Publication Records

HANOUSEK, Tomáš, Terézia SLANINÁKOVÁ, Tomáš REBOK and Růžena JANOUTOVÁ. A dataset of hyperspectral Look-Up Tables for 3.5 million traits and structural combinations of Central European temperate broadleaf forests. 2024. Available from: https://dx.doi.org/10.48700/datst.bcnpf-47q73.

FLORIS-JAN, Willemsen, Richard SCHOONHOVEN, Jiří FILIPOVIČ, Jacob O. TØRRING, Rob van NIEUWPOORT and Ben van WERKHOVEN. A methodology for comparing optimization algorithms for auto-tuning. Future Generation Computer Systems. Amsterdam, The Netherlands: Elsevier Science, 2024, vol. 109, October 2024, p. 489-504. ISSN 0167-739X. Available from: https://dx.doi.org/10.1016/j.future.2024.05.021.

HRADISKÁ, Helena, Martin KUREČKA, Jan BERÁNEK, Guglielmo TEDESCHI, Vladimír VIŠŇOVSKÝ, Aleš KŘENEK and Vojtěch SPIWOK. Acceleration of Molecular Simulations by Parametric Time-Lagged tSNE Metadynamics. The Journal of Physical Chemistry B. 2024. ISSN 1520-6106. Available from: https://dx.doi.org/10.1021/acs.jpcb.3c05669.

SLANINÁKOVÁ, Terézia, David PROCHÁZKA, Jakub ČILLÍK, Lucie NOVOTNÁ and Adrián ROŠINEC. AlphaFind. 2024. Available from: https://dx.doi.org/10.5281/zenodo.11085862.

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.

GREŠOVÁ, Katarína, Pavlína ŠPRINGEROVÁ, Terézia SLANINÁKOVÁ, David PROCHÁZKA, Jaroslav OĽHA, Adrián ROŠINEC, Miriama JÁNOŠOVÁ, Jakub ČILLÍK, Jana PORUBSKÁ, Radka SVOBODOVÁ, Vlastislav DOHNAL and Matej ANTOL. AlphaFind — discover structure similarity across the proteome in AlphaFold DB. In ECCB2024. 2024.

PROCHÁZKA, David, Terézia SLANINÁKOVÁ, Jaroslav OĽHA, Adrián ROŠINEC, Katarína GREŠOVÁ, Miriama JÁNOŠOVÁ, Jakub ČILLÍK, Jana PORUBSKÁ, Radka SVOBODOVÁ, Vlastislav DOHNAL and Matej ANTOL. AlphaFind: Discover structure similarity across the entire known proteome. bioRxiv, 2024.

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.

PROCHÁZKA, David, Terézia SLANINÁKOVÁ, Jaroslav OĽHA, Adrián ROŠINEC, Katarína GREŠOVÁ, Miriama JÁNOŠOVÁ, Jakub ČILLÍK, Jana PORUBSKÁ, Radka SVOBODOVÁ, Vlastislav DOHNAL and Matej ANTOL. AlphaFind: discover structure similarity across the proteome in AlphaFold DB. Nucleic acids research. Oxford: Oxford University Press, 2024, vol. 52, July 5, p. "W182"-"W186", 5 pp. ISSN 0305-1048. Available from: https://dx.doi.org/10.1093/nar/gkae397.

BERANEK, Jan, Aleš KŘENEK and Vojtěch SPIWOK. Analysis of metadynamics simulations by metadynminer.py. Bioinformatics. OXFORD: Oxford University Press, 2024, vol. 40, No 10, 4 pp. ISSN 1367-4803. Available from: https://dx.doi.org/10.1093/bioinformatics/btae614.

ROŠINEC, Adrián, Tomáš PAVLÍK, Terézia SLANINÁKOVÁ, Aleš KŘENEK, Pavlína ŠPRINGEROVÁ, Matej ANTOL and Radka SVOBODOVÁ. Beyond Metadata: Leveraging Similarity Search in Molecular Dynamics Data. In 2nd BioExcel Conference on Advances in Biomolecular Simulations. 2024. Available from: https://dx.doi.org/10.5281/zenodo.14500696.

CAPANDOVÁ, Michaela, Veronika SEDLÁKOVÁ, Zbyněk VORÁČ, Hana KOTASOVÁ, Jana DUMKOVÁ, Lukáš MORÁŇ, Josef JAROŠ, Matej ANTOL, Dáša BOHAČIAKOVÁ and Aleš HAMPL. Cells, biomaterials, infrastructure; and the value of the data. In 2. Offsite Meeting of the Department of Histology and Embryology (ÚHE): Advancing Science and Collaboration. 2024. ISBN 978-80-280-0587-0.

HÁJEK, Adam and Aleš HORÁK. CzeGPT-2 – Training New Model for Czech Generative Text Processing Evaluated with the Summarization Task. IEEE ACCESS. UNITED STATES: IEEE-INST ELECTRICAL ELECTRONICS ENGINEERS INC, 2024, vol. 2024, No 12, p. 34570-34581. ISSN 2169-3536. Available from: https://dx.doi.org/10.1109/ACCESS.2024.3371689.

SVOBODA, Tomáš, Jakub ČILLÍK, Michal MIKL, Tomáš SLAVÍČEK and Radka SVOBODOVÁ. Data Management and FAIRification in MAFIL. In Czech‐BioImaging Annual Scientific Conference 2024: Imaging Principles of Life. 2024.

SVOBODA, Tomáš, Adrián ROŠINEC, Tomáš RAČEK and Radka SVOBODOVÁ. Data Management of Biological Imaging Data. In ELIXIR CZ Annual Conference 2024: Data management. 2024.

SVOBODA, Tomáš and Adrián ROŠINEC. Data workflows at CEITEC MU. In Setkání OS metodiků MU. 2024.

HARUTYUNYAN, Suren, Eduardo CÉSAR, Anna SIKORA, Jiří FILIPOVIČ, Akash DUTTA, Ali JANNESARI and Jordi ALCARAZ. Efficient Code Region Characterization Through Automatic Performance Counters Reduction Using Machine Learning Techniques. Online. In European Conference on Parallel Processing. Madrid, Spain: Springer Nature Switzerland, 2024, p. 18-32. ISBN 978-3-031-69576-6. Available from: https://dx.doi.org/10.1007/978-3-031-69577-3_2.

ANTOL, Matej, Jiří MAREK, Michaela CAPANDOVÁ, Jaroslav JURÁČEK and Luděk MATYSKA. EOSC CZ: Towards the development of Czech national ecosystem for FAIR research data. arXiv, 2024, 2 pp.

VÍTEČEK, Jan, Andrea VÍTEČKOVÁ WÜNSCHOVÁ, Sandra THALEROVÁ, Sumeet GULATI, Lukáš KUBALA, Michaela CAPANDOVÁ, Aleš HAMPL and Robert MIKULÍK. Factors influencing the efficacy of recombinant tissue plasminogen activator: Implications for ischemic stroke treatment. PLOS ONE. SAN FRANCISCO: PUBLIC LIBRARY SCIENCE, 2024, vol. 6, No 19, p. 1-13. ISSN 1932-6203. Available from: https://dx.doi.org/10.1371/journal.pone.0302269.

VÍTEČEK, Jan, Andrea VÍTEČKOVÁ WÜNSCHOVÁ, Sandra THALEROVÁ, Sumeet GULATI, Lukáš KUBALA, Michaela CAPANDOVÁ, Aleš HAMPL and Robert MIKULÍK. Factors influencing the efficacy of recombinant tissue plasminogen activator: Implications for ischemic stroke treatment. Plos one. San Francisco: Public Library of Science, 2024, vol. 19, No 6, p. 1-13. ISSN 1932-6203. Available from: https://dx.doi.org/10.1371/journal.pone.0302269.

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.

DAUBNER, Lukáš, Barbora BÜHNOVÁ and Tomáš PITNER. Forensic experts' view of forensic-ready software systems: A qualitative study. Journal of Software: Evolution and Process. HOBOKEN: WILEY, 2024, vol. 36, No 5, p. 1-23. ISSN 2047-7473. Available from: https://dx.doi.org/10.1002/smr.2598.

DAUBNER, Lukáš, Sofija MAKSOVIĆ, Raimundas MATULEVIČIUS, Barbora BÜHNOVÁ and Tomáš SEDLÁČEK. Forensic-Ready Analysis Suite: A Tool Support for Forensic-Ready Software Systems Design. Online. In International Conference on Research Challenges in Information Science (RCIS 2024). Neuveden: Springer, 2024, p. 47–55. ISBN 978-3-031-59467-0. Available from: https://dx.doi.org/10.1007/978-3-031-59468-7_6.

DAUBNER, Lukáš, Sofija MAKSOVIĆ and Tomáš SEDLÁČEK. FREAS: Forensic-Ready Analysis Suite. 2024.

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.

SVOBODA, Tomáš, Adrián ROŠINEC and Ondřej FILIP. Hands-on experience with big data transfer via iRODS and Onedata. In e-INFRA CZ CONFERENCE 2024. 2024.

HANOUSEK, Tomáš, Terézia SLANINÁKOVÁ, Tomáš REBOK and Růžena JANOUTOVÁ. High spatial and spectral resolution dataset of hyperspectral look-up tables for 3.5 million traits and structural combinations of Central European temperate broadleaf forests. DATA IN BRIEF. NETHERLANDS: ELSEVIER, 2024, vol. 57, December 2024, p. 1-13. ISSN 2352-3409. Available from: https://dx.doi.org/10.1016/j.dib.2024.111105.

ŠPAČKOVÁ, Anna, Ondřej VÁVRA, Tomáš RAČEK, Václav BAZGIER, David SEHNAL, Jiří DAMBORSKÝ, Radka SVOBODOVÁ, David BEDNÁŘ and Karel BERKA. ChannelsDB 2.0: a comprehensive database of protein tunnels and pores in AlphaFold era. Nucleic Acids Research. Oxford University Press, 2024, vol. 52, D1, p. "D413"-"D418", 6 pp. ISSN 0305-1048. Available from: https://dx.doi.org/10.1093/nar/gkad1012.

KUESS, Lukas, Ernst PAUNZEN, Nikola FALTOVÁ, Daniel JADLOVSKÝ, Matúš LABAJ, Marko MESARČ, Prapti MONDAL, Michal PRIŠEGEN, Tahereh RAMEZANI, Johana SUPÍKOVÁ, Kateřina SVAČINKOVÁ, Michaela VÍTKOVÁ, Caiyun XIA, Klaus BERNHARD and Stefan HÜMMERICH. Chemically peculiar stars on the pre-main sequence. Astronomy & Astrophysics. EDP Sciences, 2024, vol. 687, July 2024, p. 1-24. ISSN 0004-6361. Available from: https://dx.doi.org/10.1051/0004-6361/202348926.

KACOVÁ, Radoslava, Zdenka DUDOVÁ, Tomáš HOUFEK, Radovan TOMÁŠIK and Roman HRSTKA. Integration, Cataloguing and FAIRification of Biobank and Clinical Data. In Europe Biobank Week Congress 2024. 2024.

KÉPEŠ, Erik, Jakub VRÁBEL, Tomáš BRÁZDIL, Petr HOLUB, Pavel POŘÍZKA and Jozef KAISER. Interpreting convolutional neural network classifiers applied to laser-induced breakdown optical emission spectra. Talanta. AMSTERDAM: Elsevier, 2024, vol. 266, No 124946, p. 1-11. ISSN 0039-9140. Available from: https://dx.doi.org/10.1016/j.talanta.2023.124946.

