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Jakub Lokoč

Name: 
Jakub
Surname: 
Lokoč
Homepage: 
http://siret.ms.mff.cuni.cz/lokoc/
Research interests: 
  • similarity search in unstructured data
  • metric and nonmetric indexing
  • content based retrieval
  • multimedia databases
Type of member: 
Staff
State: 
Active

Alan Eckhardt

Name: 
Alan
Surname: 
Eckhardt
Homepage: 
http://www.ksi.mff.cuni.cz/%7Eeckhardt/
Research interests: 
  • machine learning
  • user preferences
  • data mining
Type of member: 
Staff
State: 
Former

Simtandem

Type: 
Bioinformatics & Cheminformatics
One line description: 
Protein sequence identification
Annotation: 

SimTandem is a tool for protein or peptide sequences identification from tandem mass spectra. The identification is based on the similarity search in databases of already known or predicted protein sequences. Since the size of sequence databases grows rapidly, metric access methods are employed for database indexes. SimTandem implements a previously proposed method, where the M-tree and the TriGen algorithm were used for fast and approximative (i.e., non-metric) search. The recently introduced parameterized Hausdorff distance, which is suitable as a coarse filter for metric indexes, is utilized. SimTandem supports the search of mass spectra with posttranslational modifications, which are quite common problem when mass spectra are interpreted. SimTandem has been implemented as both the on-line web tool and the stand-alone application. SimTandem is freely available at http://www.simtandem.org or http://www.siret.cz/simtandem.

Developers: 
jiri.novak
tomas.skopal

SISAP 2009

Date: 
29.08.2009

Organization of SISAP 2009 conference.

ICDE 2011

Date: 
12.04.2011

Tutorial at ICDE 2011.

Annual report 2011 (CZ)

Year: 
2011
Document: 

Annual report 2010 (CZ)

Year: 
2010
Document: 

Annual report 2009 (CZ)

Year: 
2009
Document: 

Institute of Chemical Technology Prague

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