Výpis publikací

SVOBODOVÁ, Radka, Karel BERKA, Ivana HUTAŘOVÁ VAŘEKOVÁ, Tomáš RAČEK a 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.

MIDLIK, Adam, Ivana HUTAŘOVÁ VAŘEKOVÁ, Jan HUTAŘ, Aliaksei CHARESHNEU, Karel BERKA a Radka SVOBODOVÁ. OverProt: secondary structure consensus for protein families. Bioinformatics. Oxford University Press, 2022, roč. 38, č. 14, s. 3648-3650. ISSN 1367-4803. Dostupné z: https://dx.doi.org/10.1093/bioinformatics/btac384.

SILLITOE, Ian, Nicola BORDIN, Natalie DAWSON, Vaishali P. WAMAN, Paul ASHFORD, Harry M. SCHOLES, Camilla S.M. PANG, Laurel WOODRIDGE, Clemens RAUER, Neeladri SEN, Mahnaz ABBASIAN, Sean LE CORNU, Su Datt LAM, Karel BERKA, Ivana HUTAŘOVÁ VAŘEKOVÁ, Radka SVOBODOVÁ, Jon LEES a Christine A. ORENGO. CATH: increased structural coverage of functional space. Nucleic Acids Research. Oxford: Oxford University Press, 2021, roč. 49, D1, s. "D266"-"D273", 8 s. ISSN 0305-1048. Dostupné z: https://dx.doi.org/10.1093/nar/gkaa1079.

HUTAŘOVÁ VAŘEKOVÁ, Ivana, Jan HUTAŘ, Adam MIDLIK, Vladimír HORSKÝ, Eva HLADKÁ, Radka SVOBODOVÁ a Karel BERKA. 2DProts: database of family-wide protein secondary structure diagrams. Bioinformatics. Oxford University Press, 2021, roč. 37, č. 23, s. 4599-4601. ISSN 1367-4803. Dostupné z: https://dx.doi.org/10.1093/bioinformatics/btab505.

MIDLIK, Adam, Ivana HUTAŘOVÁ VAŘEKOVÁ, Jan HUTAŘ, Tarakaramji MOTURU, Veronika NAVRÁTILOVÁ, Jaroslav KOČA, Karel BERKA a Radka SVOBODOVÁ VAŘEKOVÁ. Automated family-wide annotation of secondary structure elements. In Alexander E. Kister. Protein supersecondary structures: Methods and protocols. Second Edition. New York: Humana Press, 2019, s. 47-71. Methods in Molecular Biology. ISBN 978-1-4939-9160-0. Dostupné z: https://dx.doi.org/10.1007/978-1-4939-9161-7_3.

MIDLIK, Adam, Ivana HUTAŘOVÁ VAŘEKOVÁ, Jan HUTAŘ, Veronika NAVRÁTILOVÁ, Jaroslav KOČA, Karel BERKA a Radka SVOBODOVÁ VAŘEKOVÁ. Creation and visualization of secondary structure consensus for protein families. In XX. setkání biochemiků a molekulárních biologů. 2019.

MIDLIK, Adam, Ivana HUTAŘOVÁ VAŘEKOVÁ, Jan HUTAŘ, Veronika NAVRÁTILOVÁ, Radka SVOBODOVÁ VAŘEKOVÁ, Jaroslav KOČA a Karel BERKA. Annotation of protein secondary structure elements for whole protein families. In ECCB 2018, Athens, Greece. 2018.

MIDLIK, Adam, Ivana HUTAŘOVÁ VAŘEKOVÁ, Jan HUTAŘ, Tarakaramji MOTURU, Veronika NAVRÁTILOVÁ, Radka SVOBODOVÁ VAŘEKOVÁ, Jaroslav KOČA a Karel BERKA. Automated Annotation of Secondary Structure Elements for Entire Protein Families. In National Bioinformatic Conference ENBIK. 2018.

SVOBODOVÁ VAŘEKOVÁ, Radka, Ivana HUTAŘOVÁ VAŘEKOVÁ, Adam MIDLIK, Jan HUTAŘ, Tarakaramji MOTURU, Veronika NAVRÁTILOVÁ, Jaroslav KOČA a Karel BERKA. Family-wide annotation and schematic 2D visualization of secondary structure elements. In National Bioinformatic Conference ENBIK. 2018.

HUTAŘOVÁ VAŘEKOVÁ, Ivana, Jan HUTAŘ, Adam MIDLIK, Veronika NAVRÁTILOVÁ, Radka SVOBODOVÁ VAŘEKOVÁ a Karel BERKA. Protein family based 2D Diagrams of Secondary Structure Elements. In National Bioinformatic Conference ENBIK. 2018.

SVOBODOVÁ VAŘEKOVÁ, Radka, Adam MIDLIK, Ivana HUTAŘOVÁ VAŘEKOVÁ, Jan HUTAŘ, Veronika NAVRÁTILOVÁ, Jaroslav KOČA a Karel BERKA. Secondary Structure Elements-Annotations and Schematic 2D Visualizations Stable for Individual Protein Families. In Biophysical Society 62nd Annual Meeting, San Francisco, California. 2018. ISSN 0006-3495. Dostupné z: https://dx.doi.org/10.1016/j.bpj.2017.11.307.

HUTAŘOVÁ VAŘEKOVÁ, Ivana, Jan HUTAŘ, Radka SVOBODOVÁ VAŘEKOVÁ a Karel BERKA. Mapping and 2D visualization of secondary structure elements in cytochromes. In ISMB/ECCB, Prague. 2017.

BRÁZDIL, Tomáš, Stefan KIEFER, Antonín KUČERA a Ivana HUTAŘOVÁ VAŘEKOVÁ. Runtime analysis of probabilistic programs with unbounded recursion. Journal of Computer and System Sciences. Academic Press, 2015, roč. 81, č. 1, s. 288-310. ISSN 0022-0000. Dostupné z: https://dx.doi.org/10.1016/j.jcss.2014.06.005.

BRÁZDIL, Tomáš, Stefan KIEFER, Antonín KUČERA a Ivana HUTAŘOVÁ VAŘEKOVÁ. Runtime Analysis of Probabilistic Programs with Unbounded Recursion. In Luca Aceto, Monika Henzinger, Jiří Sgall. Proceedings of 38th International Colloquium on Automata, Languages and Programming (ICALP 2011). Berlin: Springer, 2011, s. 319-331. ISBN 978-3-642-22011-1.

MORAVCOVÁ VAŘEKOVÁ, Pavlína, Ivana VAŘEKOVÁ a Ivana ČERNÁ. Automated Computing of the Maximal Number of Handled Clients for Client-Server Systems. In Proceedings of the International Workshop on Formal Aspects of Component Software (FACS'08). Málaga, Spain: Department of Computer Science, University of Málaga, 2008, s. 41-55. ISSN 1571-0661.