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About

SIRET (SImilarity RETrieval) research group (SRG) was founded in 2006 at the Department of Software Engineering, Faculty of Mathematics and Physics, Charles University in Prague. SRG deals with database methods for efficient and effective similarity search in databases of complex unstructured objects. In particular, SRG is interested in three areas - general methods of indexing similarity (metric and nonmetric spaces), biological applications of the similarity search, and indexing image databases for content-based retrieval.

Events

10.11.2016

Jakub Lokoč: Known-item search in video using signature-based models
David Hoksza: Chem/bioinformatics visualization projects at Charles University

26.01.2016

Přednášky:

  • Jakub Lokoč: Vyhledávání ve videu
29.09.2015

Přednášky:

  • David Hoksza: Využití metod strojového učení v bioinformatice
10.06.2015

13th International Workshop on Content-Based Multimedia Indexing (CBMI)

http://siret.ms.mff.cuni.cz/cbmi2015/

26.11.2014

Juraj Moško has presented an invited talk about Real-time exploration of multimedia collection at the RMIT University in Melbourne, Australia. Presentation slides are here.

Projects

Bioinformatics & Cheminformatics

  • Molpher - Software tool for exploration of the chemical space
  • P2RANK - Ligand-binding site prediction
  • P3S - Protein structure similarity search
  • rPredictor - Infrastructure consisting of tools, a database and web interface that together enable predicting ribosomal RNA secondary structure and analysing it.
  • SETTER - RNA structure similarity search
  • Simtandem - Protein sequence identification
  • ViFrame - Chemical space visualization framework

General indexing

  • PGRTree - Plugin for Indexing Multidimensional Data in PostgreSQL Using R-tree

Multimedia

Grants

Ongoing grant projects

  • GAČR 15-08916S Efficient subgraph discovery for petabyte-scale web analysis (2015 - 2017)
  • GAČR 15-00885S Novel methods for computational prediction and visualization of secondary structures of ribosomal ribonucleic acids - an integrated solution (2015 - 2017)
  • GAUK 174615 Adaptive virtual screening (2015 - 2017)
  • GAUK 201515 Using metric indexes for efficient content-based multimedia exploration (2015 - 2017)
  • GAČR 14-29032P Efficient chemical space exploration using multi-objective optimization (2014 - 2016)

Past grant projects

  • GAUK 550214 rRNA Secondary Structure Prediction (2014 - 2015)
  • GAUK 910913 Real-time Exploration Queries in Multimedia Databases (2013 - 2015)
  • GAUK 154613 Efficient Molecular Representation (2013 - 2014)
  • CISCO 2013 Finding similar events within IDS (2013 - 2014)
  • GAČR P202/12/P297 Synergistic Modeling of Adaptive Similarities for Multimedia Retrieval (2012 - 2014)
  • GAUK 567312 Algorithmic exploration of axiom spaces for efficient similarity search at large scale (2012 - 2014)
  • FEBS Short-Term Fellowships Similarity Retrieval in Protein Structure Databases (2012 - 2012)
  • FEBS Short-Term Fellowships Fast Similarity Retrieval in Mass Spectra Databases (2012 - 2012)
  • GAČR P202/11/0968 Large-scale Nonmetric Similarity Search in Complex Domains (2011 - 2014)
  • GAUK 430711 Application of Metric and Non-metric Indexing Methods in Computational Proteomics (2011 - 2012)
  • GAČR 201/09/0683 Similarity Searching in Very Large Multimedia Databases (2009 - 2011)
  • GAUK 18208 Distributed and parallel metric indexing in multimedia databases (2008 - 2009)
  • GAUK 57907 Similarity search in biological databases (2007 - 2008)
  • GAČR 201/05/P036 Efficient metric search in large multimedia databases (2005 - 2007)