Publication Records

JANKŮJOVÁ, Marie, David POTĚŠIL, Zbyněk ZDRÁHAL, Martin DEMKO, Jan OPPELT, Martin KAŠNÝ and Jaroslav VADLEJCH. Analysis of gene expression and protein synthesis related to hypobiosis of Teladorsagia circumcincta. In The 26th International Conference of the World Association for the Advancement of Veterinary Parasitology. 2017.

KOČKOVÁ, Helena, Karla PLEVOVÁ, Jitka MALČÍKOVÁ, Jana KOTAŠKOVÁ, Vojtěch BYSTRÝ, Veronika MANČÍKOVÁ, Martin TRBUŠEK, Michaela HLOŽKOVÁ, Yvona BRYCHTOVÁ, Michael DOUBEK and Šárka POSPÍŠILOVÁ. B cell receptor signaling actvity is associated with genomic defects in chronic lymphocytic leukemia. In CEITEC PHD RETREAT II. 2017.

OLBERTOVÁ, Helena, Karla PLEVOVÁ, Jitka MALČÍKOVÁ, Jana KOTAŠKOVÁ, Vojtěch BYSTRÝ, Veronika MANČÍKOVÁ, Tomáš LOJA, Martin TRBUŠEK, Michaela ŠPUNAROVÁ, Yvona BRYCHTOVÁ, Michael DOUBEK and Šárka POSPÍŠILOVÁ. B cell receptor signaling actvity is associated with genomic defects in chronic lymphocytic leukemia. In Nucleic Acids and Immunity. 2017.

HYNŠT, Jakub, Karla PLEVOVÁ, Vojtěch BYSTRÝ, Lenka RADOVÁ and Šárka POSPÍŠILOVÁ. Bioinformatical analysis of chromosomal rearrangement in chromothripsis event using whole transcriptome sequencing data. In Curie-Pasteur-CEITEC joint young scientist retreat. 2017.

HORSKÝ, Vladimír, Veronika BENDOVÁ, Radka SVOBODOVÁ VAŘEKOVÁ and Jaroslav KOČA. Biomacromolecular structure quality – improvement or stagnation? In CEITEC PhD Retreat II. 2017. ISBN 978-80-210-8551-0.

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.

STEJSKALOVA, Karla, Zuzana BAYEROVÁ, Ján FUTAS, Kristýna HRAZDILOVÁ, Marie KLUMPLEROVÁ, Jan OPPELT, Petra SPLICHALOVA, Giovanni Di GUARDO, Sandro MAZZARIOL, Cristina Esmeralda Di FRANCESCO, Gabriella Di FRANCESCO, Giuliana TERRACCIANO, Romulus-Marian PAIU, Teodor Dan URSACHE, David MODRY and Petr HOŘÍN. Candidate gene molecular markers as tools for analyzing genetic susceptibility to Morbillivirus infection in stranded Cetaceans. HLA. 2017, vol. 90, No 6, p. 343-353. ISSN 2059-2302. Available from: https://dx.doi.org/10.1111/tan.13146.

PLEVOVÁ, Karla, Jakub HYNŠT, Vojtěch BYSTRÝ, Jitka MALČÍKOVÁ, Karol PÁL, T. RAUSCH, V. BENEŠ, Michael DOUBEK and Šárka POSPÍŠILOVÁ. Complex genome rearrangements are associated with altered gene expression in chronic lymphocytic leukemia. In EMBO Basel Life. 2017.

SUCHÁNKOVÁ, Pavla and Radka SVOBODOVÁ VAŘEKOVÁ. Connection of saccharide database UnicarbKb with common databases of molecular structures. In XVIII. setkání biochemiků a molekulárních biologů, 2017. 2017. ISBN 978-80-210-8765-1.

VOREL, Jiří, Marie JANKŮJOVÁ, Jan OPPELT, Filip PARDY, Pavel ROUDNICKÝ, Jana ILGOVÁ, Hana DVOŘÁKOVÁ, Lucie JEDLIČKOVÁ, Libor MIKEŠ, Dagmar JIRSOVÁ, Božena KOUBKOVÁ, Milan GELNAR and Martin KAŠNÝ. Could nanopore sequencing help us improve genome assembly of Eudiplozoon nipponicum (Polyopisthocotylea, Diplozoidae)? In 6th ECIP meeting - European Centre of Ichtyoparasitology. 2017. ISBN 978-80-210-8799-6.

