MAGIC-web: a platform for untargeted and targeted N-linked glycoprotein identification

T. Mamie Lih, Wai Kok Choong, Chen Chun Chen, Cheng Wei Cheng, Hsin Nan Lin, Ching Tai Chen, Hui Yin Chang, Wen Lian Hsu, Ting Yi Sung

Research output: Contribution to journalArticlepeer-review

12 Scopus citations

Abstract

MAGIC-web is the first web server, to the best of our knowledge, that performs both untargeted and targeted analyses of mass spectrometry-based glycoproteomics data for site-specific N-linked glycoprotein identification. The first two modules, MAGIC and MAGIC+, are designed for untargeted and targeted analysis, respectively. MAGIC is implemented with our previously proposed novel Y1-ion pattern matching method, which adequately detects Y1- and Y0-ion without prior information of proteins and glycans, and then generates in silico MS(2) spectra that serve as input to a database search engine (e.g. Mascot) to search against a large-scale protein sequence database. On top of that, the newly implemented MAGIC+ allows users to determine glycopeptide sequences using their own protein sequence file. The third module, Reports Integrator, provides the service of combining protein identification results from Mascot and glycan-related information from MAGIC-web to generate a complete site-specific protein-glycan summary report. The last module, Glycan Search, is designed for the users who are interested in finding possible glycan structures with specific numbers and types of monosaccharides. The results from MAGIC, MAGIC+ and Reports Integrator can be downloaded via provided links whereas the annotated spectra and glycan structures can be visualized in the browser. MAGIC-web is accessible from http://ms.iis.sinica.edu.tw/MAGIC-web/index.html.

Original languageEnglish
Pages (from-to)W575-W580
JournalNucleic Acids Research
Volume44
Issue numberW1
DOIs
StatePublished - 8 Jul 2016

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