Výpis publikací

MUSIL, Miloš; Simeon BORKO; Joan PLANAS IGLESIAS; Dávid LACKO; Monika ROSINSKA; Petr KABOUREK; Ligia O. MARTINS; Mateusz TATARUCH; Jiří DAMBORSKÝ; Stanislav MAZURENKO a David BEDNÁŘ. FireProtDB 2.0: large-scale manually curated database of the protein stability data. NUCLEIC ACIDS RESEARCH. Oxford: OXFORD UNIV PRESS, 2026, roč. 54, D1, s. "D409"-"D418", 10 s. ISSN 0305-1048. Dostupné z: https://doi.org/10.1093/nar/gkaf1211.

KHAN, Rayyan Tariq; Pavel KOHOUT; Miloš MUSIL; Monika ROSINSKA; Jiří DAMBORSKÝ; Stanislav MAZURENKO a David BEDNÁŘ. Anticipating protein evolution with successor sequence predictor. Journal of Cheminformatics. London: BIOMED CENTRAL LTD, 2025, roč. 17, č. 1, s. 1-12. ISSN 1758-2946. Dostupné z: https://doi.org/10.1186/s13321-025-00971-z.

STULAJTEROVA, Monika; Lubos AMBRO; Dagmar SEDLAKOVA; Michal NEMERGUT; Pavel KOHOUT; Stanislav MAZURENKO; Rastislav VARHAC; Alan STRUNGA; Martin TOUL; Zbyněk PROKOP; Jiří DAMBORSKÝ; Maria TOMKOVA a Erik SEDLÁK. Assessing the impact of His-tags on activity and stability of staphylokinase variants. International Journal of Biological Macromolecules. Amsterdam: ELSEVIER, 2025, roč. 328, November 2025, s. 1-10. ISSN 0141-8130. Dostupné z: https://doi.org/10.1016/j.ijbiomac.2025.147655.

KOHOUT, Pavel; Michal VAŠINA; Marika MAJEROVÁ; Veronika NOVÁKOVÁ; Jiří DAMBORSKÝ; David BEDNÁŘ; Martin MAREK; Zbyněk PROKOP a Stanislav MAZURENKO. Engineering Dehalogenase Enzymes Using Variational Autoencoder-Generated Latent Spaces and Microfluidics. JACS Au. WASHINGTON: AMER CHEMICAL SOC, 2025, roč. 5, č. 2, s. 838-850. ISSN 2691-3704. Dostupné z: https://doi.org/10.1021/jacsau.4c01101.

BRATOVIC, Majda; Rebecca BULLER; Stanislav MAZURENKO a Yang YANG. Machine learning applied to biocatalysis research. Nature communications. BERLIN: NATURE PORTFOLIO, 2025, roč. 16, č. 1, s. 1-5. ISSN 2041-1723. Dostupné z: https://doi.org/10.1038/s41467-025-64510-y.

DAMBORSKÝ, Jiří; Petr KOUBA; Josef SIVIC; Michal VAŠINA; David BEDNÁŘ a Stanislav MAZURENKO. Quantum computing for faster enzyme discovery and engineering. Nature Catalysis. BERLIN: Nature Portfolio, 2025, roč. 8, č. 9, s. 872-880. ISSN 2520-1158. Dostupné z: https://doi.org/10.1038/s41929-025-01410-w.

DOMINGUEZ ROMERO, Elena; Stanislav MAZURENKO; Martin SCHERINGER; Vitor A. P. Martins DOS SANTOS; Chris T. EVELO; Mihail ANTON; John M. HANCOCK; Anze ZUPANIC a Maria SUAREZ-DIEZ. Response to Letter to Editor by A. Derbalah et al.: the role of automation in enhancing reproducibility and interoperability of PBPK models. BRIEFINGS IN BIOINFORMATICS. OXFORD: OXFORD UNIV PRESS, 2025, roč. 26, č. 1, s. 1-2. ISSN 1467-5463. Dostupné z: https://doi.org/10.1093/bib/bbaf060.