MIDLIK, Adam, Radka SVOBODOVÁ VAŘEKOVÁ, Veronika NAVRÁTILOVÁ, Karel BERKA and Jaroslav KOČA. Cytochrome P450 structure anatomy – recognition and analysis of secondary structure elements. In ISMB/ECCB, Prague. 2017.

BRIM, Luboš, Jiří BARNAT, David ŠAFRÁNEK, Nikola BENEŠ, Martin DEMKO, Samuel PASTVA and Matej HAJNAL. Detecting Attractors in Biological Models with Uncertain Parameters. In Jérôme Feret and Heinz Koeppl. Computational Methods in Systems Biology. CMSB 2017. LNCS 10545. Cham: Springer International Publishing, 2017, p. 40-56. ISBN 978-3-319-67470-4. Available from: https://dx.doi.org/10.1007/978-3-319-67471-1_3.

BENEŠ, Nikola, Luboš BRIM, Martin DEMKO, Matej HAJNAL, Samuel PASTVA and David ŠAFRÁNEK. Discrete Bifurcation Analysis with Pithya. In Feret J. et al. 15th International Conference on Computational Methods in Systems Biology (CMSB). LNCS 10545. Cham: Springer, 2017, p. 319-320. ISBN 978-3-319-67470-4.

RŮŽIČKA, Michal, Petr KULHÁNEK, Lenka RADOVÁ, Andrea ČECHOVÁ, Naděžda ŠPAČKOVÁ, Lenka FAJKUSOVÁ and Kamila RÉBLOVÁ. DNA mutation motifs in the genes associated with inherited diseases. Plos one. San Francisco: Public Library of Science, 2017, vol. 12, No 8, p. nestránkováno, 16 pp. ISSN 1932-6203. Available from: https://dx.doi.org/10.1371/journal.pone.0182377.

HORSKÝ, Vladimír, Veronika BENDOVÁ, Radka SVOBODOVÁ VAŘEKOVÁ, Sameer VELANKAR and Jaroslav KOČA. Do trends in biomacromolecular structure quality inspire optimism? In 25th Conference on Intelligent Systems for Molecular Biology (ISMB) / 16th Conference on European Conference on Computational Biology (ECCB) 2017. 2017.

REIGL, Tomáš, Vojtěch BYSTRÝ, Adam KREJČÍ, Kamila BRÁZDILOVÁ, Karla PLEVOVÁ, Šárka POSPÍŠILOVÁ and Nikos DARZENTAS. Encyclopedia of CLL subsets – nový bioinformatický nástroj a unikátní databáze pro výzkum a klinické využití subsetů stereotypních B buněčných receptorů chronické lymfocytární leukemie (Encyclopedia of CLL subsets - a new bioinformatics tool and a unique database for research and clinical use of subsets of stereotypic B cell receptors for chronic lymphocytic leukemia). In XLI. brněnské onkologické dny. 2017.

KIRMZIS, Antonis, Diego MOLINA-SERRANO, Vassia SCHIZA, Christis DEMOSTHENOUS, Jan OPPELT, Wei LIU, Gertrude ZISSE, Helmut BERGLER and Weiwei DANG. Epigenetic Control Of Aging In Response To Caloric Restriction. In 28th International Conference on Yeast Genetics and Molecular Biology (ICYGMB). 2017.

VOREL, Jiří, Pavel ROUDNICKÝ, Jana ILGOVÁ, Hana DVOŘÁKOVÁ, Lucie JEDLIČKOVÁ, Libor MIKEŠ, Petr BROŽ, Dagmar JIRSOVÁ, Roman LEONTOVYČ, Lukáš VETEŠNÍK, Pavel JURAJDA, Marie JANKŮJOVÁ, Jan OPPELT, Božena KOUBKOVÁ, Milan GELNAR and Martin KAŠNÝ. Eudiplozoon nipponicum (Monogenea: Diplozoidae): Comparative study of transcriptome and secretome of fish parasite. In 23rd Helminthological Days. 2017. ISBN 978-80-968473-8-9.

