doc. Mgr. David Bednář, Ph.D.

2024

• InVADo: Interactive Visual Analysis of Molecular Docking Data

  SCHÄFER Marco BRICH Nicolas BYŠKA Jan MARQUES Sérgio Manuel BEDNÁŘ David THIEL Philipp KOZLÍKOVÁ Barbora KRONE Michael

  Article in Periodical

  IEEE Transactions on Visualization and Computer Graphics, year: 2024, volume: 30, edition: 4, DOI

• Large-scale annotation of biochemically relevant pockets and tunnels in cognate enzyme-ligand complexes

  VÁVRA Ondřej TYZACK J. HADDADI Faraneh DVORSKÝ Jan DAMBORSKÝ Jiří MAZURENKO Stanislav THORNTON J.M. BEDNÁŘ David

  Article in Periodical

  Journal of Cheminformatics, year: 2024, volume: 16, edition: 1, DOI

• PredictONCO: a web tool supporting decision-making in precision oncology by extending the bioinformatics predictions with advanced computing and machine learning

  ŠTOURAČ Jan BORKO Simeon KHAN Rayyan Tariq POKORNÁ Petra DOBIÁŠ Adam PLANAS IGLESIAS Joan MAZURENKO Stanislav RANGEL PAMPLONA PIZARRO PINTO José Gaspar SZOTKOWSKÁ Veronika ŠTĚRBA Jaroslav SLABÝ Ondřej DAMBORSKÝ Jiří BEDNÁŘ David

  Article in Periodical

  Briefings in Bioinformatics, year: 2024, volume: 25, edition: 1, DOI

• Visual Support for the Loop Grafting Workflow on Proteins

  OPÁLENÝ Filip ULBRICH Pavol PLANAS IGLESIAS Joan BYŠKA Jan ŠTOURAČ Jan BEDNÁŘ David FURMANOVÁ Katarína KOZLÍKOVÁ Barbora

  Article in Periodical

  IEEE Transactions on Visualization and Computer Graphics, year: 2024

2023

• Advancing Enzyme's Stability and Catalytic Efficiency through Synergy of Force-Field Calculations, Evolutionary Analysis, and Machine Learning

  KUNKA Antonín MARQUES Sérgio Manuel HAVLÁSEK Martin VAŠINA Michal VELÁTOVÁ Nikola CENGELOVÁ Lucia KOVÁŘ David DAMBORSKÝ Jiří MAREK Martin BEDNÁŘ David PROKOP Zbyněk

  Article in Periodical

  ACS Catalysis, year: 2023, volume: 13, edition: 19, DOI

• Atypical homodimerization revealed by the structure of the (S)-enantioselective haloalkane dehalogenase DmmarA from Mycobacterium marinum

  ŠNAJDAROVÁ Karolína MARQUES Sérgio Manuel DAMBORSKÝ Jiří BEDNÁŘ David MAREK Martin

  Article in Periodical

  Acta Crystallographica Section D: Structural Biology, year: 2023, volume: 79, edition: November, DOI

• Catalytic mechanism for Renilla-type luciferases

  SMITH Andrea TOUL Martin PLUSKAL Daniel BAATALLAH Racha GAGNOT Glwadys RANGEL PAMPLONA PIZARRO PINTO José Gaspar SANTANA Vinicius T. T. STUCHLÁ Markéta NEUGEBAUER Petr CHAIYEN Pimchai DAMBORSKÝ Jiří BEDNÁŘ David JANIN Yves L. L. PROKOP Zbyněk MAREK Martin

  Article in Periodical

  Nature Catalysis, year: 2023, volume: 6, edition: 1, DOI

• Comparison of Fungal Thermophilic and Mesophilic Catalase-Peroxidases for Their Antioxidative Properties

  POLJOVKA Andrej MUSIL Miloš BEDNÁŘ David CHOVANOVA Katarina BAUEROVA-HLINKOVA Vladena BELLOVA Jana KOHUTOVA Lenka BARATH Peter ZAMOCKY Marcel

  Article in Periodical

  Antioxidants, year: 2023, volume: 12, edition: 7, DOI

• Computer-assisted stabilization of fibroblast growth factor FGF-18

  VILÍM Jan GHAZALOVÁ Tereza PETULOVÁ Eliška HORACKOVA Aneta STEPANKOVA Veronika CHALOUPKOVÁ Radka BEDNÁŘ David DAMBORSKÝ Jiří PROKOP Zbyněk

  Article in Periodical

  Computational and Structural Biotechnology Journal, year: 2023, volume: 21, edition: October 2023, DOI

• Domino-like effect of C112R mutation on ApoE4 aggregation and its reduction by Alzheimer’s Disease drug candidate

  NEMERGUT Michal MARQUES Sérgio Manuel UHRÍK Lukáš VÁŇOVÁ Tereza NEZVEDOVÁ Markéta GADARA Darshak Chandulal JHA Durga TULIS Jan NOVÁKOVÁ Veronika PLANAS IGLESIAS Joan KUNKA Antonín LEGRAND Anthony Thomas P HŘÍBKOVÁ Hana POSPÍŠILOVÁ Veronika SEDMÍK Jiří RAŠKA Jan PROKOP Zbyněk DAMBORSKÝ Jiří BOHAČIAKOVÁ Dáša SPÁČIL Zdeněk HERNYCHOVÁ Lenka BEDNÁŘ David MAREK Martin

  Article in Periodical

  Molecular Neurodegeneration, year: 2023, volume: 18, edition: 1, DOI