About: Improving the Similarity Search of Tandem Mass Spectra using Metric Access Methods

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rdf:type	skos:Concept http://linked.opendata.cz/ontology/domain/vavai/Vysledek
Description	The tandem mass spectrometry is a widely used method for determining protein 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 parametrized 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 are employed. We show that similarity search using dHP exhibits better correctness of interpretation than the cosine similarity commonly mentioned in mass spectrometry literature. Moreover, the search model using the dHP distance could be extended to support chemical modifications in the query mass spectra, which is typically a problem when the cosine similarity is used. Our approach can be utilized as a coarse filter by any other database approach for mass spectra interpretation. The tandem mass spectrometry is a widely used method for determining protein 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 parametrized 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 are employed. We show that similarity search using dHP exhibits better correctness of interpretation than the cosine similarity commonly mentioned in mass spectrometry literature. Moreover, the search model using the dHP distance could be extended to support chemical modifications in the query mass spectra, which is typically a problem when the cosine similarity is used. Our approach can be utilized as a coarse filter by any other database approach for mass spectra interpretation. (en)
Title	Improving the Similarity Search of Tandem Mass Spectra using Metric Access Methods Improving the Similarity Search of Tandem Mass Spectra using Metric Access Methods (en)
skos:prefLabel	Improving the Similarity Search of Tandem Mass Spectra using Metric Access Methods Improving the Similarity Search of Tandem Mass Spectra using Metric Access Methods (en)
skos:notation	RIV/00216208:11320/10:10033415!RIV11-GA0-11320___
http://linked.open...avai/riv/aktivita	P S Z
http://linked.open...avai/riv/aktivity	P(GA201/09/0683), S, Z(MSM0021620838)
http://linked.open...vai/riv/dodaniDat	2011
http://linked.open...aciTvurceVysledku	Lokoč, Jakub Skopal, Tomáš Hoksza, David Novák, Jiří
http://linked.open.../riv/druhVysledku	D - Článek ve sborníku
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	263226
http://linked.open...ai/riv/idVysledku	RIV/00216208:11320/10:10033415
http://linked.open...riv/jazykVysledku	eng - angličtina
http://linked.open.../riv/klicovaSlova	TriGen; metric access methods; tandem mass spectrometry (en)
http://linked.open.../riv/klicoveSlovo	tandem mass spectrometry metric access methods TriGen
http://linked.open...ontrolniKodProRIV	[306DD0A224E2]
http://linked.open...v/mistoKonaniAkce	Istanbul, Turkey
http://linked.open...i/riv/mistoVydani	Istanbul, Turkey
http://linked.open...i/riv/nazevZdroje	Third International Conference on Similarity Search and Applications
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
http://linked.open...UplatneniVysledku	2010
http://linked.open...iv/tvurceVysledku	Lokoč, Jakub Novák, Jiří Skopal, Tomáš Hoksza, David
http://linked.open...vavai/riv/typAkce	EUR - Evropská
http://linked.open.../riv/zahajeniAkce	2010-09-18 (xsd:date)
http://linked.open...n/vavai/riv/zamer	Moderní metody, struktury a systémy informatiky
number of pages	8 (xsd:int)
http://purl.org/ne...btex#hasPublisher	ACM
https://schema.org/isbn	978-1-4503-0420-7
http://localhost/t...ganizacniJednotka	11320

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