Similarity Search and Posttranslational Modifications in Tandem Mass Spectra

Kód výsledku v IS VaVaI

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Výsledek na webu

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DOI - Digital Object Identifier

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Jazyk výsledku

angličtina

Název v původním jazyce

Similarity Search and Posttranslational Modifications in Tandem Mass Spectra

Popis výsledku v původním jazyce

Tandem mass spectrometry is a fast and modern method for determining protein and peptide sequences from an "in vitro" sample. A mass spectrometer outputs mass spectra, which are utilized for sequences identification. The successful methods for mass spectra interpretation are based on search in databases of already known or predicted protein sequences. Since the amount of protein sequences in the databases grows exponentially, couple of indexing approaches have been proposed to speed up the identification of the sequences corresponding to the mass spectra. However, many of these approaches do not (or poorly) support interpretation of the spectra contaminated with posttranslational modifications (PTMs), which in real-world conditions occur very often. Wepropose a promising method for dealing with PTMs in mass spectra, including efficient similarity search employing metric indexing. In this paper, we generalize a previously proposed method based on the parametrized Hausdorff distance.

Název v anglickém jazyce

Similarity Search and Posttranslational Modifications in Tandem Mass Spectra

Popis výsledku anglicky

Tandem mass spectrometry is a fast and modern method for determining protein and peptide sequences from an "in vitro" sample. A mass spectrometer outputs mass spectra, which are utilized for sequences identification. The successful methods for mass spectra interpretation are based on search in databases of already known or predicted protein sequences. Since the amount of protein sequences in the databases grows exponentially, couple of indexing approaches have been proposed to speed up the identification of the sequences corresponding to the mass spectra. However, many of these approaches do not (or poorly) support interpretation of the spectra contaminated with posttranslational modifications (PTMs), which in real-world conditions occur very often. Wepropose a promising method for dealing with PTMs in mass spectra, including efficient similarity search employing metric indexing. In this paper, we generalize a previously proposed method based on the parametrized Hausdorff distance.

Druh

D - Stať ve sborníku

CEP obor

IN - Informatika

OECD FORD obor

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Projekt

Výsledek vznikl pri realizaci vícero projektů. Více informací v záložce Projekty.

Návaznosti

P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)<br>Z - Vyzkumny zamer (s odkazem do CEZ)<br>S - Specificky vyzkum na vysokych skolach

Rok uplatnění

2010

Kód důvěrnosti údajů

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Název statě ve sborníku

Bioinformatics and Biomedicine Workshops

ISBN

978-1-4244-8302-0

ISSN

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e-ISSN

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Počet stran výsledku

2

Strana od-do

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Název nakladatele

IEEE

Místo vydání

Hong Kong

Místo konání akce

Hong Kong, China

Datum konání akce

18. 12. 2010

Typ akce podle státní příslušnosti

WRD - Celosvětová akce

Kód UT WoS článku

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