Congruent strategies for carbohydrate sequencing. 3. OSCAR: An algorithm for assigning oligosaccharide topology from MSn data

Abstract

This is the third in a sequence of reports devoted to the development of congruent strategies for carbohydrate sequencing. Two previous reports outlined the strategies for observing structural detail from MSn data and introduced tools that compile, search, and compare fragment spectra in a bottom-up approach to oligosaccharide sequencing. In this third report, we. introduce the operational details of an algorithm that we define as the Oligosaccharide Subtree Constraint Algorithm (OSCAR). This algorithm assimilates analyst-selected MSn ion fragmentation pathways into oligosaccharide topology (branching and linkage) using what may be considered a top-down sequencing strategy. Guided by a series of logical constraints, this de novo algorithm provides molecular topology without presumed biosynthetic constraints or external comparisons. In this introductory study, OSCAR is applied to a series of permethylated oligomers and isomeric glycans, and topologies are assigned in a few hundredths of a second.

Department

Computer Science

Publication Date

10-1-2005

Journal Title

Analytical Chemistry

Publisher

American Chemical Society

Digital Object Identifier (DOI)

10.1021/ac050726j

Document Type

Article

Rights

Copyright © 2005 American Chemical Society

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