KHAN, Rayyan Tariq; Petra POKORNÁ; Jan DVORSKÝ; Simeon BORKO; Ihor AREFIEV; Joan PLANAS IGLESIAS; Adam DOBIÁŠ; José Gaspar RANGEL PAMPLONA PIZARRO PINTO; Veronika SZOTKOWSKÁ; Jaroslav ŠTĚRBA; Ondřej SLABÝ; Jiří DAMBORSKÝ; Stanislav MAZURENKO a David BEDNÁŘ. A computational workflow for analysis of missense mutations in precision oncology. JOURNAL OF CHEMINFORMATICS. ENGLAND: BMC, 2024, roč. 16, č. 1, s. 1-10. ISSN 1758-2946. Dostupné z: https://doi.org/10.1186/s13321-024-00876-3.

KHAN, Rayyan Tariq; Petra POKORNÁ; Jan DVORSKÝ; Simeon BORKO; Adam DOBIÁŠ; Joan PLANAS IGLESIAS; Stanislav MAZURENKO; Ihor AREFIEV; José Gaspar RANGEL PAMPLONA PIZARRO PINTO; Veronika SZOTKOWSKÁ; Jaroslav ŠTĚRBA; Jiří DAMBORSKÝ; Ondřej SLABÝ a David BEDNÁŘ. Analysis of mutations in precision oncology using the automated, accurate, and user-friendly web tool PredictONCO. Computational and Structural Biotechnology Journal. AMSTERDAM: Elsevier, 2024, roč. 24, December 2024, s. 734-738. ISSN 2001-0370. Dostupné z: https://doi.org/10.1016/j.csbj.2024.11.026.

VELECKÝ, Jan; Matej BEREZNÝ; Miloš MUSIL; Jiří DAMBORSKÝ; David BEDNÁŘ a Stanislav MAZURENKO. BenchStab: A tool for automated querying of web-based stability predictors. BIOINFORMATICS. ENGLAND: OXFORD UNIV PRESS, 2024, roč. 40, č. 9, s. 1-5. ISSN 1367-4803. Dostupné z: https://doi.org/10.1093/bioinformatics/btae553.

KUNKA, Antonín; Dávid LACKO; Jan DVORSKÝ; Jiří DAMBORSKÝ; Zbyněk PROKOP a Stanislav MAZURENKO. Calfitter 2.0. 2024.

MARQUES, Sérgio Manuel; Petr KOUBA; Anthony Thomas P LEGRAND; Jiri SEDLAR; Lucas DISSON; Joan PLANAS IGLESIAS; Zainab Kemi SANUSI; Antonín KUNKA; Jiří DAMBORSKÝ; Tomas PAJDLA; Zbyněk PROKOP; Stanislav MAZURENKO; Josef SIVIC a David BEDNÁŘ. CoVAMPnet: Comparative Markov State Analysis for Studying Effects of Drug Candidates on Disordered Biomolecules. JACS AU. WASHINGTON: AMER CHEMICAL SOC, 2024, roč. 4, č. 6, s. 2228-2245. ISSN 2691-3704. Dostupné z: https://doi.org/10.1021/jacsau.4c00182.

ATTAFI, Omar Abdelghani; Damiano CLEMENTEL; Konstantinos KYRITSIS; Emidio CAPRIOTTI; Gavin FARRELL; Styliani-Christina FRAGKOULI; Leyla Jael CASTRO; Andras HATOS; Tom LENAERTS; Stanislav MAZURENKO; Soroush MOZAFFARI; Franco PRADELLI; Patrick RUCH; Castrense SAVOJARDO; Paola TURINA; Federico ZAMBELLI; Damiano PIOVESAN; Alexander Miguel MONZON; Fotis PSOMOPOULOS a Silvio C. E. TOSATTO. DOME Registry: implementing community-wide recommendations for reporting supervised machine learning in biology. GigaScience. Oxford University Press, 2024, roč. 13, December 2024, s. 1-8. ISSN 2047-217X. Dostupné z: https://doi.org/10.1093/gigascience/giae094.

