title: De Novo Sequencing of Top-Down Tandem Mass Spectra: A Next Step towards Retrieving a Complete Protein Sequence.
abstract: De novo sequencing of tandem (MS/MS) mass spectra represents the only way to determine the sequence of proteins from organisms with unknown genomes, or the ones not directly inscribed in a genome-such as antibodies, or novel splice variants. Top-down mass spectrometry provides new opportunities for analyzing such proteins; however, retrieving a complete protein sequence from top-down MS/MS spectra still remains a distant goal. In this paper, we review the state-of-the-art on this subject, and enhance our previously developed Twister algorithm for de novo sequencing of peptides from top-down MS/MS spectra to derive longer sequence fragments of a target protein.
authors.affiliation: Center for Algorithmic Biotechnology, Institute of Translational Biomedicine, Saint Petersburg State University, 7-9 Universitetskaya nab., St. Petersburg 199034, Russia. k.vyatkina@spbu.ru.|Department of Mathematical and Information Technologies, Saint Petersburg Academic University, 8/3 Khlopina st., St. Petersburg 194021, Russia. k.vyatkina@spbu.ru.
authors.forename: Kira
authors.initials: K
authors.lastname: Vyatkina
keywords: de novo sequencing; tag convolution; top-down mass spectrometry