Mass graphs and their applications in top-down proteomics

Qiang Kou, Si Wu, Nikola Tolić, Yunlong Liu, Ljiljana Paša-Tolić, Xiaowen Liu

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

Although proteomics has rapidly developed in the past decade, researchers are still in the early stage of exploring the world of complex proteoforms, which are protein products with various primary structure alterations resulting from gene mutations, alternative splicing, post-translational modifications, and other biological processes. Proteoform identification is essential to mapping proteoforms to their biological functions as well as discovering novel proteoforms and new protein functions. Top-down mass spectrometry is the method of choice for identifying complex proteoforms because it provides a “bird's eye view” of intact proteoforms. Fragment ion series in top-down tandem mass spectra provide essential information for identifying primary sequence alterations in proteoforms. Extended proteoform databases and spectral alignment are the two main approaches for proteoform identification. However, due to the combinatorial explosion of various alterations on a protein and the limitations of available spectral alignment algorithms, the proteoform identification problem has still not been fully solved.

Original languageEnglish (US)
Title of host publicationAlgorithms in Bioinformatics - 16th International Workshop, WABI 2016, Proceedings
PublisherSpringer Verlag
PagesXII
Volume9838
ISBN (Print)9783319436807
StatePublished - 2016
Event16th International Workshop on Algorithms in Bioinformatics, WABI 2016 - Aarhus, Denmark
Duration: Aug 22 2016Aug 24 2016

Publication series

NameLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume9838
ISSN (Print)03029743
ISSN (Electronic)16113349

Other

Other16th International Workshop on Algorithms in Bioinformatics, WABI 2016
CountryDenmark
CityAarhus
Period8/22/168/24/16

ASJC Scopus subject areas

  • Theoretical Computer Science
  • Computer Science(all)

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