Community and user Support

Articles

• AlphaFind v2: similarity search in AlphaFold DB and TED domains across structural contexts

  SLANINÁKOVÁ Terézia ROŠINEC Adrián ČILLÍK Jakub KŘENEK Aleš GREŠOVÁ Katarína PORUBSKÁ Jana MARŠÁLKOVÁ Eva OĽHA Jaroslav PROCHÁZKA David HEJTMÁNEK Lukáš DOHNAL Vlastislav BERKA Karel SVOBODOVÁ Radka ANTOL Matej

  Peer-reviewed scientific article

  NUCLEIC ACIDS RESEARCH, year: 2026, DOI

• Analysis of cyclohexane, cyclopentane, and benzene conformations in ligands for PDB X-ray structures using the Hill-Reilly approach

  BUČEKOVÁ Gabriela DOSHCHENKO Viktoriia SVOBODA Tomáš PORUBSKÁ Jana CHARESHNEU Aliaksei RAČEK Tomáš HORSKÝ Vladimír SVOBODOVÁ Radka SCHINDLER Ondřej

  Peer-reviewed scientific article

  Journal of Cheminformatics, year: 2026, volume: 18, edition: 1, DOI

• Atomic Charge Calculator III: a modern platform for calculating partial atomic charges

  RAČEK Tomáš PILÁT Martin SCHINDLER Ondřej BUČEKOVÁ Gabriela TICHÝ Dominik BERKA Karel SVOBODOVÁ Radka

  Peer-reviewed scientific article

  Nucleic Acids Research, year: 2026, DOI

• bio.tools: an expanded web service for research software in the life sciences

  MENDES Ana I S IENASESCU Hans ANDERSEN Christian A T CALHOUN Erin CHMURA Piotr J COLLIER Keiler GOGA Iosif GUSTAFSSON Ove J R KALAŠ Matúš KIERKEGAARD Mads NIELSEN Niclas K JAANISO Erik JENSEN Jennifer R B LUDL Adriaan-Alexander MÉNAGER Hervé PALMBLAD Magnus MAGYAR Zsófia RAČEK Tomáš ROŠINEC Adrián RUSZ Filip STEEGHS-TURCHINA Mariia SZMIGIEL Aleksandra SVOBODOVÁ Radka SCHWÄMMLE Veit

  Peer-reviewed scientific article

  Nucleic Acids Research, year: 2026, DOI

• Foldify: Web Application for Protein Structure Prediction

  ĎURÁČIOVÁ Romana CAPANDOVÁ Michaela BERKA Karel SVOBODOVÁ Radka SLANINÁKOVÁ Terézia KOVÁČ Kristián ANTOL Matej HEJTMÁNEK Lukáš

  Peer-reviewed scientific article

  Journal of Chemical Information and Modeling, year: 2026, volume: 66, edition: 13, DOI

• MolViewStories: Interactive molecular storytelling

  SLANINÁKOVÁ Terézia CHARLOP-POWERS Zachary DOSHCHENKO Viktoriia ROSE Alexander S. MIDLIK Adam SEKULA Anna FONSECA Neli MORRIS Kyle L. BURLEY Stephen K. VELANKAR Sameer FLEMING Jennifer VALLAT Brinda AUTIN Ludovic SEHNAL David

  Peer-reviewed scientific article

  PROTEIN SCIENCE, year: 2026, volume: 35, edition: 4, DOI

• PROPTIMUS LIVE: local constrained α-carbon optimization of proteins

  SVOBODA Tomáš MIKUŠ Michal BOHUŠ Lukáš RAČEK Tomáš BUČEKOVÁ Gabriela TICHÝ Dominik BERKA Karel SVOBODOVÁ Radka SCHINDLER Ondřej

  Peer-reviewed scientific article

  Nucleic Acids Research, year: 2026, volume: 54, edition: W1, DOI

Conference proceedings

• On the Costs and Benefits of Learned Indexing for Dynamic High-Dimensional Data

  SLANINÁKOVÁ Terézia OĽHA Jaroslav PROCHÁZKA David ANTOL Matej DOHNAL Vlastislav

  Paper in proceedings

  Big Data Analytics and Knowledge Discovery 27th International Conference, DaWaK 2025, Bangkok, Thailand, August 25–27, 2025, Proceedings, year: 2026