ROŠINEC, Adrián. Introduction to the new generation EGI container execution platform. In EGI Webinar programme 2024. 2024. Available from: https://dx.doi.org/10.5281/zenodo.10566759.

HRŮZA, Filip, Martin GREGOR, Kristýna TULISOVÁ, Kateřina NOVÁKOVÁ, Lucia HRŮZOVÁ, Martin DVOŘÁK and Jan ZVARA. Koncepce rozvoje svazku obcí Tišnovsko (Concept of Development of the Tišnov Region Union of Municipalities). 2024.

SLANINÁKOVÁ, Terézia and David PROCHÁZKA. Learned Metric Index. 2024. Available from: https://dx.doi.org/10.5281/zenodo.13860051.

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.

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.

SVOBODA, Tomáš. MAFILDB - technická realizace (MAFILDB - technical implementation). In FAIR data pro uživatele CF MAFIL. 2024.

HERŮDKOVÁ, Jarmila, Türkan PORTAKAL, Vítězslav HAVLÍČEK, Vendula PELKOVÁ, Katarína ČIMBOROVÁ, Lukáš PEČINKA, Lukáš MORÁŇ, Volodymyr POROKH, Michaela CAPANDOVÁ, Hana KOTASOVÁ, Aleš HAMPL and Petr VAŇHARA. Pluripotent stem cell-derived expandable lung epithelial progenitors as a tool for investigation of ER- associated lung stress and regeneration. In International Society for Stem Cell Research Annual Meeting. 10-13.7.2024. Hamburg, Německo. 2024.

HECHT, Helge, Wudmir Yudy ROJAS VERASTEGUI, Zargham AHMAD, Aleš KŘENEK, Jana KLÁNOVÁ and Elliott James PRICE. Quantum Chemistry-Based Prediction of Electron Ionization Mass Spectra for Environmental Chemicals. Analytical chemistry. WASHINGTON: American Chemical Society, 2024, vol. 96, No 33, p. 13652-13662. ISSN 0003-2700. Available from: https://dx.doi.org/10.1021/acs.analchem.4c02589.

BUČEKOVÁ, Gabriela, Viktoriia DOSHCHENKO, Aliaksei CHARESHNEU, Jana PORUBSKÁ, Michal PAJTINKA, Michal OLEKSIK, Tomáš SVOBODA, Vladimír HORSKÝ and Radka SVOBODOVÁ. Rare ring conformations in PDB: Facts or wishful thinking? bioRxiv. 2024. Available from: https://dx.doi.org/10.1101/2024.06.20.598822.

GREŠOVÁ, Katarína, Tomáš RAČEK, Vlastimil MARTINEK, David ČECHÁK, Radka SVOBODOVÁ and Panagiotis ALEXIOU. RBP-Tar – a searchable database for experimental RBP binding sites. F1000Research. 2024. Available from: https://dx.doi.org/10.12688/f1000research.131014.2.

LEO, Simone, Michael R CRUSOE, Laura RODRÍGUEZ-NAVAS, Raül SIRVENT, Alexander KANITZ, De Geest PAUL, Rudolf WITTNER, Luca PIREDDU, Daniel GARIJO, José M FERNÁNDEZ, Iacopo COLONNELLI, Matej GALLO, Tazro OHTA, Hirotaka SUETAKE, Salvador CAPELLA-GUTIERREZ, Renske DE WIT, Bruno P KINOSHITA and Stian SOILAND-REYES. Recording provenance of workflow runs with RO-Crate. PLOS ONE. 2024, vol. 19, No 9, p. 1-35. ISSN 1932-6203. Available from: https://dx.doi.org/10.1371/journal.pone.0309210.

ROŠINEC, Adrián and Tomáš SVOBODA. Research Data Management at CEITEC MU. In Open Science Workshop 2024. 2024.

PROCHÁZKA, David, Terézia SLANINÁKOVÁ, Jozef ČERŇANSKÝ, Jaroslav OĽHA, Matej ANTOL and Vlastislav DOHNAL. Scaling Learned Metric Index to 100M Datasets. In Edgar Chávez, Benjamin Kimia, Jakub Lokoč, Marco Patella, Jan Sedmidubsky. 17th International Conference on Similarity Search and Applications (SISAP 2024). Cham: Springer, 2024, p. 266-273. ISBN 978-3-031-75822-5. Available from: https://dx.doi.org/10.1007/978-3-031-75823-2_22.

SVOBODA, Tomáš, Adrián ROŠINEC, Tomáš RAČEK, Josef HANDL, Aleš KŘENEK and Radka SVOBODOVÁ. Scientific Dataset Management System for the Research Institute Based on Onedata. In EGI Conference 2024. 2024.

HANOUSEK, Tomáš, Terézia SLANINÁKOVÁ, Růžena JANOUTOVÁ, Marian ŠVIK and Tomáš REBOK. Simulated trait and spectroscopy data to support retrieval of forest biophysical parameters from spaceborne imaging spectroscopy. In 3rd WORKSHOP ON INTERNATIONAL COOPERATION IN SPACEBORNE IMAGING SPECTROSCOPY. 2024.

PEŠÁN, Jan, Vojtěch JUŘÍK, Alexandra RUŽIČKOVÁ, Vojtěch SVOBODA, Oto JANOUŠEK, Andrea NĚMCOVÁ, Hana BOJANOVSKÁ, Jasmína ALDABAGHOVÁ, Filip KYSLÍK, Kateřina VODIČKOVÁ, Adéla SODOMOVÁ, Patrik BARTYS, Peter CHUDÝ and Jan ČERNOCKÝ. Speech production under stress for machine learning: multimodal dataset of 79 cases and 8 signals. SCIENTIFIC DATA. London: SPRINGER NATURE, 2024, vol. 11, No 1221, p. 1-9. ISSN 2052-4463. Available from: https://dx.doi.org/10.1038/s41597-024-03991-w.

ŠEJNA, Erik. Test Anxiety Among Czech Pupils in Lower-Secondary Education. Studia paedagogica. Brno, 2024, vol. 29, No 2, p. 108-127. ISSN 1803-7437. Available from: https://dx.doi.org/10.5817/SP2024-2-5.

ŠEJNA, Erik. Testová úzkost a sociálně-afektivní indikátory well-beingu v nižším sekundárním vzdělávání (Test Anxiety and Social-Affective Indicators of Well-being in Lower-Secondary Education). Online. In Andrea Rozkovcová, Jakub Pivarč. Sborník příspěvků z XXXII. výroční konference České asociace pedagogického výzkumu: SPOLUPRÁCE OBORŮ PRO PODPORU KVALITY VZDĚLÁVÁNÍ. Česká asociace pedagogického výzkumu, 2024, p. 43-89. ISBN 978-80-7392-421-8.

DRAŠAR, Martin, Ádám RUMAN, Pavel ČELEDA and Yang SCHANCHIEH. The Road Towards Autonomous Cybersecurity Agents: Remedies for Simulation Environments. Online. In Sokratis Katsikas et al. ESORICS 2023: Computer Security. ESORICS 2023 International Workshops. Neuveden: Springer Nature Switzerland AG, 2024, p. 738-749. ISBN 978-3-031-54128-5. Available from: https://dx.doi.org/10.1007/978-3-031-54129-2_43.

TOVARŇÁK, Daniel, Michal ČECH, Vojtěch DOHNAL, Martin HAMERNÍK, Matúš RAČEK and Dušan TICHÝ. The True Cost of Network Security Automation: Demo Playbook for Posture Assessment. Online. In NOMS 2024-2024 IEEE Network Operations and Management Symposium. New York, NY: IEEE Xplore Digital Library, 2024, p. 1-3. ISBN 979-8-3503-2793-9. Available from: https://dx.doi.org/10.1109/NOMS59830.2024.10575557.

WITTNER, Rudolf, Petr HOLUB, Cecilia MASCIA, Francesca FREXIA, Heimo MÜLLER, Markus PLASS, Clare ALLOCCA, Fay BETSOU, Tony BURDETT, Ibon CANCIO, Adriane CHAPMAN, Martin CHAPMAN, Mélanie COURTOT, Vasa CURCIN, Johann EDER, Mark ELLIOT, Katrina EXTER, Carole GOBLE, Martin GOLEBIEWSKI, Bron KISLER, Andreas KREMER, Simone LEO, Sheng LIN-GIBSON, Anna MARSANO, Marco MATTAVELLI, Josh MOORE, Hiroki NAKAE, Isabelle PERSEIL, Ayat SALMAN, James SLUKA, Stian SOILAND-REYES, Caterina STRAMBIO-DE-CASTILLIA, Michael SUSSMAN, Jason R SWEDLOW, Kurt ZATLOUKAL and Jörg GEIGER. Toward a common standard for data and specimen provenance in life sciences. LEARNING HEALTH SYSTEMS. UNITED STATES: WILEY, 2024, vol. 8, No 1, p. 1-9. ISSN 2379-6146. Available from: https://dx.doi.org/10.1002/lrh2.10365.

DEMEK, Miroslav and Jiří FILIPOVIČ. Towards Dynamic Autotuning of SpMV in CUSP Library. Online. In IEEE International Parallel and Distributed Processing Symposium Workshops (IPDPSW). San Francisco, USA: IEEE, 2024, p. 14-22. ISBN 979-8-3503-6461-3. Available from: https://dx.doi.org/10.1109/IPDPSW63119.2024.00012.

HUTEČKOVÁ, Barbora, Jan KŘIVÁNEK, Zuzana SUMBALOVÁ KOLEDOVÁ, Zuzana HOLUBCOVÁ, Matea BREZAK, Ivana AĆIMOVIĆ, Türkan PORTAKAL, Jana DUMKOVÁ, Lukáš MORÁŇ, Aleš HAMPL, Yelyzaveta MAKIEIEVA, Tereza VÁŇOVÁ, Dáša BOHAČIAKOVÁ, Václav CHOCHOLA, Josef JAROŠ, Katarína ČIMBOROVÁ, Irena KOUTNÁ, Michaela BOSÁKOVÁ, Tomáš BÁRTA, Vítězslav HAVLÍČEK, Soňa KLOUDOVÁ, Vincent Alexander JONGEN, Jarmila HERŮDKOVÁ, Marcos GONZÁLEZ LÓPEZ, Leoš BENÁK, Maryam AZAM, Haneen Riadh Ali TUAIMA, Margarita GORBULINA, Josef LAVICKÝ, Marina ŠTRUNCOVÁ, Erika MIKULENKOVÁ, Riza Can CAKMAKCI, Petr VAŇHARA, Vendula PELKOVÁ, Victorio Martin POZO DEVOTO, Hana KOTASOVÁ, Michaela KAVKOVÁ, Petr TAUŠ, David VYSLOUŽIL, Canan ÇELIKER, Kateřina AMRUZ ČERNÁ, Naděžda VAŠKOVICOVÁ, Tereza SOURALOVÁ, Volodymyr POROKH, Drahomíra KYJOVSKÁ, Daniela KROČIANOVÁ, Michaela CAPANDOVÁ, Veronika SEDLÁKOVÁ, Veronika FEDOROVÁ, Jan RAŠKA, Miriam SATKOVÁ, Petr FOJTÍK, Klára PLEŠINGROVÁ, Soňa CESNÁRIKOVÁ, Jiří SEDMÍK, Hana HŘÍBKOVÁ, Marko MEĆAVA, Adam HARMANEC, Veronika POSPÍŠILOVÁ, Tami BOČKOVÁ, Veronika BOSÁKOVÁ, Adam BOGDANOVIČ, Zbyněk ZDRÁHAL, Vladislav RAKULTSEV, Marcela BUCHTOVÁ, Simona BÁRTOVÁ and Petr GINTAR. 2. Offsite Meeting of the Department of Histology and Embryology (ÚHE): Advancing Science and Collaboration. Edition: 1., electronic. Brno: Masarykova Univerzita, 2024, 18 pp. ISBN 978-80-280-0587-0.