MIČAN, Jan; Da 'san M. M. JARADAT; Weidong LIU; Gert WEBER; Stanislav MAZURENKO; Uwe T. BORNSCHEUER; Jiří DAMBORSKÝ; Ren WEI a David BEDNÁŘ. Exploring new galaxies: Perspectives on the discovery of novel PET-degrading enzymes. Applied Catalysis B: Environment and Energy. Amsterdam: Elsevier, 2024, roč. 342, March 2024, s. 1-16. ISSN 0926-3373. Dostupné z: https://doi.org/10.1016/j.apcatb.2023.123404.

HARDING-LARSEN, David; Christian Degnbol MADSEN; David TEZE; Tiia KITTILA; Mads Rosander LANGHORN; Hani GHARABLI; Mandy HOBUSCH; Felipe Mejia OTALVARO; Onur KIRTEL; Gonzalo Nahuel BIDART; Stanislav MAZURENKO; Evelyn TRAVNIK a Ditte Hededam WELNER. GASP: A Pan-Specific Predictor of Family 1 Glycosyltransferase Acceptor Specificity Enabled by a Pipeline for Substrate Feature Generation and Large-Scale Experimental Screening. ACS Omega. WASHINGTON: American Chemical Society, 2024, roč. 9, č. 25, s. 27278-27288. ISSN 2470-1343. Dostupné z: https://doi.org/10.1021/acsomega.4c01583.

HADDADI, Faraneh; Ondřej VÁVRA; David BEDNÁŘ; Stanislav MAZURENKO a Jiří DAMBORSKÝ. Klasifikátor vazebných kapes v proteinech založený na strojovém učení. 2024.

DOMÍNGUEZ-ROMERO, Elena; Stanislav MAZURENKO; Martin SCHERINGER; Vítor A.P. MARTINS DOS SANTOS; Chris T. EVELO; Mihail ANTON; John M HANCOCK; Anže ŽUPANIČ a Maria SUAREZ-DIEZ. Kód fyziologického farmakokinetického modelu (PBPK) v MatLabu pro simulaci časově závislých koncentrací chemických látek v lidském těle. 2024.

VÁVRA, Ondřej; J. TYZACK; Faraneh HADDADI; Jan DVORSKÝ; Jiří DAMBORSKÝ; Stanislav MAZURENKO; J.M. THORNTON a David BEDNÁŘ. Large-scale annotation of biochemically relevant pockets and tunnels in cognate enzyme-ligand complexes. Journal of Cheminformatics. London: BIOMED CENTRAL LTD, 2024, roč. 16, č. 1, s. 1-14. ISSN 1758-2946. Dostupné z: https://doi.org/10.1186/s13321-024-00907-z.

BUSHUIEV, Anton; Roman BUSHUIEV; Petr KOUBA; Anatolii FILKIN; Marketa GABRIELOVA; Michal GABRIEL; Jiri SEDLAR; Tomas PLUSKAL4; Jiří DAMBORSKÝ; Stanislav MAZURENKO a Josef SIVIC. Learning to design protein-protein interactions with enhanced generalization. Online. In 12th International Conference on Learning Representations 2024. 2024, 26 s.

DOMINGUEZ ROMERO, Elena; Stanislav MAZURENKO; Martin SCHERINGER; Martins Vitor A. P. DOS SANTOS; Chris T. EVELO; Mihail ANTON; John M. HANCOCK; Anze ZUPANIC a Maria SUAREZ-DIEZ. Making PBPK models more reproducible in practice. Briefings in Bioinformatics. Oxford (UK): Oxford University Press, 2024, roč. 25, č. 6, s. 1-13. ISSN 1467-5463. Dostupné z: https://doi.org/10.1093/bib/bbae569.

