title: MODi: a powerful and convenient web server for identifying multiple post-translational peptide modifications from tandem mass spectra.
abstract: MOD(i) (http://modi.uos.ac.kr/modi/) is a powerful and convenient web service that facilitates the interpretation of tandem mass spectra for identifying post-translational modifications (PTMs) in a peptide. It is powerful in that it can interpret a tandem mass spectrum even when hundreds of modification types are considered and the number of potential PTMs in a peptide is large, in contrast to most of the methods currently available for spectra interpretation that limit the number of PTM sites and types being used for PTM analysis. For example, using MOD(i), one can consider for analysis both the entire PTM list published on the unimod webpage (http://www.unimod.org) and user-defined PTMs simultaneously, and one can also identify multiple PTM sites in a spectrum. MOD(i) is convenient in that it can take various input file formats such as .mzXML, .dta, .pkl and .mgf files, and it is equipped with a graphical tool called MassPective developed to display MOD(i)'s output in a user-friendly manner and helps users understand MOD(i)'s output quickly. In addition, one can perform manual de novo sequencing using MassPective.
authors.affiliation: Research Center for Computer Technology, Hanyang University, Seoul, 133-791, Korea.
authors.forename: Sangtae
authors.initials: S
authors.lastname: Kim
authors.forename: Seungjin
authors.initials: S
authors.lastname: Na
authors.forename: Ji Woong
authors.initials: JW
authors.lastname: Sim
authors.forename: Heejin
authors.initials: H
authors.lastname: Park
authors.forename: Jaeho
authors.initials: J
authors.lastname: Jeong
authors.forename: Hokeun
authors.initials: H
authors.lastname: Kim
authors.forename: Younghwan
authors.initials: Y
authors.lastname: Seo
authors.forename: Jawon
authors.initials: J
authors.lastname: Seo
authors.forename: Kong-Joo
authors.initials: KJ
authors.lastname: Lee
authors.forename: Eunok
authors.initials: E
authors.lastname: Paek
mesh_terms: D003196:Computer Graphics; D030562:Databases, Protein; D020407:Internet; D013058:Mass Spectrometry / Q000379:methods*; D010455:Peptides / Q000737:chemistry / Q000378:metabolism*; D011499:Protein Processing, Post-Translational; D020539:Sequence Analysis, Protein; D012984:Software; D014584:User-Computer Interface
chemical_list: D010455:Peptides