Research e-Infrastructure

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

• 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

• Privacy-preserving data quality assessment for federated health data networks

  TOMÁŠIK Radovan KUSSEL Tobias DUDOVÁ Zdenka KACOVÁ Radoslava HRSTKA Roman LABLANS Martin HOLUB Petr

  Peer-reviewed scientific article

  BMC MEDICAL INFORMATICS AND DECISION MAKING, year: 2026, volume: 26, edition: 1, 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

• The impact of environmental exposures on DNA methylation in the EXPANSE project

  VOGLI Megi JEONG Ayoung YU Zhebin VONK Judith M IBI Dorina KRONBERG Jaanika GREGOR Petr MAIER Lisa LESKIEN Miriam CIRACH Marta DADVAND Payam MIKEŠ Ondřej GRUZIEVA Olena GEHRING Ulrike WOLF Kathrin WALDENBERGER Melanie IMBODEN Medea ČUPR Pavel DE HOOGH Kees KOPPELMAN Gerard H MELÉN Erik PICKFORD Regina THIERING Elisabeth STANDL Marie SAUCY Apolline TONNE Cathryn O'CALLAGHAN Cristina KOGEVINAS Manolis NIEUWENHUIJSEN Mark ORTEGA Natalia OLMOS Sergio WALKER Douglas BEULENS Joline PINHO Maria Gabriela Matias MACKENBACH Joreintje IACOVIELLO Licia PORTA Daniela ASTA Federica CULASSO Martina STAFOGGIA Massimo DE WIT Ardine SONNENSCHEIN Tabea SCHEIDER Simon JONGSMA Karin BREDENOORD Annelien SAFARLOU Caspar OUDIN Anna FORSBERG Bertil OLSSON David BOTTAI Matteo WHEELOCK Craig ANNILO Tarmo ESKO Tonu LUIGIES René TIEBEN Rob CARRERAS Anna DE CID Rafael CORTÉS Beatriz OBON Mireia BODINIER Barbara VUCKOVIC Dragana PETROVIC Dusan QUINT Jennifer CHADEAU-HYAM Marc WHITAKER Matthew VINEIS Paolo FILIPPI Sarah DAGNINIO Sonia WRIGHT Thomas ZUBER Verena BERGSTRÖM Anna PERSHAGEN Göran LJUNGMAN Petter HE Shizhen PIKHART Hynek BOBÁK Martin SCHNEIDER Alexandra PETERS Annette BREITNER Susanne ZHAO Tianyu SCALBERT Augustin HUYBRECHTS Inge GUNTER Marc KESKI-RAHKONEN Pekka SALEK Reza KLÁNOVÁ Jana ANDRÝSKOVÁ Lenka PILER Pavel HŮLEK Richard DUDOVÁ Zdenka JANSSEN Nicole BUSSALLEU Alonso FLÜCKIGER Benjamin VIENNEAU Danielle KEIDEL Dirk SCHAFFNER Emmanuel LOVISON Gianfranco EZE Ikenna KWIATKOWSKI Marek PROBST-HENSCH Nicole DELPIERRE Cyrille MAUREL Marine KELLY-IRVING Michelle CASTAGNÉ Raphaële LEPAGE Benoit SAMOLI Evangelia KATSOUYANNI Klea DIMAKOPOULOU Konstantina RODOPOULOU Sophia KASDAGLI Maria Iosifina EVANGELOPOULOS Dimitris HUSS Anke KROP Esmeralda HOEK Gerard VLAANDEREN Jelle YOU Jingxian KERCKHOFFS Jules KYRIAKOU Kalliopi PORTENGEN Lützen EBBERINK Martje VERMEULEN Roel YOU-CHEN Shen YUAN Zhendong LAKERVELD Jeroen GIALLUISI Alessandro MILLER Gary VAN RIJSWIJK Jurriaan COSTANZO Simona RUTTEN Werner MAŃCZUK Marta KOCZKODAJ Paweł CIUBA Agata POLAŃSKA Kinga HANKE Wojciech JANKOWSKA Agnieszka PAC Agnieszka SOCHACKA-TATARA Elzbieta MAJEWSKA Renata

  Peer-reviewed scientific article

  EBioMedicine, year: 2026, volume: 123, edition: January 2026, DOI

Conference proceedings

• Kubernetes Scheduling with Checkpoint/Restore: Challenges and Open Problems

  SPIŠAKOVÁ Viktória STOYANOV Radostin HEJTMÁNEK Lukáš KLUSÁČEK Dalibor REBER Adrian BRUNO Rodrigo

  Paper in proceedings

  Job Scheduling Strategies for Parallel Processing, year: 2026

• 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

• Opportunistic Resource Reclamation in Kubernetes: From Aggressive Resizing to Flash Jobs

  SPIŠAKOVÁ Viktória STOYANOV Radostin KLUSÁČEK Dalibor HEJTMÁNEK Lukáš

  Paper in proceedings

  Job Scheduling Strategies for Parallel Processing, year: 2026