ŠTOURAČ, Jan; Simeon BORKO; Rayyan Tariq KHAN; Petra POKORNÁ; Adam DOBIÁŠ; Joan PLANAS IGLESIAS; Stanislav MAZURENKO; José Gaspar RANGEL PAMPLONA PIZARRO PINTO; Veronika SZOTKOWSKÁ; Jaroslav ŠTĚRBA; Ondřej SLABÝ; Jiří DAMBORSKÝ a David BEDNÁŘ. PredictONCO: a web tool supporting decision-making in precision oncology by extending the bioinformatics predictions with advanced computing and machine learning. Briefings in Bioinformatics. Oxford University Press, 2024, roč. 25, č. 1, s. 1-10. ISSN 1467-5463. Dostupné z: https://doi.org/10.1093/bib/bbad441.

HARDING-LARSEN, David; Jonathan FUNK; Niklas Gesmar MADSEN; Hani GHARABLI; Carlos G. ACEVEDO-ROCHA; Stanislav MAZURENKO a Ditte Hededam WELNER. Protein representations: Encoding biological information for machine learning in biocatalysis. Biotechnology Advances. OXFORD: Elsevier, 2024, roč. 77, December 2024, s. 1-20. ISSN 0734-9750. Dostupné z: https://doi.org/10.1016/j.biotechadv.2024.108459.

BUSHUIEV, Anton; Roman BUSHUIEV; Jiri SEDLAR; Tomas PLUSKAL; Jiří DAMBORSKÝ; Stanislav MAZURENKO a Josef SIVIC. Revealing data leakage in protein interaction benchmarks. In ICLR 2024 Workshop on Generative and Experimental Perspectives for Biomolecular Design. 2024, 13 s.

MARTIN, Hector Garcia; Stanislav MAZURENKO a Huimin ZHAO. Special Issue on Artificial Intelligence for Synthetic Biology. ACS Synthetic Biology. American Chemical Society, 2024, roč. 13, č. 2, s. 408-410. ISSN 2161-5063. Dostupné z: https://doi.org/10.1021/acssynbio.3c00760.

KHAN, Rayyan Tariq; Pavel KOHOUT; Miloš MUSIL; Monika ROSÍNSKÁ; Jiří DAMBORSKÝ; Stanislav MAZURENKO; David BEDNÁŘ a Jan VILÍM. Successor Sequence Predictor (SSP). 2024.

VAŠINA, Michal; David KOVÁŘ; Jiří DAMBORSKÝ; Ding YUN; Tianjin YANG; Andrew DE MELLO; Stanislav MAZURENKO; Stavros STAVRAKIS a Zbyněk PROKOP. In-depth analysis of biocatalysts by microfluidics: An emerging source of data for machine learning. Biotechnology Advances. OXFORD: Elsevier, 2023, roč. 66, September 2023, s. 1-22. ISSN 0734-9750. Dostupné z: https://doi.org/10.1016/j.biotechadv.2023.108171.

KOUBA, Petr; Pavel KOHOUT; Faraneh HADDADI; Anton BUSHUIEV; Raman SAMUSEVICH; Jiri SEDLAR; Jiří DAMBORSKÝ; Tomáš PLUSKAL; Josef SIVIC a Stanislav MAZURENKO. Machine Learning-Guided Protein Engineering. ACS Catalysis. WASHINGTON: AMER CHEMICAL SOC, 2023, roč. 13, č. 21, s. 13863-13895. ISSN 2155-5435. Dostupné z: https://doi.org/10.1021/acscatal.3c02743.