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.

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.

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.

DAUBNER, Lukáš, Raimundas MATULEVICIUS, Barbora BÜHNOVÁ, Matej ANTOL, Michal RŮŽIČKA and Tomáš PITNER. A Case Study on the Impact of Forensic-Ready Information Systems on the Security Posture. Online. In Advanced Information Systems Engineering. Cham: Springer Nature Switzerland, 2023, p. 522-538. ISBN 978-3-031-34559-3. Available from: https://dx.doi.org/10.1007/978-3-031-34560-9_31.

DAUBNER, Lukáš, Matulevičius RAIMUNDAS and Barbora BÜHNOVÁ. A Model of Qualitative Factors in Forensic-Ready Software Systems. Online. In Research Challenges in Information Science: Information Science and the Connected World. Cham: Springer Nature Switzerland, 2023, p. 308-324. ISBN 978-3-031-33079-7. Available from: https://dx.doi.org/10.1007/978-3-031-33080-3_19.

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DAUBNER, Lukáš, Martin MACÁK, Raimundas MATULEVIČIUS, Barbora BÜHNOVÁ, Sofija MAKSOVIĆ and Tomáš PITNER. Addressing insider attacks via forensic-ready risk management. JOURNAL OF INFORMATION SECURITY AND APPLICATIONS. ENGLAND: ELSEVIER, 2023, vol. 73, March 2023, p. 103433-103449. ISSN 2214-2126. Available from: https://dx.doi.org/10.1016/j.jisa.2023.103433.

LAMOTHE, Lucie, Jennifer R B JENSEN, Hans IENASESCU, Ove J R GUSTAFSSON, Alban GAIGNARD, Dmitry REPCHEVSKY, Radka SVOBODOVÁ, Tomáš RAČEK, Adrián ROŠINEC, Matej ANTOL and Hervé MÉNAGER. An Evaluation of EDAM Coverage in the Tools Ecosystem and Prototype Integration of Galaxy and Workflowhub Systems. BioHackrXiv. 2023, p. 1-10. Available from: https://dx.doi.org/10.37044/osf.io/79kje.

VOREL, Jiří, Nikol KMENTOVÁ, Christoph HAHN, Petr BUREŠ and Martin KAŠNÝ. An insight into the functional genomics and species classification of Eudiplozoon nipponicum (Monogenea, Diplozoidae), a haematophagous parasite of the common carp Cyprinus carpio. BMC Genomics. BioMed Central Ltd, 2023, vol. 24, No 1, p. 1-20. ISSN 1471-2164. Available from: https://dx.doi.org/10.1186/s12864-023-09461-8.

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ZAVADIL, Jan, Tomáš ROHAN, Jaroslav JURÁČEK, Igor KISS, Lenka OSTŘÍŽKOVÁ, Vlastimil VÁLEK, Ondřej SLABÝ and Tomáš ANDRAŠINA. Biomarkery jako prognostické a prediktivní faktory u pacientů s hepatocelulárním karcinomem podstupujících radiologické onkologické intervence (Biomarkers as prognostic and predictive factors in patient with hepatocellular carcinoma undergoing radiological oncological interventions). Klinická onkologie. Praha: Česká lékařská společnost J. E. Purkyně, 2023, vol. 36, No 2, p. 104-111. ISSN 0862-495X. Available from: https://dx.doi.org/10.48095/ccko2023104.

DAUBNER, Lukáš, Raimundas MATULEVIČIUS, Barbora BÜHNOVÁ and Tomáš PITNER. BPMN4FRSS: An BPMN Extension to Support Risk-Based Development of Forensic-Ready Software Systems. Online. In Evaluation of Novel Approaches to Software Engineering. Cham: Springer Nature Switzerland, 2023, p. 20-43. ISBN 978-3-031-36596-6. Available from: https://dx.doi.org/10.1007/978-3-031-36597-3_2.

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MACÁK, Martin, Tomáš REBOK, Matúš ŠTOVČIK, Mouzhi GE, Bruno ROSSI and Barbora BÜHNOVÁ. CopAS: A Big Data Forensic Analytics System. Online. In Proceedings of the 8th International Conference on Internet of Things, Big Data and Security IoTBDS - Volume 1. Setubal, Portugal: SciTePress, 2023, p. 150-161. ISBN 978-989-758-643-9. Available from: https://dx.doi.org/10.5220/0011929000003482.

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DAUBNER, Lukáš and Adam POVAŽANEC. Data Loss Prevention Solution for Linux Endpoint Devices. Online. In ARES '23: Proceedings of the 18th International Conference on Availability, Reliability and Security. United States: Association for Computing Machinery, 2023, p. 1-10. ISBN 979-8-4007-0772-8. Available from: https://dx.doi.org/10.1145/3600160.3605036.

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HERREROS, David, Roy R. LEDERMAN, James M. KRIEGER, Amaya JIMÉNEZ-MORENO, Marta MARTÍNEZ, David MYŠKA, David STŘELÁK, Jiří FILIPOVIČ, Carlos O. S. SORZANO and José M. CARAZO. Estimating conformational landscapes from Cryo-EM particles by 3D Zernike polynomials. Nature Communications. 2023, vol. 14, No 1, p. 1-10. ISSN 2041-1723. Available from: https://dx.doi.org/10.1038/s41467-023-35791-y.

DAUBNER, Lukáš, Barbora BÜHNOVÁ and Tomáš PITNER. Forensic experts' view of forensic-ready software systems: A qualitative study. Journal of Software: Evolution and Process. John Wiley & Sons Ltd., 2023, Neuveden, e2598, p. 1-23. ISSN 2047-7481. Available from: https://dx.doi.org/10.1002/smr.2598.

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ČERMÁK, Milan and Petr VELAN. How can network traffic lie? DFRWS EU 2023, 2023.

ŠPAČKOVÁ, Anna, Ondřej VÁVRA, Tomáš RAČEK, Václav BAZGIER, David SEHNAL, Jiří DAMBORSKÝ, Radka SVOBODOVÁ and Karel BERKA. ChannelsDB 2.0: A Comprehensive Database of Protein Tunnels and Pores in AlphaFold Era. In 3D-BioInfo | ICSB 3D-SIG | ELIXIR Czech Republic Community Meeting in Structural Bioinformatics. 2023.

SCHINDLER, Ondřej, Karel BERKA, Alessio CANTARA, Aleš KŘENEK, Dominik TICHÝ, Tomáš RAČEK and Radka SVOBODOVÁ. αCharges: partial atomic charges for AlphaFold structures in high quality. Nucleic Acids Research. Oxford: Oxford University Press, 2023, vol. 51, W1, p. "W11"-"W16", 6 pp. ISSN 0305-1048. Available from: https://dx.doi.org/10.1093/nar/gkad349.

SVOBODA, Tomáš, Radka SVOBODOVÁ, David ANTOŠ, Adrián ROŠINEC and Aleš KŘENEK. Introduction to Onedata at CEITEC MU and in Czech National Repository Platform. In MATECHat meeting. 2023.

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RAČEK, Tomáš, Tomáš SVOBODA and Radka SVOBODOVÁ. Management of life-science data and their metadata. In XXII. setkání biochemiků a molekulárních biologů. 2023.

KUREČKA, Martin. Monte Carlo Tree Search with Function Approximation for Risk-constrained Planning and Reinforcement Learning. In The IJCAI-23 Joint Workshop on Artificial Intelligence Safety and Safe Reinforcement Learning. 2023.

SVOBODOVÁ, Radka, Karel BERKA, Ivana HUTAŘOVÁ VAŘEKOVÁ, Tomáš RAČEK and Ondřej SCHINDLER. New ways of protein family visualization in AlphaFold era. In 3D-BioInfo | ICSB 3D-SIG | ELIXIR Czech Republic Community Meeting in Structural Bioinformatics. 2023.

SPIŠAKOVÁ, Viktória, Lukáš HEJTMÁNEK and Jakub HYNŠT. Nextflow in Bioinformatics: Executors Performance Comparison Using Genomics Data. FUTURE GENERATION COMPUTER SYSTEMS-THE INTERNATIONAL JOURNAL OF ESCIENCE. NETHERLANDS: ELSEVIER, 2023, vol. 142, May 2023, p. 328-339. ISSN 0167-739X. Available from: https://dx.doi.org/10.1016/j.future.2023.01.009.

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PLASS, Markus, Rudolf WITTNER, Petr HOLUB, Francesca FREXIA, Cecilia MASCIA, Matej GALLO, Heimo MÜLLER and Jörg GEIGER. Provenance of specimen and data – A prerequisite for AI development in computational pathology. NEW BIOTECHNOLOGY. NETHERLANDS: ELSEVIER, 2023, vol. 78, DEC, p. 22-28. ISSN 1871-6784. Available from: https://dx.doi.org/10.1016/j.nbt.2023.09.006.

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GALLO, Matej, Vojtěch KRAJŇANSKÝ, Rudolf NENUTIL, Petr HOLUB and Tomáš BRÁZDIL. Shedding light on the black box of a neural network used to detect prostate cancer in whole slide images by occlusion-based explainability. NEW BIOTECHNOLOGY. NETHERLANDS: ELSEVIER, 2023, vol. 78, December, p. 52-67. ISSN 1871-6784. Available from: https://dx.doi.org/10.1016/j.nbt.2023.09.008.

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MESSINA, Nicola, Jan SEDMIDUBSKÝ, Falchi FABRIZIO and Tomáš REBOK. Text-to-Motion Retrieval: Towards Joint Understanding of Human Motion Data and Natural Language. Online. In 46th International Conference on Research and Development in Information Retrieval (SIGIR). New York, NY, USA: Association for Computing Machinery, 2023, p. 2420-2425. ISBN 978-1-4503-9408-6. Available from: https://dx.doi.org/10.1145/3539618.3592069.

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DAVID, Romain, Audrey RICHARD, Claire CONNELLAN, Katharina LAUER, Maria Luisa CHIUSANO, Carole GOBLE, Martin HOUDE, Isabel KEMMER, Antje KEPPLER, Philippe LIEUTAUD, Christian OHMANN, Maria PANAGIOTOPOULOU, Sara Raza KHAN, Arina RYBINA, Stian SOILAND-REYES, Charlotte WIT, Rudolf WITTNER, Rafael Andrade BUONO, Sarah Arnaud MARSH, Pauline AUDERGON, Dylan BONFILS, Carazo JOSE-MARIA, Remi CHARREL, Frederik COPPENS, Wolfgang FECKE, Claudia FILIPPONE, Eva Garcia ALVAREZ, Sheraz GUL, Henning HERMJAKOB, Katja HERZOG, Petr HOLUB, Lukasz KOZERA, Allyson LISTER, José LÓPEZ-CORONADO, Bénédicte MADON, Kurt MAJCEN, William MARTIN, Wolfgang MÜLLER, Elli PAPADOPOULOU, Christine M.A. PRAT, Paolo ROMANO, Sansone SUSANNA-ASSUNTA, Gary SAUNDERS, Niklas BLOMBERG and Jonathan EWBANK. Umbrella Data Management Plans to Integrate FAIR Data: Lessons From the ISIDORe and BY-COVID Consortia for Pandemic Preparedness. Data Science Journal. Ubiquity Press, 2023. ISSN 1683-1470. Available from: https://dx.doi.org/10.5334/dsj-2023-035.

