Masaryk University

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    2024

    1. AlphaFind (software)
      SLANINÁKOVÁ, Terézia, David PROCHÁZKA, Jakub ČILLÍK, Lucie NOVOTNÁ and Adrián ROŠINEC. AlphaFind. 2024. Available from: https://dx.doi.org/10.5281/zenodo.11085862.
      More: https://is.muni.cz/publication/2441942/en
    2. AlphaFind — discover structure similarity across the proteome in AlphaFold DB
      SLANINÁKOVÁ, Terézia, David PROCHÁZKA, Jaroslav OĽHA, Adrián ROŠINEC, Katarína GREŠOVÁ, Jakub ČILLÍK, Miriama JÁNOŠOVÁ, Jana PORUBSKÁ, Radka SVOBODOVÁ, Vlastislav DOHNAL and Matej ANTOL. AlphaFind — discover structure similarity across the proteome in AlphaFold DB. In Elixir All-Hands 2024. 2024. Available from: https://dx.doi.org/10.7490/f1000research.1119872.1.
      More: https://is.muni.cz/publication/2441940/en
    3. AlphaFind: Discover structure similarity across the entire known proteome – data and model
      NOVOTNÁ, Lucie, Terézia SLANINÁKOVÁ, David PROCHÁZKA, Lukáš HEJTMÁNEK, Katarína GREŠOVÁ, Jaroslav OĽHA, Vlastislav DOHNAL, Adrián ROŠINEC and Matej ANTOL. AlphaFind: Discover structure similarity across the entire known proteome – data and model. 2024. Available from: https://dx.doi.org/10.48700/datst.d35zf-1ja47.
      More: https://is.muni.cz/publication/2441963/en
    4. Fast, structure-based searching in a large-scale protein data repository
      SLANINÁKOVÁ, Terézia, Katarína GREŠOVÁ, David PROCHÁZKA, Viktória SPIŠAKOVÁ, Adrián ROŠINEC, Jakub ČILLÍK, Pavlína ŠPRINGEROVÁ, Aleš KŘENEK, Vlastislav DOHNAL, Radka SVOBODOVÁ and Matej ANTOL. Fast, structure-based searching in a large-scale protein data repository. In ELIXIR CZ Annual Conference. 2024. Available from: https://dx.doi.org/10.13140/RG.2.2.31355.53281.
      More: https://is.muni.cz/publication/2441958/en
    5. GraSR: Protein structural embeddings of AlphaFold DB
      NOVOTNÁ, Lucie, Terézia SLANINÁKOVÁ, David PROCHÁZKA, Lukáš HEJTMÁNEK, Adrián ROŠINEC, Jaroslav OĽHA, Katarína GREŠOVÁ, Vlastislav DOHNAL and Matej ANTOL. GraSR: Protein structural embeddings of AlphaFold DB. 2024. Available from: https://dx.doi.org/10.48700/datst.br8aq-db495.
      More: https://is.muni.cz/publication/2439240/en
    6. LMI-10: Protein structural embeddings of AlphaFold DB
      NOVOTNÁ, Lucie, Terézia SLANINÁKOVÁ, David PROCHÁZKA, Lukáš HEJTMÁNEK, Adrián ROŠINEC, Jaroslav OĽHA, Katarína GREŠOVÁ, Vlastislav DOHNAL and Matej ANTOL. LMI-10: Protein structural embeddings of AlphaFold DB. 2024. Available from: https://dx.doi.org/10.48700/datst.t45hr-bcw17.
      More: https://is.muni.cz/publication/2439238/en
    7. LMI-30: Protein structural embeddings of AlphaFold DB
      NOVOTNÁ, Lucie, Terézia SLANINÁKOVÁ, David PROCHÁZKA, Lukáš HEJTMÁNEK, Adrián ROŠINEC, Jaroslav OĽHA, Katarína GREŠOVÁ, Vlastislav DOHNAL and Matej ANTOL. LMI-30: Protein structural embeddings of AlphaFold DB. 2024. Available from: https://dx.doi.org/10.48700/datst.kgb8j-r5f84.
      More: https://is.muni.cz/publication/2439241/en
    8. 3D-af-Surfer: Protein structural embeddings of AlphaFold DB
      NOVOTNÁ, Lucie, Terézia SLANINÁKOVÁ, David PROCHÁZKA, Lukáš HEJTMÁNEK, Adrián ROŠINEC, Jaroslav OĽHA, Katarína GREŠOVÁ, Vlastislav DOHNAL and Matej ANTOL. 3D-af-Surfer: Protein structural embeddings of AlphaFold DB. 2024. Available from: https://dx.doi.org/10.48700/datst.tbws0-hj147.
      More: https://is.muni.cz/publication/2441960/en
    9. 3DZD: Protein structural embeddings of AlphaFold DB v4
      NOVOTNÁ, Lucie, Terézia SLANINÁKOVÁ, David PROCHÁZKA, Lukáš HEJTMÁNEK, Adrián ROŠINEC, Jaroslav OĽHA, Katarína GREŠOVÁ, Vlastislav DOHNAL and Matej ANTOL. 3DZD: Protein structural embeddings of AlphaFold DB v4. 2024. Available from: https://dx.doi.org/10.48700/datst.t45hr-bcw17.
      More: https://is.muni.cz/publication/2441959/en
    10. 3DZD: Protein structural embeddings of ESM Atlas
      NOVOTNÁ, Lucie, Terézia SLANINÁKOVÁ, David PROCHÁZKA, Lukáš HEJTMÁNEK, Adrián ROŠINEC, Jaroslav OĽHA, Katarína GREŠOVÁ, Vlastislav DOHNAL and Matej ANTOL. 3DZD: Protein structural embeddings of ESM Atlas. 2024. Available from: https://dx.doi.org/10.48700/datst.cd6zk-k0v44.
      More: https://is.muni.cz/publication/2436500/en

    2009

    1. Data-mining protein structure by clustering, segmentation and evolutionary algorithms
      LEXA, Matej, Václav SNÁŠEL and Ivan ZELINKA. Data-mining protein structure by clustering, segmentation and evolutionary algorithms. In Data Mining: Theoretical Foundations and Applications. Germany: Springer Verlag, 2009, p. 221-248. ISBN 978-3-642-01087-3. Available from: https://dx.doi.org/10.1007/978-3-642-01088-0_10.
      More: https://is.muni.cz/publication/831677/en

    2008

    1. Osmium Tetroxide, 2,2´-Bipyridine: Electroactive Marker for Probing Accessibility of Tryptophan Residues in Proteins
      FOJTA, Miroslav, Sabina BILLOVÁ, Luděk HAVRAN, Hana PIVOŇKOVÁ, Hana ČERNOCKÁ, Petra HORÁKOVÁ and Emil PALEČEK. Osmium Tetroxide, 2,2´-Bipyridine: Electroactive Marker for Probing Accessibility of Tryptophan Residues in Proteins. Analytical Chemistry. USA: Amer Chemical Soc, 2008, vol. 80, No 12, p. 4598-4605. ISSN 0003-2700.
      More: https://is.muni.cz/publication/813837/en
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