VAŠINA, Michal; Pavel VAŇÁČEK; Jiri HON; David KOVÁŘ; Hana FALDYNOVÁ; Antonín KUNKA; Tomáš BURYŠKA; Christoffel P. S. BADENHORST; Stanislav MAZURENKO; David BEDNÁŘ; Stavros STAVRAKIS; Uwe T. BORNSCHEUER; Andrew DEMELLO; Jiří DAMBORSKÝ a Zbyněk PROKOP. Advanced database mining of efficient haloalkane dehalogenases by sequence and structure bioinformatics and microfluidics. Chem Catalysis. Elsevier, 2022, roč. 2, č. 10, s. 2704-2725. ISSN 2667-1093. Dostupné z: https://doi.org/10.1016/j.checat.2022.09.011.

KUNKA, Antonín; David LACKO; Jan ŠTOURAČ; Jiří DAMBORSKÝ; Zbyněk PROKOP a Stanislav MAZURENKO. CalFitter 2.0: Leveraging the power of singular value decomposition to analyse protein thermostability. Nucleic acids research. Oxford: Oxford University Press, 2022, roč. 50, W1, s. "W145"-"W151", 7 s. ISSN 0305-1048. Dostupné z: https://doi.org/10.1093/nar/gkac378.

KOVÁŘ, David; Stanislav MAZURENKO; Jiří DAMBORSKÝ a Zbyněk PROKOP. MAPityser 2.1 - Analyzátor dat pro mikrofluidní platformu MAPit. 2022.

KOVÁŘ, David; Stanislav MAZURENKO; Michal VAŠINA; Jiří DAMBORSKÝ a Zbyněk PROKOP. MicroPEX Data Analyser 1.0*. 2022.

VELECKÝ, Jan; Marie HAMŠÍKOVÁ; Jan ŠTOURAČ; Miloš MUSIL; Jiří DAMBORSKÝ; David BEDNÁŘ a Stanislav MAZURENKO. SoluProtMutDB: A manually curated database of protein solubility changes upon mutations. Computational and Structural Biotechnology Journal. Elsevier, 2022, roč. 20, November 2022, s. 6339-6347. ISSN 2001-0370. Dostupné z: https://doi.org/10.1016/j.csbj.2022.11.009.

VAŠINA, Michal; Jan VELECKÝ; Joan PLANAS IGLESIAS; Sérgio Manuel MARQUES; Jana ŠKAŘUPOVÁ; Jiří DAMBORSKÝ; David BEDNÁŘ; Stanislav MAZURENKO a Zbyněk PROKOP. Tools for computational design and high-throughput screening of therapeutic enzymes. ADVANCED DRUG DELIVERY REVIEWS. NETHERLANDS: ELSEVIER, 2022, roč. 183, April 2022, s. 1-16. ISSN 0169-409X. Dostupné z: https://doi.org/10.1016/j.addr.2022.114143.

DAMBORSKÝ, Jiří; David BEDNÁŘ; Zbyněk PROKOP; Martin MAREK; Stanislav MAZURENKO; Jan ŠTOURAČ; Sérgio Manuel MARQUES; Gabriela Filipa FONSECA PINTO; Joan PLANAS IGLESIAS; Miloš MUSIL; Jiří HON; Ondřej VÁVRA; Rayyan Tariq KHAN; Jiří FILIPOVIČ a Barbora KOZLÍKOVÁ. Computational enzyme design for metabolic engineering. In The 45th FEBS Congress. 2021. ISSN 2211-5463.

ŠTOURAČ, Jan; Juraj DUBRAVA; Miloš MUSIL; Jana HORÁČKOVÁ; Jiří DAMBORSKÝ; Stanislav MAZURENKO a David BEDNÁŘ. FireProt(DB): database of manually curated protein stability data. Nucleic acids research. Oxford: Oxford University Press, 2021, roč. 49, D1, s. "D319"-"D324", 6 s. ISSN 0305-1048. Dostupné z: https://doi.org/10.1093/nar/gkaa981.