STŘELÁK, David, David MYŠKA, Filip PETROVIČ, Jan POLÁK, Jaroslav OĽHA and Jiří FILIPOVIČ. Umpalumpa: a framework for efficient execution of complex image processing workloads on heterogeneous nodes. Computing. Springer, 2023, vol. 105, No 11, p. 2389-2417. ISSN 0010-485X. Available from: https://dx.doi.org/10.1007/s00607-023-01190-w.

SPIŠAKOVÁ, Viktória, Dalibor KLUSÁČEK and Lukáš HEJTMÁNEK. Using Kubernetes in Academic Environment : Problems and Approaches. In Dalibor Klusáček, Julita Corbalán, Gonzalo P. Rodrigo. Job Scheduling Strategies for Parallel Processing. 1st ed. Cham (Switzerland): Springer, 2023, p. 235-253. ISBN 978-3-031-22697-7. Available from: https://dx.doi.org/10.1007/978-3-031-22698-4_12.

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HERREROS, David, Jakub KISKA, Erney RAMÍREZ-APORTELA, Jiří FILIPOVIČ, José María CARAZO and Carlos Oscar SORZANO. ZART: A Novel Multiresolution Reconstruction Algorithm with Motion-blur Correction for Single Particle Analysis. Journal of Molecular Biology. Elsevier, 2023, vol. 435, No 9, p. 1-14. ISSN 0022-2836. Available from: https://dx.doi.org/10.1016/j.jmb.2023.168088.

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SCHINDLER, Ondřej, Tomáš RAČEK and Radka SVOBODOVÁ. Alphacharges - a web service for calculating QM-like partial atomic charges for AlphaFold proteins. In XXI. setkání biochemiků a molekulárních biologů. 2022.

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ČELEDA, Pavel, Jakub ČEGAN, Kamil ANDONIADIS, Michal BERAN, František HRDINA, Tomáš JIRSÍK, Daniel KOUŘIL, Michal MAZOUREK, Radek OŠLEJŠEK, Michal PROCHÁZKA, Daniel TOVARŇÁK, Petr VELAN, Martin VIZVÁRY, Vadim JANOVSKIJ and Kristína ZÁKOPČANOVÁ. Software pro detekci a analýzu napadení KII (Software for detection and analysis of attacks on critical information infrastructures). 2019.

ČELEDA, Pavel, Jakub ČEGAN, Kamil ANDONIADIS, Milan ČERMÁK, Jan DUDA, Vlastimil HOLER, Ľuboš HYŽÁK, Boris JADUŠ, Jakub KADAŠI, David LEŠKA, Martin MACHÁČ, Ivo NUTÁR, Radek OŠLEJŠEK, Dominik PILÁR, Tomáš PLESNÍK, Michal PROCHÁZKA, Tomáš REBOK, Vít RUSŇÁK, Miloslav STANĚK, Pavel ŠEDA, Valdemar ŠVÁBENSKÝ, Daniel TOVARŇÁK, Petr VELAN, Martin VIZVÁRY, Jan VYKOPAL and Tatiana ZBONČÁKOVÁ. Software pro simulaci obecných i kritických informačních infrastruktur (Software for simulation of generic and critical information infrastructures). 2019.

CHREN, Stanislav, Radoslav MIČKO, Barbora BÜHNOVÁ and Bruno ROSSI. STRAIT: A Tool for Automated Software Reliability Growth Analysis. Online. In Margaret-Anne Storey. Proceedings of the 16th International Conference on Mining Software Repositories. Piscataway, NJ, USA: ACM, 2019, p. 105-110. ISBN 978-1-7281-3412-3. Available from: https://dx.doi.org/10.1109/MSR.2019.00025.

ISON, Jon, Hans IENASESCU, Piotr CHMURA, Emil RYDZA, Hervé MÉNAGER, Matúš KALAŠ, Veit SCHWÄMMLE, Björn GRÜNING, Niall BEARD, Rodrigo LOPEZ, Severine DUVAUD, Heinz STOCKINGER, Bengt PERSSON, Radka SVOBODOVÁ VAŘEKOVÁ, Tomáš RAČEK, Jiří VONDRÁŠEK, Hedi PETERSON, Ahto SALUMETS, Inge JONASSEN, Rob HOOFT, Tommi NYRÖNEN, Alfonso VALENCIA, Salvador CAPELLA, Josep GELPÍ, Federico ZAMBELLI, Babis SAVAKIS, Brane LESKOŠEK, Kristoffer RAPACKI, Christophe BLANCHET, Rafael JIMENEZ, Arlindo OLIVEIRA, Gert VRIEND, Olivier COLLIN, Jacques van HELDEN, Peter LØNGREEN and Søren BRUNAK. The bio.tools registry of software tools and data resources for the life sciences. GENOME BIOLOGY. LONDON: BIOMED CENTRAL LTD, 2019, vol. 20, No 164, p. 1-4. ISSN 1474-760X. Available from: https://dx.doi.org/10.1186/s13059-019-1772-6.

ŠTEFANKO, Martin, Ondřej CHALOUPKA and Bruno ROSSI. The Saga Pattern in a Reactive Microservices Environment. Online. In Marten van Sinderen and Leszek Maciaszek. 14th International Conference on Software Technologies (ICSOFT 2019). Prague: SciTePress, 2019, p. 483-490. ISBN 978-989-758-379-7. Available from: https://dx.doi.org/10.5220/0007918704830490.

MAŠKA, Martin, Tereza NEČASOVÁ, David WIESNER, Dmitry SOROKIN, Igor PETERLÍK, Vladimír ULMAN and David SVOBODA. Toward Robust Fully 3D Filopodium Segmentation and Tracking in Time-Lapse Fluorescence Microscopy. Online. In 26th IEEE International Conference on Image Processing. Taipei: IEEE, 2019, p. 819-823. ISBN 978-1-5386-6249-6. Available from: https://dx.doi.org/10.1109/ICIP.2019.8803721.

CIOROAICA, Emilia, Stanislav CHREN, Thomas KUHN, Barbora BÜHNOVÁ and Dimitar DIMITROV. Towards Creation of a Reference Architecture for Trust-Based Digital Ecosystems. In Proceedings of European Conference on Software Architecture (ECSA 2019) Workshops. Paris, France: ACM, 2019, p. 273-276. ISBN 978-1-4503-7142-1. Available from: https://dx.doi.org/10.1145/3344948.3344973.

MORRIS, Chris, Paolo ANDREETTO, Lucia BANCI, Alexandre M J J BONVIN, Grzegorz CHOJNOWSKI, Laura del CANO, José Marıa CARAZO, Pablo CONESA, Susan DAENKE, George DAMASKOS, Andrea GIACHETTI, Natalie E C HALEY, Maarten L HEKKELMAN, Philipp HEUSER, Robbie P JOOSTEN, Daniel KOUŘIL, Aleš KŘENEK, Tomáš KULHÁNEK, Victor S LAMZIN, Nurul NADZIRIN, Anastassis PERRAKIS, Antonio ROSATO, Fiona SANDERSON, Joan SEGURA, Joerg SCHAARSCHMIDT, Egor SOBOLEV, Sergio TRALDI, Mikael E TRELLET, Sameer VELANKAR, Marco VERLATO and Martyn WINN. West-Life: A Virtual Research Environment for structural biology. Journal of Structural Biology: X. 2019, vol. 1, January - March 2019, p. 1-8. ISSN 2590-1524. Available from: https://dx.doi.org/10.1016/j.yjsbx.2019.100006.

BÜHNOVÁ, Barbora and Dita PŘIKRYLOVÁ. Women Want to Learn Tech: Lessons from the Czechitas Education Project. Online. In Proceedings of the 2nd International Workshop on Gender Equality in Software Engineering. USA: IEEE Press, 2019, p. 25-28. ISBN 978-1-72812-245-8. Available from: https://dx.doi.org/10.1109/GE.2019.00013.

GE, Mouzhi and Fabio PERSIA. A Generalized Evaluation Framework for Multimedia Recommender Systems. International Journal of Semantic Computing. World Scientific, 2018, vol. 12, No 4, p. 541-557. ISSN 1793-351X. Available from: https://dx.doi.org/10.1142/S1793351X18500046.

LIPČÁK, Jakub and Bruno ROSSI. A Large-Scale Study on Source Code Reviewer Recommendation. Online. In 44th Euromicro Conference on Software Engineering and Advanced Applications (SEAA) 2018. Not specified: IEEE, 2018, p. 378-387. ISBN 978-1-5386-7383-6. Available from: https://dx.doi.org/10.1109/SEAA.2018.00068.

PAZÚRIKOVÁ, Jana, Jaroslav OĽHA, Aleš KŘENEK and Vojtěch SPIWOK. Acceleration of Mean Square Distance Calculations with Floating Close Structure in Metadynamics Simulations. arXiv, 2018, 22 pp. arXiv:1801.02362.

KIŠŠ, Filip and Bruno ROSSI. Agile to Lean Software Development Transformation: A Systematic Literature Review. Online. In 2018 Federated Conference on Computer Science and Information Systems (FedCSIS). Not specified: IEEE, 2018, p. 969-973. ISBN 978-83-949419-5-6. Available from: https://dx.doi.org/10.15439/2018F53.

GE, Mouzhi, Hind BANGUI and Barbora BÜHNOVÁ. Big Data for Internet of Things: A Survey. Future Generation Computer Systems. Elsevier, 2018, vol. 87, No 1, p. 601-614. ISSN 0167-739X. Available from: https://dx.doi.org/10.1016/j.future.2018.04.053.

TRACHTOVÁ, Karolína, Jan OPPELT, Kateřina AMRUZ ČERNÁ and Marek MRÁZ. Bioinformatic analysis of microRNAs and long non-coding RNAs in malignant B cells. In RNA and Disease, Uppsala, Sweden. 2018.

RAČEK, Tomáš, Radka SVOBODOVÁ VAŘEKOVÁ, Dan POLANSKÝ, Karel BERKA and Jaroslav KOČA. bio.tools Sum – tool for exploration of summary information about bioinformatics services in bio.tools. In F1000Research. 2018. Available from: https://dx.doi.org/10.7490/f1000research.1115564.1.

RAČEK, Tomáš, Radka SVOBODOVÁ VAŘEKOVÁ and Jaroslav KOČA. CCL - Charge Calculation Language. In ELIXIR CZ Annual Conference 2018. 2018. ISBN 978-80-86241-60-9.

LINDEN, Mikael, Michal PROCHÁZKA, Ilkka LAPPALAINEN, Dominik František BUČÍK, Pavel VYSKOČIL, Martin KUBA, Sami SILÉN, Peter BELMANN, Alexander SCZYRBA, Steven NEWHOUSE, Luděk MATYSKA and Tommi NYRÖNEN. Common ELIXIR Service for Researcher Authentication and Authorisation. F1000Research. F1000 Research Ltd., 2018, vol. 7, No 2018, p. 1-16. ISSN 2046-1402. Available from: https://dx.doi.org/10.12688/f1000research.15161.1.

KNÍŽEK, Jiří, Lubomír PAVLIŠKA, Václav PROCHÁZKA, Adéla VRTKOVÁ, Ladislav BERÁNEK, Pavel BOUCHAL, Bořivoj VOJTĚŠEK, Rudolf NENUTIL and Martin KUBA. Computation of Identification of a Gnostical Regression Model, Robust to Both Input and Output Disturbances with the Help of Parallel Computing–Basic Version. International Journal of Mathematics and Computation™. CESER, 2018, vol. 29, No 2, p. 29-58. ISSN 0974-5718.

SUCHÁNKOVÁ, Pavla and Radka SVOBODOVÁ VAŘEKOVÁ. Connection of glycoinformatics databases with Pubchem. In ENBIK. 2018. ISBN 978-80-7592-017-1.