VOREL, Jiří, Pavel ROUDNICKÝ, Jana ILGOVÁ, Hana DVOŘÁKOVÁ, Lucie JEDLIČKOVÁ, Libor MIKEŠ, Petr BROŽ, Dagmar JIRSOVÁ, Roman LEONTOVYČ, Lukáš VETEŠNÍK, Pavel JURAJDA, Marie JANKŮJOVÁ, Jan OPPELT, Božena KOUBKOVÁ, Milan GELNAR and Martin KAŠNÝ. Eudiplozoon nipponicum (Polyopisthocotylea: Diplozoidae): transcriptome and secretome analyses of hematophagous fish parasite. In 8th International Symposium on Monogenea. 2017. ISBN 978-80-210-8666-1.

HORSKÝ, Vladimír, Veronika BENDOVÁ, Radka SVOBODOVÁ VAŘEKOVÁ and Jaroslav KOČA. Exploring Trends in Quality of Biomacromolecular Structure Data. In ELIXIR CZ Annual Conference 2017. 2017. ISBN 978-80-86241-57-9.

SLANÝ, Michal, Jan OPPELT and Lenka ČINČÁROVÁ. Formation of Staphylococcus aureus biofilm in the presence of sub-lethal concentrations of disinfectants: a transcriptomic analysis using RNA-seq. APPLIED AND ENVIRONMENTAL MICROBIOLOGY. American Society for Microbiology, 2017, vol. 83, No 24, p. nestránkováno, 13 pp. ISSN 0099-2240. Available from: https://dx.doi.org/10.1128/AEM.01643-17.

JIMÉNEZ, Rafael C, Mateusz KUZAK, Monther ALHAMDOOSH, Michelle BARKER, Bérénice BATUT, Mikael BORG, Salvador CAPELLA-GUTIERREZ, Neil Chue HONG, Martin COOK, Manuel CORPAS, Madison FLANNERY, Leyla GARCIA, Josep Ll GELPÍ, Simon GLADMAN, Carole GOBLE, Montserrat González FERREIRO, Alejandra GONZALEZ-BELTRAN, Philippa C GRIFFIN, Björn GRÜNING, Jonas HAGBERG, Petr HOLUB, Rob HOOFT, Jon ISON, Daniel S KATZ, Brane LESKOŠEK, Federico López GÓMEZ, Luis J OLIVEIRA, David MELLOR, Rowland MOSBERGEN, Nicola MULDER, Yasset PEREZ-RIVEROL, Robert PERGL, Horst PICHLER, Bernard POPE, Ferran SANZ, Maria V SCHNEIDER, Victoria STODDEN, Radosław SUCHECKI, Radka SVOBODOVÁ VAŘEKOVÁ, Harry-Anton TALVIK, Ilian TODOROV, Andrew TRELOAR, Sonika TYAGI, Maarten van GOMPEL, Daniel VAUGHAN, Allegra VIA, Xiaochuan WANG, Nathan S WATSON-HAIGH and Crouch STEVE. Four simple recommendations to encourage best practices in research software. F1000Research. 2017, vol. 6, JUN, p. 876-888. ISSN 2046-1402. Available from: https://dx.doi.org/10.12688/f1000research.11407.1.

PECIMONOVA, Martina, Emil POLAK, Frantisek CSICSAY, Kamila RÉBLOVÁ, Maja STOJILJKOVIC, Zdenko LEVARSKI, Ludovit SKULTETY, Ludevit KADASI and Andrea SOLTYSOVA. Functional and structural characterisation of 5 missense mutations of the phenylalanine hydroxylase. General physiology and biophysics. BRATISLAVA: General Physiol and Biophysic, 2017, vol. 36, No 4, p. 361-371. ISSN 0231-5882. Available from: https://dx.doi.org/10.4149/gpb_2017003.

PÁL, Karol, Vojtěch BYSTRÝ, Tomáš REIGL, Martin DEMKO, Adam KREJČÍ, T. TOULOUMENIDOU, E. STALIKA, Boris TICHÝ, P. GHIA, K. STAMATOPOULOS, Šárka POSPÍŠILOVÁ, Jitka MALČÍKOVÁ and Nikos DARZENTAS. GLASS. 2017.