CLASON, Christian; Stanislav MAZURENKO a Tuomo VALKONEN. Primal-Dual Proximal Splitting and Generalized Conjugation in Non-smooth Non-convex Optimization. Applied Mathematics and Optimization. New York: Springer, 2021, roč. 84, č. 2, s. 1239-1284. ISSN 0095-4616. Dostupné z: https://doi.org/10.1007/s00245-020-09676-1.

BEDNÁŘ, David; Jiří DAMBORSKÝ; Marie JANKŮJOVÁ; Stanislav MAZURENKO; Miloš MUSIL; Jan ŠTOURAČ a Jan VELECKÝ. SoluProtMut DB 1.0. 2021.

KOKKONEN, Piia Pauliina; Andy BEIER; Stanislav MAZURENKO; Jiří DAMBORSKÝ; David BEDNÁŘ a Zbyněk PROKOP. Substrate inhibition by the blockage of product release and its control by tunnel engineering. RSC Chemical Biology. Cambridge: Royal Society of Chemistry, 2021, roč. 2, č. 2, s. 645-655. ISSN 2633-0679. Dostupné z: https://doi.org/10.1039/d0cb00171f.

MAZURENKO, Stanislav; Zbyněk PROKOP a Jiří DAMBORSKÝ. Machine Learning in Enzyme Engineering. ACS Catalysis. Washington, D.C.: American Chemical Society, 2020, roč. 10, č. 2, s. 1210-1223. ISSN 2155-5435. Dostupné z: https://doi.org/10.1021/acscatal.9b04321.

MAZURENKO, Stanislav. Predicting protein stability and solubility changes upon mutations: data perspective. ChemCatChem. Weinheim: Wiley-VCH GmbH, 2020, roč. 12, č. 22, s. 5590-5598. ISSN 1867-3880. Dostupné z: https://doi.org/10.1002/cctc.202000933.

MAZURENKO, Stanislav; Jyrki JAUHIAINEN a Tuomo VALKONEN. Primal-dual block-proximal splitting for a class of non-convex problems. Electronic Transactions on Numerical Analysis. Kent: Kent State University, 2020, roč. 52, č. 2020, s. 509-552. ISSN 1068-9613. Dostupné z: https://doi.org/10.1553/etna_vol52s509.

CLASON, Christian; Stanislav MAZURENKO a Tuomo VALKONEN. ACCELERATION AND GLOBAL CONVERGENCE OF A FIRST-ORDER PRIMAL-DUAL METHOD FOR NONCONVEX PROBLEMS. SIAM JOURNAL ON OPTIMIZATION. PHILADELPHIA: SIAM PUBLICATIONS, 2019, roč. 29, č. 1, s. 933-963. ISSN 1052-6234. Dostupné z: https://doi.org/10.1137/18M1170194.

NEVOLOVÁ, Šárka; Elisabet MAŇÁSKOVÁ; Stanislav MAZURENKO; Jiří DAMBORSKÝ a Zbyněk PROKOP. Development of Fluorescent Assay for Monitoring of Dehalogenase Activity. Biotechnology Journal. WEINHEIM: WILEY-V C H VERLAG GMBH, 2019, roč. 14, č. 3, s. 1-6. ISSN 1860-6768. Dostupné z: https://doi.org/10.1002/biot.201800144.

MAZURENKO, Stanislav; Jan ŠTOURAČ; Antonín KUNKA; S. NEDELJKOVIC; David BEDNÁŘ; Zbyněk PROKOP a Jiří DAMBORSKÝ. CalFitter: a web server for analysis of protein thermal denaturation data. Nucleic Acids Research. Oxford: Oxford University Press, 2018, roč. 46, W1, s. "W344"-"W349", 6 s. ISSN 0305-1048. Dostupné z: https://doi.org/10.1093/nar/gky358.