STŘELÁK, David and Jiří FILIPOVIČ. cuFFTAdvisor. 2018.

MINISTR, Jan, Tomáš PITNER and Nikola ŠIMKOVÁ. Cybersecurity Qualifications. Online. In Ministr Jan, Tvrdíková Milena. Proceedings of the 21st International Conference on Information Technology for Practice. Ostrava: VŠB-Technical University of Ostrava, 2018, p. 141-146. ISBN 978-80-248-4196-0.

YANG, Qishan, Mouzhi GE and Markus HELFERT. Data Quality Problems in TPC-DI Based Data Integration Processes. Online. In Enterprise Information Systems. Germany: Springer Lecture Notes in Business Information Processing, 2018, p. 57-73. 321. ISBN 978-3-319-93374-0. Available from: https://dx.doi.org/10.1007/978-3-319-93375-7_4.

FOUSEK, Jan. Efficient sparse matrix-delayed vector multiplication for discretized neural field model. The Journal of Supercomputing. Springer US, 2018, vol. 74, No 5, p. 1863-1884. ISSN 0920-8542. Available from: https://dx.doi.org/10.1007/s11227-017-2194-4.

RAČEK, Tomáš, Ondřej SCHINDLER, Radka SVOBODOVÁ VAŘEKOVÁ and Jaroslav KOČA. Empirical methods for calculation of partial atomic charges – applicability for proteins? In ENBIK2018. 2018. ISBN 978-80-7592-017-1.

GE, Mouzhi and Fabio PERSIA. Evaluation in Multimedia Recommender Systems: A Practical Guide. In Proceedings of the 12th IEEE International Conference on Semantic Computing. California, USA: IEEE, 2018, p. 294-297. ISBN 978-1-5386-4407-2. Available from: https://dx.doi.org/10.1109/ICSC.2018.00050.

BANGUI, Hind, Mouzhi GE and Barbora BÜHNOVÁ. Exploring Big Data Clustering Algorithms for Internet of Things Applications. Online. In Proceedings of the 3rd International Conference on Internet of Things, Big Data and Security. Madeira, Portugal: SCITEPRESS, 2018, p. 269-276. ISBN 978-989-758-296-7. Available from: https://dx.doi.org/10.5220/0006773402690276.

PERSIA, Fabio, Mouzhi GE and Daniela D'AURIA. How to exploit Recommender Systems in Social Media. Online. In Proceedings of the IEEE 19th International Conference on Information Reuse and Integration for Data Science. Salt Lake City: IEEE, 2018, p. 537-541. ISBN 978-1-5386-2659-7. Available from: https://dx.doi.org/10.1109/IRI.2018.00085.

SALOMONI, Davide, Luciano GAIDO, Isabel Campos PLASENCIA, Jesus E Marco de LUCAS, Peter SOLAGNA, Jorge GOMES, Luděk MATYSKA, P FUHRMAN, Marcus HARDT, Giacinto DONVITO, L DUTKA, Marcin Pl o CIENNIK, Roberto BARBERA, Cristina AIFTIMIEI, Ignacio BLANQUER, Andrea CECCANTI, Mario DAVID, Alvaro Lopez GARCIA, German MOLTO, P ORVIZ, Zdeněk SUSTR, M VILJOEN, Fernando AGUILAR, L ALVES, Alexandre BONVING, Riccardo BRUNO, D DAVIDOVIC, Marco FARGETTA, Yen CHEN, Sandro FIORE, Z KURKCUOGLU, L LLORET, J MARTINS, Alessandra NUZZO, Paola NASSISI, J PINA, Eva SCIACCA, Daniele SPIGA, M TANGARO, Michal URBANIAK, Bas WEGH and T ZOK. INDIGO-DataCloud: A platform to facilitate seamless access to e-infrastructures. Journal of Grid Computing. Springer Science+Business Media B.V., 2018, vol. 16, No 3, p. 381-408. ISSN 1570-7873. Available from: https://dx.doi.org/10.1007/s10723-018-9453-3.

PITNER, Tomáš, Jan MINISTR, Jan TOMÁŠEK, Martin LHOTÁK and Vyacheslav CHAPLYHA. Innovation of the Information System in the Field of Data Archiving. In Doucek Petr, Chroust Gerhard, Oškrdal Václav. 26th Interdisciplinary Information Management Talks (IDIMT) 2018 Strategic Modeling in Management, Economy and Society. Linz, Österreich/Austria: Johannes Kepler Universität Linz, 2018, p. 127-135. ISBN 978-3-99062-339-8.

CAPUTO, Francesco, Barbora BÜHNOVÁ and Leonard WALLETZKÝ. Investigating the role of smartness for sustainability: Insights from the Smart Grid domain. Sustainability Science. Tokyo: Springer, 2018, vol. 13, No 5, p. 1299-1309. ISSN 1862-4065. Available from: https://dx.doi.org/10.1007/s11625-018-0555-4.

PETROVIČ, Filip, Jiří FILIPOVIČ, David STŘELÁK and Jana PAZÚRIKOVÁ. Kernel Tuning Toolkit. 2018.

PIVOLUSKA, Matej, Marcus HUBER and Mehul MALIK. Layered quantum key distribution. Physical Review A. 2018, vol. 97, No 3, p. "032312:1"-"032312:10", 10 pp. ISSN 2469-9926. Available from: https://dx.doi.org/10.1103/PhysRevA.97.032312.

PLESCH, Martin and Matej PIVOLUSKA. Loss of information in quantum guessing game. New Journal of Physics. IOP publishing, 2018, vol. 20, 07 02 2018, p. "023018:1"-"023018:10", 10 pp. ISSN 1367-2630. Available from: https://dx.doi.org/10.1088/1367-2630/aaa5f8.

BAVARESCO, Jessica, Natalia Herrera VALENCIA, Claude KLÖCKL, Matej PIVOLUSKA, Paul ERKER, Nicolai FRIIS, Mehul MALIK and Marcus HUBER. Measurements in two bases are sufficient for certifying high-dimensional entanglement. Nature Physics. Nature Publishing Group, 2018, vol. 14, No 10, p. 1032-1040. ISSN 1745-2473. Available from: https://dx.doi.org/10.1038/s41567-018-0203-z.

PELÁNEK, Radek, Tomáš EFFENBERGER, Matěj VANĚK, Vojtěch SASSMANN and Dominik GMITERKO. Measuring Item Similarity in Introductory Programming. Online. In Rose Luckin, Scott Klemmer, Kenneth R. Koedinger. Proceedings of the Fifth Annual ACM Conference on Learning at Scale. New York, NY, USA: ACM, 2018, p. "19:1"-"19:4", 4 pp. ISBN 978-1-4503-5886-6. Available from: https://dx.doi.org/10.1145/3231644.3231676.

OPPELT, Jan, Karolína TRACHTOVÁ and Marek MRÁZ. microRNA – are you real? In ENBIK2018 conference proceedings, Skalský dvůr. 2018.

OPPELT, Jan, Karolína TRACHTOVÁ and Marek MRÁZ. microRNA – are you real?! In ENBIK2018 - National Bioinformatics Conference. 2018. ISBN 978-80-7592-017-1.

BANGUI, Hind, Said RAKRAK, Said RAGHAY and Barbora BÜHNOVÁ. Moving to the Edge-Cloud-of-Things: Recent Advances and Future Research Directions. Electronics. Switzerland: MDPI, 2018, vol. 7, No 11, p. 1-31. ISSN 2079-9292. Available from: https://dx.doi.org/10.3390/electronics7110309.

BANGUI, Hind, Said RAKRAK, Said RAGHAY and Barbora BÜHNOVÁ. Moving towards Smart Cities: A Selection of Middleware for Fog-to-Cloud Services. Applied Sciences. Switzerland: MDPI, 2018, vol. 8, No 11, p. 1-20. ISSN 2076-3417. Available from: https://dx.doi.org/10.3390/app8112220.

WALLETZKÝ, Leonard and Mouzhi GE. MULTIDISCIPLINARY EDUCATION INFLUENCED BY COMPLEX SERVICES. Online. In 11th Annual International Conference of Education, Research and Innovation (ICERI 2018). Sevilla, Spain: IATED, 2018, p. 7802-7806. ISBN 978-84-09-05948-5.

STŘELÁK, David and Jiří FILIPOVIČ. Performance analysis and autotuning setup of the cuFFT library. Online. In ACM International Conference Proceeding Series. Limassol, Cyprus: ACM, 2018, p. nestránkováno, 6 pp. ISBN 978-1-4503-6591-8. Available from: https://dx.doi.org/10.1145/3295816.3295817.

HELFERT, Markus and Mouzhi GE. Perspectives of Big Data Quality in Smart Service Ecosystem. Journal of Information Technology Management. 2018, vol. 10, No 4, p. 72-83. ISSN 2008-5893. Available from: https://dx.doi.org/10.22059/JITM.2019.72763.

GE, Mouzhi and Vlastislav DOHNAL. Quality Management in Big Data. Informatics. Switzerland, 2018, vol. 5, No 2. ISSN 2227-9709. Available from: https://dx.doi.org/10.3390/informatics5020019.

KLUSÁČEK, Dalibor, Boris PARÁK, Václav CHLUMSKÝ and Lukáš HEJTMÁNEK. Real-life Experience with Private Cloud hosting Heterogeneous Scientific Workloads. Online. In 2018 IEEE/ACM INTERNATIONAL CONFERENCE ON UTILITY AND CLOUD COMPUTING COMPANION (UCC COMPANION). NEW YORK: IEEE, 2018, p. 115-120. ISBN 978-1-72810-359-4. Available from: https://dx.doi.org/10.1109/UCC-Companion.2018.00044.

CAPUTO, Francesco, Barbora BÜHNOVÁ and Leonard WALLETZKÝ. Reflecting upon the role of smart grids in linking smartness and sustainability. Online. In Sergio Barile, Raul Espejo, Igor Perko, Marialuisa Saviano. Cybernetics and Systems: Social and Business Decisions. Neuveden: Routledge, 2018, p. 205-210. ISBN 978-0-367-66324-7. Available from: https://dx.doi.org/10.4324/9780429486982-43.

CHREN, Stanislav, Bruno ROSSI, Barbora BÜHNOVÁ and Tomáš PITNER. Reliability Data for Smart Grids: Where the Real Data can be Found. Online. In Ruzicka, J. 2018 Smart City Symposium Prague (SCSP). New York: IEEE, 2018, p. 1-6. ISBN 978-1-5386-5017-2. Available from: https://dx.doi.org/10.1109/SCSP.2018.8402648.

KALENDA, Martin, Petr HYNA and Bruno ROSSI. Scaling Agile in Large Organizations: Practices, Challenges, and Success Factors. Journal of Software: Evolution and Process. 2018, vol. 30, No 10, p. 1-24. ISSN 2047-7473. Available from: https://dx.doi.org/10.1002/smr.1954.

KUČERA, Adam and Tomáš PITNER. Semantic BMS: Allowing usage of building automation data in facility benchmarking. Advanced Engineering Informatics. 2018, vol. 35, January, p. 69-84. ISSN 1474-0346. Available from: https://dx.doi.org/10.1016/j.aei.2018.01.002.

SCHVARCBACHER, Martin, Katarína HRABOVSKÁ, Bruno ROSSI and Tomáš PITNER. Smart Grid Testing Management Platform (SGTMP). Applied Sciences-Basel. BASEL, SWITZERLAND: MDPI AG, 2018, vol. 8, No 11, p. 1-23. ISSN 2076-3417. Available from: https://dx.doi.org/10.3390/app8112278.

