, C.97ZA012 gp140ΔCFI. In every assignment made by GPD, the correct glycopeptide composition earns a score that is about two-fold higher than other incorrect glycopeptide candidates (decoys). The software can be accessed at http://glycopro.chem.ku.edu/ZZKHome.php.en_US
dc.publisherAmerican Chemical Societyen_US
dc.rightsCopyright © 2013 American Chemical Societyen_US
dc.titleGlycoPep Detector: A tool for assigning mass spectrometry data of N-linked glycopeptides based on their ETD spectraen_US
dc.typeArticleen_US
kusw.kuauthorGo, Eden P.
kusw.kuauthorDesaire, Heather
kusw.kudepartmentChemistryen_US
dc.identifier.doi10.1021/ac400287nen_US
kusw.oaversionScholarly/refereed, author accepted manuscripten_US
kusw.oapolicyThis item meets KU Open Access policy criteria.en_US
dc.rights.accessrightsopenAccess


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