About: Non-metric Similarity Search of Tandem Mass Spectra Including Posttranslational Modifications

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An Entity of Type : http://linked.opendata.cz/ontology/domain/vavai/Vysledek, within Data Space : linked.opendata.cz associated with source document(s)

Attributes	Values
rdf:type	skos:Concept http://linked.opendata.cz/ontology/domain/vavai/Vysledek
rdfs:seeAlso	http://dx.doi.org/10.1016/j.jda.2011.10.003
Description	In biological applications, the tandem mass spectrometry is a widely used method for determining protein and peptide sequences from an %22in vitro%22 sample. The sequences are not determined directly, but they must be interpreted from the mass spectra, which is the output of the mass spectrometer. This work is focused on a similarity-search approach to mass spectra interpretation, where the parameterized Hausdorff distance (dHP) is used as the similarity. In order to provide an efficient similarity search under dHP, the metric access methods and the TriGen algorithm (controlling the metricity of dHP) are employed. Moreover, the search model based on the dHP supports posttranslational modifications (PTMs) in the query mass spectra, what is typically a problem when an indexing approach is used. Our approach can be utilized as a coarse filter by any other database approach for mass spectra interpretation. In biological applications, the tandem mass spectrometry is a widely used method for determining protein and peptide sequences from an %22in vitro%22 sample. The sequences are not determined directly, but they must be interpreted from the mass spectra, which is the output of the mass spectrometer. This work is focused on a similarity-search approach to mass spectra interpretation, where the parameterized Hausdorff distance (dHP) is used as the similarity. In order to provide an efficient similarity search under dHP, the metric access methods and the TriGen algorithm (controlling the metricity of dHP) are employed. Moreover, the search model based on the dHP supports posttranslational modifications (PTMs) in the query mass spectra, what is typically a problem when an indexing approach is used. Our approach can be utilized as a coarse filter by any other database approach for mass spectra interpretation. (en)
Title	Non-metric Similarity Search of Tandem Mass Spectra Including Posttranslational Modifications Non-metric Similarity Search of Tandem Mass Spectra Including Posttranslational Modifications (en)
skos:prefLabel	Non-metric Similarity Search of Tandem Mass Spectra Including Posttranslational Modifications Non-metric Similarity Search of Tandem Mass Spectra Including Posttranslational Modifications (en)
skos:notation	RIV/00216208:11320/12:10099576!RIV13-GA0-11320___
http://linked.open...avai/riv/aktivita	P S
http://linked.open...avai/riv/aktivity	P(GA201/09/0683), P(GAP202/11/0968), P(GD201/09/H057), S
http://linked.open...iv/cisloPeriodika	13
http://linked.open...vai/riv/dodaniDat	2013
http://linked.open...aciTvurceVysledku	Lokoč, Jakub Skopal, Tomáš Hoksza, David Novák, Jiří
http://linked.open.../riv/druhVysledku	J - Článek v odborném periodiku
http://linked.open...iv/duvernostUdaju	S - Úplné a pravdivé údaje nepodléhající ochraně podle zvláštních právních předpisů
http://linked.open...titaPredkladatele	Univerzita Karlova v Praze / Matematicko-fyzikální fakulta
http://linked.open...dnocenehoVysledku	154413
http://linked.open...ai/riv/idVysledku	RIV/00216208:11320/12:10099576
http://linked.open...riv/jazykVysledku	eng - angličtina
http://linked.open.../riv/klicovaSlova	Modifications; Posttranslational; Including; Spectra; Mass; Tandem; Search; Similarity; Non-metric (en)
http://linked.open.../riv/klicoveSlovo	Mass Search Modifications Spectra Similarity Including Non-metric Posttranslational Tandem
http://linked.open...odStatuVydavatele	NL - Nizozemsko
http://linked.open...ontrolniKodProRIV	[18008A758AF1]
http://linked.open...i/riv/nazevZdroje	Journal of Discrete Algorithms
http://linked.open...in/vavai/riv/obor	IN
http://linked.open...ichTvurcuVysledku	4 (xsd:int)
http://linked.open...cetTvurcuVysledku	4 (xsd:int)
http://linked.open...vavai/riv/projekt	Similarity searching in very large multimedia databases Large-scale Nonmetric Similarity Search in Complex Domains Res Informatica
http://linked.open...UplatneniVysledku	2012
http://linked.open...v/svazekPeriodika	2012
http://linked.open...iv/tvurceVysledku	Lokoč, Jakub Novák, Jiří Skopal, Tomáš Hoksza, David
issn	1570-8667
number of pages	13 (xsd:int)
http://bibframe.org/vocab/doi	10.1016/j.jda.2011.10.003
http://localhost/t...ganizacniJednotka	11320

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