PITNER, Tomáš, Mirjana IVANOVIČ, Miloš SAVIĆ and Stelios XINOGALOS. Students’ perspective on the first programming language: C-like or Pascal-like languages? Journal Education and Information Technologies. New York, USA: Springer US, 2018, vol. 23, No 1, p. 287-302. ISSN 1360-2357. Available from: https://dx.doi.org/10.1007/s10639-017-9601-6.

ALOCCI, Davide, Pavla SUCHÁNKOVÁ, Renaud COSTA, Nicolas HORY, Julien MARIETHOZ, Radka SVOBODOVÁ VAŘEKOVÁ, Philip TOUKACH and Frederique LISACEK. SugarSketcher: Quick and Intuitive Online Glycan Drawing. Molecules. Mayer und Muller, 2018, vol. 23, No 12, p. 3206-3216. ISSN 1420-3049. Available from: https://dx.doi.org/10.3390/molecules23123206.

PAPOUŠEK, Dalibor, Vojtěch KAŠE, Zdeněk POSPÍŠIL, Adam MERTEL, Jan FOUSEK and Eva VÝTVAROVÁ. Šíření křesťanství v antickém Středomoří (The Spread of Christianity in the Ancient Mediterranean). In Kognice a umělý život, Brno (30.5. - 1.6. 2018). 2018.

CHALUPA, Aleš, Tomáš GLOMB, Adam MERTEL, Eva VÝTVAROVÁ, Zdeněk STACHOŇ, Zdeněk POSPÍŠIL and Jan FOUSEK. Šíření „orientálních kultů“ po cestách starověkého Středomoří : Případové studie egyptských kultů a Mithraismu (The Spread of "Oriental Cults" in the Ancient Mediterranean : The Case of Egyptian Cults and Mithraism). In Kognice a umělý život 2018, Brno, 30.5.-1.6.2018. 2018.

POPESCU, Mirona, Mouzhi GE and Markus HELFERT. The Social Media Perception and Reality -Possible Data Quality Deficiencies between Social Media and ERP. In Proceedings of the 20th International Conference on Enterprise Information Systems. Madeira, Portugal: SCITEPRESS, 2018, p. 198-204. ISBN 978-989-758-298-1. Available from: https://dx.doi.org/10.5220/0006788801980204.

KADLEC, Miroslav, Jan ROSECKÝ, Filip PROCHÁZKA, Barbora BÜHNOVÁ and Tomáš PITNER. Towards Discovering the Limits of Smart Grid Communication Infrastructure. In Gandolfo Dominici. Governing Business Systems. Cham, Switzerland: Springer, 2018, p. 87-99. ISBN 978-3-319-66034-9. Available from: https://dx.doi.org/10.1007/978-3-319-66036-3_5.

ŠTĚPÁNEK, Petr and Mouzhi GE. Validation and Extension of the Smart City Ontology. Online. In Proceedings of the 20th International Conference on Enterprise Information Systems - Volume 2: ICEIS. Madeira, Portugal: SciTePress, 2018, p. 406-413. ISBN 978-989-758-298-1. Available from: https://dx.doi.org/10.5220/0006818304060413.

WALLETZKÝ, Leonard, Barbora BÜHNOVÁ and Luca CARRUBBO. Value-Driven Conceptualization of Services in the Smart City: A Layered Approach. In Social Dynamics in a Systems Perspective. Cham, Germany: Springer, 2018, p. 85-98. ISBN 978-3-319-61966-8. Available from: https://dx.doi.org/10.1007/978-3-319-61967-5_5.

GE, Mouzhi and Fabio PERSIA. A Survey of Multimedia Recommender Systems: Challenges and Opportunities. International Journal of Semantic Computing. World Scientific Publishing, 2017, vol. 11, No 3, p. 411-428. ISSN 1793-351X. Available from: https://dx.doi.org/10.1142/S1793351X17500039.

HELFERT, Markus and Mouzhi GE. A Tool for Demonstrating the Data Quality Bullwhip Effect. In Proceedings of the Innovative Teaching Approaches in Business Informatics. Wroclaw, Poland: IEEE, 2017.

GE, Mouzhi and Theodoros CHONDROGIANNIS. Assessing the Quality of Spatio-textual Datasets in the Absence of Ground Truth. In Proceedings of the 21st European Conference on Advances in Databases and Information Systems. Cham: Springer, 2017, p. 12-20. ISBN 978-3-319-67161-1. Available from: https://dx.doi.org/10.1007/978-3-319-67162-8_2.

FILIPOVIČ, Jiří, Filip PETROVIČ and Siegfried BENKNER. Autotuning of OpenCL Kernels with Global Optimizations. Online. In 1st Workshop on Autotuning and Adaptivity Approaches for Energy Efficient HPC Systems (ANDARE'2017). Portland (USA): ACM, 2017, p. nestránkováno, 6 pp. ISBN 978-1-4503-5363-2. Available from: https://dx.doi.org/10.1145/3152821.3152877.

RAČEK, Tomáš, Dan POLANSKÝ, Radka SVOBODOVÁ VAŘEKOVÁ and Jaroslav KOČA. bio.tools Sum. In ELIXIR CZ Annual Conference 2017. 2017. ISBN 978-80-86241-57-9.

FILIPOVIČ, Jiří, Ondřej VÁVRA, Jan PLHÁK, David BEDNÁŘ, Sérgio Manuel MARQUES, Jan BREZOVSKÝ, Luděk MATYSKA and Jiří DAMBORSKÝ. CaverDock 1.0. 2017.

KNÍŽEK, Jiří, Ladislav BERÁNEK, Pavel BOUCHAL, Bořivoj VOJTĚŠEK, Rudolf NENUTIL, Martin KUBA, Lubomír PAVLIŠKA and Václav PROCHÁZKA. Computation of Kovanic's Expectedness Distributions with the Help of Parallel Computing - Basic Version (with Special References of Health and Environment). INTERNATIONAL JOURNAL OF ECOLOGICAL ECONOMICS & STATISTICS. UTTARAKHAND: CENTRE ENVIRONMENT SOCIAL & ECONOMIC RESEARCH PUBL-CESER, 2017, vol. 38, No 1, p. 96-119. ISSN 0973-1385.

CHALUPA, Aleš, Eva VÝTVAROVÁ, Jan FOUSEK and Adam MERTEL. Connection Between Mithraism and Roman Army Garrisons. In Historical Network Research Conference, 17.-18.10.2017, Turku, Finland. 2017.

SINGHA ROY, Nivir Kanti and Bruno ROSSI. Cost-Sensitive Strategies for Data Imbalance in Bug Severity Classification: Experimental Results. Online. In 43rd Euromicro Conference on Software Engineering and Advanced Applications (SEAA) 2017. Not specified: IEEE, 2017, p. 426-429. ISBN 978-1-5386-2140-0. Available from: https://dx.doi.org/10.1109/SEAA.2017.71.

HELFERT, Markus and Mouzhi GE. Developing an Enterprise Architecture Framework and Services for Smart Cities. In Proceedings of the 25th Interdisciplinary Information Management Talks. Poděbrady, Czech Republic: Trauner Verlag, 2017, p. 383-390. ISBN 978-3-99062-119-6.

KRÁL, Jaroslav, Tomáš PITNER and Michal ŽEMLIČKA. Document-Oriented Middleware: The Way to High-Quality Software. In International Conference on Computational Science and Its Applications. 1st ed. Cham: Springer, Cham, 2017, p. 607-619. ISBN 978-3-319-62403-7. Available from: https://dx.doi.org/10.1007/978-3-319-62404-4_45.

HŘEBÍČEK, Jiří, Ralf DENZER, Gerald SCHIMAK and Tomáš PITNER. Environmental Software Systems. Computer Science for Environmental Protection12th IFIP WG 5.11 International Symposium. In IFIPAICT, volume 507. 1st ed. Cham: Springer, Cham, 2017, 486 pp. ISBN 978-3-319-89934-3. Available from: https://dx.doi.org/10.1007/978-3-319-89935-0.

VÝTVAROVÁ, Eva and Jan FOUSEK. Evaluation of community detection algorithms applied to time-series connectivity networks with dynamical structure. In CompleNet'17, Dubrovnik, Croatia. 2017.

YANG, Qishan, Mouzhi GE and Markus HELFERT. Guildlines of Data Quality Issues for Data Integration in the Context of the TPC-DI Benchmark. In Proceedings of the 19th International Conference on Enterprise Information Systems. Porto, Portugal: SciTePress, 2017, p. 135-144. ISBN 978-989-758-247-9. Available from: https://dx.doi.org/10.5220/0006334301350144.

POPOVICI, Vlad, Aleš KŘENEK and Eva BUDINSKÁ. Identification of "BRAF-Positive" Cases Based on Whole-Slide Image Analysis. Biomed Research International. New York: HINDAWI LTD, 2017, Neuveden, April, p. nestránkováno, 7 pp. ISSN 2314-6133. Available from: https://dx.doi.org/10.1155/2017/3926498.

PITNER, Tomáš, Jan MINISTR and Andreja PUCIHAR. Innovation and diversity. In Doucek Petr, Chroust Gerhard, Oškrdal Václav. 25th Interdisciplinary Information Management Talks (IDIMT) 2017 Digitalization in Management, Society and Economy. Linz, Österreich/Austria: Johannes Kepler Universität Linz, 2017, p. 63-69. ISBN 978-3-99062-119-6.

PITNER, Tomáš and Jan MINISTR. Innovation Of The Information Management In Compliance Management Area. In Doucek Petr, Chroust Gerhard, Oškrdal Václav. 25th Interdisciplinary Information Management Talks (IDIMT) 2017 Digitalization in Management, Society and Economy. Linz, Österreich/Austria: Johannes Kepler Universität Linz, 2017, p. 71-78. ISBN 978-3-99062-119-6.

VÝTVAROVÁ, Eva, Jan FOUSEK, Michal MIKL, Irena REKTOROVÁ and Eva HLADKÁ. Investigating Community Detection Algorithms and their Capacity as Markers of Brain Diseases. Online. In International Symposium on Grids and Clouds (ISGC) 2017. Academia Sinica, Taipei, Taiwan: Proceedings of Science. Taipei; Taiwan: Sissa Medialab Srl, 2017, p. 1-14. ISSN 1824-8039. Available from: https://dx.doi.org/10.22323/1.293.0018.

VÝTVAROVÁ, Eva, Jan FOUSEK, Michal MIKL and Irena REKTOROVÁ. Investigating Modularity and Its Capacity As a Marker of Neurodegenerative Diseases. In 64. Společný sjezd české a slovenské společnosti pro klinickou neurofyziologii, České Budějovice. 2017.

MASSIMO, David, Mehdi ELAHI, Francesco RICCI and Mouzhi GE. Item Contents Good, User Tags Better: Empirical Evaluation of a Food Recommender System. Online. In Proceedings of the 25th Conference on User Modeling, Adaptation and Personalization. Bratislava, Slovakia: ACM, 2017, p. 373-374. ISBN 978-1-4503-4635-1. Available from: https://dx.doi.org/10.1145/3079628.3079640.

ŠTĚPÁNEK, Petr, Mouzhi GE and Leonard WALLETZKÝ. IT-enabled Digital Service Design Principles - Lessons Learned from Digital Cities. Online. In Themistocleous, Marinos, Morabito, Vincenzo. Proceedings of the 14th European Mediterranean & Middle Eastern Conference on Information Systems. Coimbra, Portugal: Springer, 2017, p. 186-196. ISBN 978-3-319-65929-9. Available from: https://dx.doi.org/10.1007/978-3-319-65930-5_15.

