Publications

2019

• ValTrendsDB: bringing Protein Data Bank validation information closer to the user

  HORSKÝ Vladimír BENDOVÁ Veronika TOUŠEK Dominik KOČA Jaroslav SVOBODOVÁ VAŘEKOVÁ Radka

  Article in Periodical

  Bioinformatics, year: 2019, volume: 35, edition: 24, DOI

2018

• ChannelsDB: database of biomacromolecular tunnels and pores

  PRAVDA Lukáš SEHNAL David SVOBODOVÁ VAŘEKOVÁ Radka NAVRÁTILOVÁ Veronika TOUŠEK Dominik BERKA Karel OTYEPKA Michal KOČA Jaroslav

  Article in Periodical

  Nucleic Acids Research, year: 2018, volume: 46, edition: D1, DOI

• Molecular evolution and diversification of the SMXL gene family

  MOTURU Tarakaramji THULA Sravankumar SINGH R.K. NODZYNSKI Tomasz SVOBODOVÁ VAŘEKOVÁ Radka FRIML J. SIMON Sibu

  Article in Periodical

  Journal of Experimental Botany, year: 2018, volume: 69, edition: 9, DOI

• MOLEonline: a web-based tool for analyzing channels, tunnels and pores (2018 update)

  PRAVDA Lukáš SEHNAL David TOUŠEK Dominik NAVRÁTILOVÁ Veronika BAZGIER Václav BERKA Karel SVOBODOVÁ VAŘEKOVÁ Radka KOČA Jaroslav OTYEPKA Michal

  Article in Periodical

  Nucleic Acids Research, year: 2018, volume: 46, edition: W1, DOI

• PDBsum: Structural summaries of PDB entries

  LASKOWSKI R.A. JABŁOŃSKA Jagoda PRAVDA Lukáš SVOBODOVÁ VAŘEKOVÁ Radka THORNTON Janet M

  Article in Periodical

  Protein Science, year: 2018, volume: 27, edition: 1, DOI

• SugarSketcher: Quick and Intuitive Online Glycan Drawing

  ALOCCI Davide SUCHÁNKOVÁ Pavla COSTA Renaud HORY Nicolas MARIETHOZ Julien SVOBODOVÁ VAŘEKOVÁ Radka TOUKACH Philip LISACEK Frederique

  Article in Periodical

  Molecules, year: 2018, volume: 23, edition: 12, DOI

• Validation of ligands in macromolecular structures determined by X-ray crystallography

  SMART Oliver S. HORSKÝ Vladimír GORE Swanand SVOBODOVÁ VAŘEKOVÁ Radka BENDOVÁ Veronika KLEYWEGT Gerard J. VELANKAR Sameer

  Article in Periodical

  Acta Crystallographica Section D, year: 2018, volume: 74, edition: 3, DOI

• Worldwide Protein Data Bank validation information: usage and trends

  SMART Oliver S. HORSKÝ Vladimír GORE Swanand SVOBODOVÁ VAŘEKOVÁ Radka BENDOVÁ Veronika KLEYWEGT Gerard J. VELANKAR Sameer

  Article in Periodical

  Acta Crystallographica Section D, year: 2018, volume: 74, edition: MAR, DOI

2017

• Four simple recommendations to encourage best practices in research software

  JIMÉNEZ Rafael C KUZAK Mateusz ALHAMDOOSH Monther BARKER Michelle BATUT Bérénice BORG Mikael CAPELLA-GUTIERREZ Salvador HONG Neil Chue COOK Martin CORPAS Manuel FLANNERY Madison GARCIA Leyla GELPÍ Josep Ll GLADMAN Simon GOBLE Carole FERREIRO Montserrat González GONZALEZ-BELTRAN Alejandra GRIFFIN Philippa C GRÜNING Björn HAGBERG Jonas HOLUB Petr HOOFT Rob ISON Jon KATZ Daniel S LESKOŠEK Brane GÓMEZ Federico López OLIVEIRA Luis J MELLOR David MOSBERGEN Rowland MULDER Nicola PEREZ-RIVEROL Yasset PERGL Robert PICHLER Horst POPE Bernard SANZ Ferran SCHNEIDER Maria V STODDEN Victoria SUCHECKI Radosław SVOBODOVÁ VAŘEKOVÁ Radka TALVIK Harry-Anton TODOROV Ilian TRELOAR Andrew TYAGI Sonika GOMPEL Maarten van VAUGHAN Daniel VIA Allegra WANG Xiaochuan WATSON-HAIGH Nathan S STEVE Crouch

  Article in Periodical

  F1000Research, year: 2017, volume: 6, edition: JUN, DOI

• LiteMol suite: interactive web-based visualization of large-scale macromolecular structure data

  SEHNAL David DESHPANDE Mandar SVOBODOVÁ VAŘEKOVÁ Radka MIR Saqib BERKA Karel MIDLIK Adam PRAVDA Lukáš VELANKAR Sameer KOČA Jaroslav

  Article in Periodical

  Nature Methods, year: 2017, volume: 14, edition: 12, DOI