DVOŘÁK, Pavel; David BEDNÁŘ; Pavel VAŇÁČEK; Lukáš BÁLEK; Lívia EISELLEOVÁ; Veronika ŠTĚPÁNKOVÁ; Eva ŠEBESTOVÁ; Michaela BOSÁKOVÁ; Žaneta KONEČNÁ; Stanislav MAZURENKO; Antonín KUNKA; Tereza VÁŇOVÁ; Karolína ZOUFALOVÁ; Radka CHALOUPKOVÁ; Jan BREZOVSKÝ; Pavel KREJČÍ; Zbyněk PROKOP; Petr DVOŘÁK a Jiří DAMBORSKÝ. Computer-assisted engineering of hyperstable fibroblast growth factor 2. Biotechnology and Bioengineering. New York: Wiley, 2018, roč. 115, č. 4, s. 850-862. ISSN 0006-3592. Dostupné z: https://doi.org/10.1002/bit.26531.

BEERENS, Koen; Stanislav MAZURENKO; Antonín KUNKA; Sérgio Manuel MARQUES; N. HANSEN; Miloš MUSIL; Radka CHALOUPKOVÁ; Jitka WATERMAN; Jan BREZOVSKÝ; David BEDNÁŘ; Zbyněk PROKOP a Jiří DAMBORSKÝ. Evolutionary Analysis As a Powerful Complement to Energy Calculations for Protein Stabilization. ACS Catalysis. WASHINGTON: AMER CHEMICAL SOC, 2018, roč. 8, č. 10, s. 9420-9428. ISSN 2155-5435. Dostupné z: https://doi.org/10.1021/acscatal.8b01677.

MAZURENKO, Stanislav; Šárka NEVOLOVÁ; Markéta KOTLÁNOVÁ; Jiří DAMBORSKÝ a Zbyněk PROKOP. Sensitive operation of enzyme-based biodevices by advanced signal processing. Plos one. San Francisco: Public Library of Science, 2018, roč. 13, č. 6, s. 1-16. ISSN 1932-6203. Dostupné z: https://doi.org/10.1371/journal.pone.0198913.

MAZURENKO, Stanislav. Viscosity solutions to evolution problems of star-shaped reachable sets. NODEA-NONLINEAR DIFFERENTIAL EQUATIONS AND APPLICATIONS. BASEL: SPRINGER BASEL AG, 2018, roč. 25, č. 4, s. 1-23. ISSN 1021-9722. Dostupné z: https://doi.org/10.1007/s00030-018-0516-8.

MAZURENKO, Stanislav; Antonín KUNKA; Koen BEERENS; Christopher JOHNSON; Jiří DAMBORSKÝ a Zbyněk PROKOP. CalFitter 1.0. 2017.

MAZURENKO, Stanislav; Antonín KUNKA; Koen BEERENS; Christopher M. JOHNSON; Jiří DAMBORSKÝ a Zbyněk PROKOP. Exploration of Protein Unfolding by Modelling Calorimetry Data from Reheating. Scientific Reports. London: NATURE PUBLISHING GROUP, 2017, roč. 7, November, s. nestránkováno, 14 s. ISSN 2045-2322. Dostupné z: https://doi.org/10.1038/s41598-017-16360-y.

MAZURENKO, Stanislav; Jiří DAMBORSKÝ a Zbyněk PROKOP. Multi-Enzyme Pathway Optimisation Through Star-Shaped Reachable Sets. In Rocha M.,De Paz J.F.,Pinto T.,Fdez-Riverola. 11th International Conference on Practical Applications of Computational Biology & Bioinformatics. Německo: Springer International Publishing, 2017, s. 9-17. ISBN 978-3-319-60816-7. Dostupné z: https://doi.org/10.1007/978-3-319-60816-7_2.

MAZURENKO, Stanislav. Partial Differential Equation for Evolution of Star-Shaped Reachability Domains of Differential Inclusions. SET-VALUED AND VARIATIONAL ANALYSIS. 2016, roč. 24, č. 2, s. 333-354. ISSN 1877-0533. Dostupné z: https://doi.org/10.1007/s11228-015-0345-4.