VÝTVAROVÁ, Eva, Radek MAREČEK, Jan FOUSEK, Ondřej STRÝČEK and Ivan REKTOR. Large-scale cortico-subcortical functional networks in focal epilepsies: The role of the basal ganglia. NeuroImage-Clinical. Oxford: Elsevier BV, 2017, vol. 2017, No 14, p. 28-36. ISSN 2213-1582. Available from: https://dx.doi.org/10.1016/j.nicl.2016.12.014.

CAPUTO, Francesco, Mouzhi GE and Leonard WALLETZKÝ. Modelling the Service Value Chain for Smart City. In Proceedings of the 25th Interdisciplinary Information Management Talks. Poděbrady, Czech Republic: Trauner Verlag, 2017, p. 375-382. ISBN 978-3-99062-119-6.

BANGUI, Hind, Mouzhi GE, Barbora BÜHNOVÁ, Said RAKRAK, Said RAGHAY and Tomáš PITNER. Multi-Criteria Decision Analysis Methods in the Mobile Cloud Offloading Paradigm. Journal of Sensor and Actuator Networks. MDPI, 2017, vol. 6, No 4, p. 1-19. ISSN 2224-2708. Available from: https://dx.doi.org/10.3390/jsan6040025.

KADLEC, Miroslav, Barbora BÜHNOVÁ and Tomáš PITNER. Planning and Scheduling for Optimizing Communication in Smart Grids. Online. In 12th International Symposium on Environmental Software Systems, ISESS 2017;. Zadar: Springer New York LLC, 2017, p. 446-456. ISBN 978-3-319-89934-3. Available from: https://dx.doi.org/10.1007/978-3-319-89935-0_37.

DOSTÁL, Otto, Otto DOSTÁL and Michal JAVORNÍK. Právní limity nakládání s údaji o zdravotním stavu. In XIII. mezinárodní kongres informačních technologií ve zdravotnictví. 2017.

GE, Mouzhi, Markus HELFERT and Tony O'BRIEN. Predicting Data Quality Success - The Bullwhip Effect in Data Quality. In Björn Johansson. Proceedings of the 16th International Conference on Perspectives in Business Informatics Research. Copenhagen, Denmark: Springer, 2017, p. 157-165. ISBN 978-3-319-64929-0. Available from: https://dx.doi.org/10.1007/978-3-319-64930-6_12.

MINISTR, Jan and Tomáš PITNER. Process Support of Information Security according to COBIT® 5. In NEMEC, R., CHYTILOVA, L. Proceedings of the 12 th International Conference on Strategic Management and its Support by Information Systems 2017. Ostrava, Czech Republic: VŠB – Technical University of Ostrava, Faculty of Economics, 2017, p. 418-424. ISBN 978-80-248-4046-8.

KOBUSIŃSKA, Anna, Adam WOLSKI, Jerzy BRZEZIŃSKI and Mouzhi GE. P2P Web Browser Middleware to Enhance Service Oriented Computing - Analysis and Evaluation. In 10th IEEE International Conference on Service-Oriented Computing and Applications (SOCA 2017). New York: IEEE, 2017, p. 58-65. ISBN 978-1-5386-1326-9. Available from: https://dx.doi.org/10.1109/SOCA.2017.16.

PAZÚRIKOVÁ, Jana, Aleš KŘENEK, Vojtěch SPIWOK and Mária ŠIMKOVÁ. Reducing the number of mean-square deviation calculations with floating close structure in metadynamics. Journal of Chemical Physics. Melville: American Institute of Physics, 2017, vol. 146, No 11, p. "115101:1"-"115101:8", 8 pp. ISSN 0021-9606. Available from: https://dx.doi.org/10.1063/1.4978296.

FOUSEK, Jan, Vojtěch KAŠE, Eva VÝTVAROVÁ and Adam MERTEL. Relating the Spread of Early Christianity to the Transportation Network of Ancient Mediterranean. In Historical Network Research Conference, Turku, Finland. 2017.

GE, Mouzhi and Fabio PERSIA. Research Challenges in Multimedia Recommender Systems. Online. In Proceedings of the IEEE International Conference on Semantic Computing. San Diego, USA: IEEE, 2017, p. 344-347. ISBN 978-1-5090-4896-0. Available from: https://dx.doi.org/10.1109/ICSC.2017.31.

ROČEK, Aleš, Michal JAVORNÍK, Karel SLAVÍČEK and Otto DOSTÁL. Reversible Watermarking in Medical Imaging with Zero Distortion in ROI. Online. In Proceedings of 24th IEEE International Conference on Electronics, Circuits and Systems (ICECS 2017). New York: IEEE, 2017, p. 356-359. ISBN 978-1-5386-1911-7. Available from: https://dx.doi.org/10.1109/ICECS.2017.8292071.

KUČERA, Adam and Tomáš PITNER. Semantic BMS: Ontology for Analysis of Building Operation Efficiency. In Hřebíček J., Denzer R., Schimak G., Pitner T. Environmental Software Systems. Computer Science for Environmental Protection. Cham: Springer, 2017, p. 349-359. ISBN 978-3-319-89934-3. Available from: https://dx.doi.org/10.1007/978-3-319-89935-0_29.

KLUSÁČEK, Dalibor, Boris PARÁK and Lukáš HEJTMÁNEK. Scheduling Challenges in a Shared Private Cloud Infrastructure. CGW Workshop'17 Proceedings. 2017, vol. 2017, No 1, p. 23-24.

SCHVARCBACHER, Martin and Bruno ROSSI. Smart Grids Co-Simulations with Low-Cost Hardware. Online. In 43rd Euromicro Conference on Software Engineering and Advanced Applications (SEAA) 2017. Not specified: IEEE, 2017, p. 252-255. ISBN 978-1-5386-2140-0. Available from: https://dx.doi.org/10.1109/SEAA.2017.43.

BANGUI, Hind, Barbora BÜHNOVÁ, Said RAKRAK and Said RAGHAY. Smart mobile technologies for the city of the future. Online. In Smart City Symposium Prague (SCSP), 2017. Neuveden: IEEE, 2017, p. 1-6. ISBN 978-1-5386-3825-5. Available from: https://dx.doi.org/10.1109/SCSP.2017.7973851.

IVANOVIČ, Mirjana, Stelios XINOGALOS, Tomáš PITNER and Miloš SAVIĆ. Technology enhanced learning in programming courses – international perspective. Education and Information Technologies. New York, NY, USA: Springer US, 2017, vol. 22, No 6, p. 2981-3003. ISSN 1360-2357. Available from: https://dx.doi.org/10.1007/s10639-016-9565-y.

VÝTVAROVÁ, Eva, Jan FOUSEK, Marek BARTOŇ, Radek MAREČEK, Martin GAJDOŠ, Martin LAMOŠ, Marie NOVÁKOVÁ, Tomáš SLAVÍČEK, Igor PETERLÍK and Michal MIKL. The Impact of Diverse Preprocessing Pipelines on Brain Functional Connectivity. Online. In 25th European Signal Processing Conference (EUSIPCO), Kos, Greece. Kos, Greece: IEEE, 2017, p. 2644-2648. ISBN 978-0-9928626-7-1. Available from: https://dx.doi.org/10.23919/EUSIPCO.2017.8081690.

PITNER, Tomáš, Jan MINISTR, Daniel TOVARŇÁK, Filip KŠENZULIAK and Adam KUČERA. Towards a Common Logging and Monitoring Framework for Critical Infrastructures. In Radek Němec, Lucie Chytilová. Strategic Management and its Support by Information Systems (SMSIS). Ostrava: VŠB - Technical University of Ostrava, 2017, p. 488-495. ISBN 978-80-248-4046-8.

KADLEC, Miroslav, Barbora BÜHNOVÁ, Jan TOMŠÍK, Jan HERMAN and Kateřina DRUŽBÍKOVÁ. Weather forecast based scheduling for demand response optimization in smart grids. Online. In Smart City Symposium Prague (SCSP), 2017. Prague: IEEE, 2017, p. 1-6. ISBN 978-1-5386-3825-5. Available from: https://dx.doi.org/10.1109/SCSP.2017.7973867.

ROČEK, Aleš, Karel SLAVÍČEK, Otto DOSTÁL and Michal JAVORNÍK. A new approach to fully-reversible watermarking in medical imaging with breakthrough visibility parameters. Biomedical Signal Processing and Control. Elsevier, 2016, vol. 29, No 7, p. 44-52. ISSN 1746-8094. Available from: https://dx.doi.org/10.1016/j.bspc.2016.05.005.

FILIPOVIČ, Jiří, Jana PAZÚRIKOVÁ, Aleš KŘENEK and Vojtěch SPIWOK. Accelerated RMSD Calculation for Molecular Metadynamics. In José Évora-Gómez and José Juan Hernandéz-Cabrera. Proceedings of the 2016 European Simulation and Modelling Conference. Ghent, Belgie: EUROSIS - ETI, 2016, p. 278-280. ISBN 978-90-77381-95-3.

RUSŇÁK, Vít, Pavel TROUBIL, Eva HLADKÁ, Desana DAXNEROVÁ, Pavel KAJABA, Matej MINÁRIK, Svatoslav ONDRA and Tomáš SKLENÁK. CoUnSiL: A Videoconferencing Environment for Interpretation of Sign Language. Online. In Okyay Kaynak. 2016 15th International Conference on Information Technology Based Higher Education and Training (ITHET). Istanbul, Turkey: IEEE, 2016, p. 1-8. ISBN 978-1-5090-0778-3. Available from: https://dx.doi.org/10.1109/ITHET.2016.7760711.

RUSŇÁK, Vít, Pavel TROUBIL, Svatoslav ONDRA, Tomáš SKLENÁK, Desana DAXNEROVÁ, Eva HLADKÁ, Pavel KAJABA, Matej MINÁRIK, Peter NOVÁK, Christoph DAMM and Jaromír KALA. CoUnSiL: Collaborative Universe for Remote Interpreting of Sign Language in Higher Education. Online. In Klaus Miesenberger. Computers Helping People with Special Needs: 15th International Conference, ICCHP 2016, Linz, Austria, July 13-15, 2016, Proceedings, Part II. ICCHP 2016. Neuveden: Springer International Publishing, 2016, p. 392-399. ISBN 978-3-319-41267-2. Available from: https://dx.doi.org/10.1007/978-3-319-41267-2_55.

RUSŇÁK, Vít. CoUnSiL: Videoconferencing Environment for Remote Interpreting of Sign Language in Higher Education (Videoconferencing Environment for Remote Interpreting of Sign Language in Higher Education). In Sign Languages in Tertiary Education and Scholarly Publications in Sign Languages. 2016.

PAZÚRIKOVÁ, Jana, Aleš KŘENEK and Luděk MATYSKA. Guided Optimization Method for Fast and Accurate Atomic Charges Computation. In José Évora-Gómez and José Juan Hernandéz-Cabrera. Proceedings of the 2016 European Simulation and Modelling Conference. Ghent, Belgicko: EUROSIS - ETI, 2016, p. 267-274. ISBN 978-90-77381-95-3.

RAČEK, Tomáš, Radka SVOBODOVÁ VAŘEKOVÁ, Aleš KŘENEK, Jana PAZÚRIKOVÁ, Stanislav GEIDL and Jaroslav KOČA. NEEMP – nástroj pro parametrizaci EEM. In ENBIK2016. 2016. ISBN 978-80-7080-960-0.

RAČEK, Tomáš, Jana PAZÚRIKOVÁ, Radka SVOBODOVÁ VAŘEKOVÁ, Stanislav GEIDL, Aleš KŘENEK, Francesco Luca FALGINELLA, Vladimír HORSKÝ, Václav HEJRET and Jaroslav KOČA. NEEMP: software for validation, accurate calculation and fast parameterization of EEM charges. Journal of Cheminformatics. London: BIOMED CENTRAL LTD, 2016, vol. 8, October, p. nestránkováno, 14 pp. ISSN 1758-2946. Available from: https://dx.doi.org/10.1186/s13321-016-0171-1.

SEDLÁŘ, Milan, Bin JI, Tomáš KRÁTKÝ, Tomáš REBOK and Rostislav HUZLÍK. Numerical and experimental investigation of three-dimensional cavitating flow around the straight NACA2412 hydrofoil. Ocean Engineering. Elsevier Ltd., 2016, vol. 123, No 123, p. 357-382. ISSN 0029-8018. Available from: https://dx.doi.org/10.1016/j.oceaneng.2016.07.030.

PAZÚRIKOVÁ, Jana, Tomáš RAČEK, Stanislav GEIDL, Radka SVOBODOVÁ VAŘEKOVÁ and Aleš KŘENEK. Parametrizace ekvalizace elektronegativity metodou diferenciální evoluce (Parametrization of Electronegativity Equalization Method through Differential Evolution). In ENBIK 2016. 2016.

PLANTEFÈVE, Rosalie, Igor PETERLÍK, Nazim HAOUCHINE and Stéphane COTIN. Patient-Specific Biomechanical Modeling for Guidance During Minimally-Invasive Hepatic Surgery. ANNALS OF BIOMEDICAL ENGINEERING. NEW YORK: SPRINGER, 2016, vol. 44, No 1, p. 139-153. ISSN 0090-6964. Available from: https://dx.doi.org/10.1007/s10439-015-1419-z.

HAMZÉ, Noura, Igor PETERLÍK, Stéphane COTIN and Caroline ESSERT. Preoperative trajectory planning for percutaneous procedures in deformable environments. Computerized Medical Imaging and Graphics. Elsevier, 2016, vol. 47, No 1, p. 16-28. ISSN 0895-6111. Available from: https://dx.doi.org/10.1016/j.compmedimag.2015.10.002.

ROČEK, Aleš, Karel SLAVÍČEK and Michal JAVORNÍK. RONI Size and another Attributes of Representative Sample of Medical Images in Common Hospital Operation, Related to Securing by Watermarking Methods. In Prof. Osama Mohamed Mohamed Ahamed. International Conference on Image Processing, Production and Computer Science (ICIPCS'16). London: URENG, 2016, p. 44-51. ISBN 978-93-84422-62-2.

RUSŇÁK, Vít, Lukáš RUČKA and Petr HOLUB. Toward Natural Multi-User Interaction in Advanced Collaborative Display Environments. Future Generation Computer Systems. Amsterdam, The Netherlands: Elsevier Science, 2016, vol. 54, January 2016, p. 313-325. ISSN 0167-739X. Available from: https://dx.doi.org/10.1016/j.future.2015.03.019.

KŘENEK, Aleš, Karel KUBÍČEK, Richard ŠTEFL and Jiří FILIPOVIČ. Accurate Fitting SAXS Curves with NMR Structure Ensembles. Online. In Simon Lin, Vicky Huang. Proceedings of International Symposium on Grids and Clouds 2015. Pissa: Proceedings of Science, 2015, p. nestránkováno, 9 pp. ISSN 1824-8039.

TALBOT, Hugo, Nazim HAOUCHINE, Igor PETERLÍK, Jeremie DEQUIDT, Christian DURIEZ, Hervé DELINGETTE and Stephane COTIN. Dirk Bartz Prize for Visual Computing in Medicine. Eurographics Association, 2015.

GEIDL, Stanislav, Tomáš BOUCHAL, Tomáš RAČEK, Radka SVOBODOVÁ VAŘEKOVÁ, Václav HEJRET, Aleš KŘENEK, Ruben ABAGYAN and Jaroslav KOČA. High-quality and universal empirical atomic charges for chemoinformatics applications. Journal of Cheminformatics. London: BIOMED CENTRAL LTD, 2015, vol. 7, DEC, p. 1-10. ISSN 1758-2946. Available from: https://dx.doi.org/10.1186/s13321-015-0107-1.

HAOUCHINE, Nazim, Stephane COTIN, Igor PETERLÍK, Jeremie DEQUIDT, Mario Sanz LOPEZ, Erwan KERRIEN and Marie-Odile BERGER. Impact of Soft Tissue Heterogeneity on Augmented Reality for Liver Surgery. IEEE Transactions on Visualization and Computer Graphics. 2015, vol. 21, No 5, p. 584 - 597. ISSN 1077-2626. Available from: https://dx.doi.org/10.1109/TVCG.2014.2377772.

TOMÁŠ, Martin, Tomáš REBOK and Christos EFSTATHIOU. Iterative Optimization of a Multi-compartmental Air Quality Modelling System. In Jan Kofroň and Tomáš Vojnar. Tenth Doctoral Workshop on Mathematical and Engineering Methods in Computer Science (MEMICS 2015). první. Brno: MEMICS 2015, 2015, p. 70-81. ISBN 978-80-214-5254-1.

ČEGAN, Jakub, Pavel ČELEDA, Tomáš JIRSÍK, Tomáš PLESNÍK, Michal PROCHÁZKA, Petr VELAN, Jan VYKOPAL, Martin VIZVÁRY, Radek OŠLEJŠEK, Zdenek EICHLER, Dalibor TOTH, Milan ČERMÁK, Jan SOUKAL, Tomáš REBOK, Václav RAČANSKÝ, Ivo NUTÁR and Dušan LAGO. KYPO - Kybernetický polygon (KYPO - Cybernetic Proving Ground). 2015.

DOSTÁL, Otto, Otto DOSTÁL and Michal JAVORNÍK. Legislativní aspekty dalšího rozvoje v oblasti telemedicíny. In XI. mezinárodní kongres informačních technologií ve zdravotnictví. 2015.

RUSŇÁK, Vít, Lukáš RUČKA, Pavel KAJABA, Desana DAXNEROVÁ, Matej MINÁRIK, Jiří KAREŠ, Michal BÁBEL and Petr HOLUB. MUSE framework 2.0. 2015.

SPIWOK, Vojtěch, Pavel OBORSKÝ, Jana PAZÚRIKOVÁ, Aleš KŘENEK and Blanka KRÁLOVÁ. Nonlinear vs. linear biasing in Trp-cage folding simulations. Journal of the chemical society. Faraday transactions II, Journal of chemical physics. London: Chemical society, 2015, vol. 142, No 11, p. nestránkováno, 8 pp. ISSN 0021-9606. Available from: https://dx.doi.org/10.1063/1.4914828.

SVOBODA, David, Vladimír ULMAN and Igor PETERLÍK. On Proper Simulation of Chromatin Structure in Static Images As Well As in Time-Lapse Sequences in Fluorescence Microscopy. In Proceedings of 2015 IEEE International Symposium on Biomedical Imaging. Stoughton (WI, USA): Engineering in Medicine and Biology Society, 2015, p. 712-716. ISBN 978-1-4799-2374-8. Available from: https://dx.doi.org/10.1109/ISBI.2015.7163972.

FILIPOVIČ, Jiří, Matúš MADZIN, Jan FOUSEK and Luděk MATYSKA. Optimizing CUDA code by kernel fusion: application on BLAS. The Journal of Supercomputing. Springer US, 2015, vol. 71, No 10, p. 3934-3957. ISSN 0920-8542. Available from: https://dx.doi.org/10.1007/s11227-015-1483-z.

PETERLÍK, Igor. Physics-Based Needle Insertion into Heterogeneous Tissues for Pre-operative Planning. Brno: IHU - Institute of image-guided surgery, 2015, 8 pp. 20160201.

POLČÁK, Radim, Zdeněk ŘÍHA and Kamil MALINKA. Právní aspekty interních instrukcí – část II. (Legal aspects of internal directives - part II.). Data Security Management. Praha: TATE International s.r.o., 2015, XIX., 3., p. 36-38. ISSN 1211-8737.

POLČÁK, Radim, Zdeněk ŘÍHA and Kamil MALINKA. Právní aspekty interních směrnic – část I. (Legal aspects of internal directives - part I.). Data Security Management. Praha: TATE International s.r.o., 2015, XIX., 2., p. 36-39. ISSN 1211-8737.

PROCHÁZKA, Filip, Tomáš REBOK and Aleš FARDA. První návrh cílové infrastruktury pro provoz systému IRIS (First draft of the target infrastructure for the IRIS system operation). 2015.

PARÁK, Boris, David WALLOM, Slávek LICEHAMMER and Zdeněk ŠUSTR. Public-Private Cloud Federation Challenges. Online. 8th edition. Limassol: IEEE/ACM, 2015, p. 512 - 515. Available from: https://dx.doi.org/10.1109/UCC.2015.91.

NGUYEN, Filip, Tomáš REBOK, Richard LUDVIGH and Václav TUNKA. Ruby Benchmark Suite using Docker. Online. In M. Ganzha, L. Maciaszek, M. Paprzycki. Annals of Computer Science and Information Systems, Volume 5. 2015th ed. Poland: IEEE, 2015, p. 947-952. ISBN 978-83-60810-66-8. Available from: https://dx.doi.org/10.15439/2015F99.

ČEGAN, Jakub, Pavel ČELEDA, Tomáš JIRSÍK, Tomáš PLESNÍK, Michal PROCHÁZKA, Petr VELAN, Jan VYKOPAL, Martin VIZVÁRY, Milan ČERMÁK, Jan SOUKAL, Tomáš REBOK, Ivo NUTÁR and Dušan LAGO. Software pro konfiguraci a monitorování virtuálního prostředí KYPO (Software for configuration and monitoring of KYPO environment). 2015.

OŠLEJŠEK, Radek, Zdenek EICHLER, Dalibor TOTH, Pavel ČELEDA, Jakub ČEGAN, Tomáš JIRSÍK, Tomáš PLESNÍK, Michal PROCHÁZKA, Petr VELAN, Martin VIZVÁRY and Jan VYKOPAL. Software pro vizualizaci virtuálního prostředí KYPO (Software for visualization of KYPO environment). 2015.

JANČA, Radim, Kamil MALINKA and Vlasta ŠŤAVOVÁ. Systém pro distribuci dotazníků v počítačových učebnách (The system for questionnaire distribution in computer study rooms). 2015.

PETERLÍK, Igor and Antonín KLÍMA. Towards an efficient data assimilation in physically-based medical simulations. Online. In Bin Ma et al. Proceedings of IEEE International Conference on Bioinformatics and Biomedicine (BIBM), 2015. Washington, D.C. , USA: IEEE, 2015, p. 1412-1419. ISBN 978-1-4673-6798-1. Available from: https://dx.doi.org/10.1109/BIBM.2015.7359884.

KOUŘIL, Daniel, Marcel POUL and Michal PROCHÁZKA. Using PKI to Provide Credential Delegation in non Web-based Federations. In Proceedings of the International Conference on Information Science and Applications, Lecture Notes in Electrical Engineering. Pattaya, Thailand: Springer Berlin Heidelberg, 2015, p. 525-532. ISBN 978-3-662-46577-6. Available from: https://dx.doi.org/10.1007/978-3-662-46578-3_62.

JAVORNÍK, Michal, Otto DOSTÁL and Aleš ROČEK. Watermarking in Regional Medical Imaging. Online. In Valeri Mladenov, Elias Giacoumidis, Jinlong Wei. Proceedings of the 13th International Conference on Data Networks, Communications, Computers. Hungary: World Scientific and Engineering Academy and Society, 2015, p. 222-226. ISBN 978-1-61804-355-9.

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