PÁL, Karol, Vojtěch BYSTRÝ, Tomáš REIGL, Martin DEMKO, Adam KREJČÍ, T. TOULOUMENIDOU, E. STALIKA, Boris TICHÝ, P. GHIA, K. STAMATOPOULOS, Šárka POSPÍŠILOVÁ, Jitka MALČÍKOVÁ and Nikos DARZENTAS. GLASS: assisted and standardized assessment of gene variations from Sanger sequence trace data. Bioinformatics. Oxford: Oxford University Press, 2017, vol. 33, No 23, p. 3802-3804. ISSN 1367-4803. Available from: https://dx.doi.org/10.1093/bioinformatics/btx423.

PÁL, Karol, Vojtěch BYSTRÝ, Tomáš REIGL, Martin DEMKO, Adam KREJČÍ, Boris TICHÝ, Šárka POSPÍŠILOVÁ, Jitka MALČÍKOVÁ and Nikos DARZENTAS. GLASS: assisted and standardized assessment of gene variations from Sanger sequence trace data. In CEITEC PHD RETREAT II, Telč. 2017.

PÁL, Karol, Vojtěch BYSTRÝ, Tomáš REIGL, Martin DEMKO, Adam KREJČÍ, Boris TICHÝ, Šárka POSPÍŠILOVÁ, Jitka MALČÍKOVÁ and Nikos DARZENTAS. GLASS:assisted and standardized assessment of gene variations from Sanger sequence trace data. (GLASS: assisted and standardized assessment of gene variations from Sanger sequence trace data.). In Curie-Pasteur-CEITEC joint young scientist retreat. 2017.

ROY, A., Vojtěch BYSTRÝ, G. BOHN, K. GOUDEVENOU, Tomáš REIGL, M. PAPAIOANNOU, Adam KREJČÍ, S. O BYRNE, A. CHAIDOS, A. GRIONI, Nikos DARZENTAS, I.A.G. ROBERTS and A. KARADIMITRIS. High resolution IgH repertoire analysis reveals fetal liver as the likely origin of life-long, innate B lymphopoiesis in humans. Clinical Immunology. San Diego: Academic Press Inc., 2017, vol. 183, OCT, p. 8-16. ISSN 1521-6616. Available from: https://dx.doi.org/10.1016/j.clim.2017.06.005.

MIKALOVÁ, Lenka, Michal STROUHAL, Jan OPPELT, Philippe Alain GRANGE, Michel JANIER, Nadjet BENHADDOU, Nicolas DUPIN and David ŠMAJS. Human Treponema pallidum 11q/j isolate belongs to subsp. endemicum but contains two loci with a sequence in TP0548 and TP0488 similar to subsp. pertenue and subsp. pallidum, respectively. PLoS neglected tropical diseases. San Francisco: Public Library of Science, 2017, vol. 11, No 3, p. 1-14. ISSN 1935-2735. Available from: https://dx.doi.org/10.1371/journal.pntd.0005434.

BELICKY, Stefan, Hana CERNOCKA, Tomas BERTOK, Alena HOLAZOVA, Kamila RÉBLOVÁ, Emil PALECEK, Jan TKAC and Veronika OSTATNA. Label-free chronopotentiometric glycoprofiling of prostate specific antigen using sialic acid recognizing lectins. Bioelectrochemistry. SWITZERLAND: Elsevier Science SA, 2017, vol. 117, October, p. 89-94. ISSN 1567-5394. Available from: https://dx.doi.org/10.1016/j.bioelechem.2017.06.005.

SEHNAL, David, Mandar DESHPANDE, Radka SVOBODOVÁ VAŘEKOVÁ, Saqib MIR, Karel BERKA, Adam MIDLIK, Lukáš PRAVDA, Sameer VELANKAR and Jaroslav KOČA. LiteMol suite: interactive web-based visualization of large-scale macromolecular structure data. Nature Methods. London, United Kingdom: Nature Publishing Group, 2017, vol. 14, No 12, p. 1121-1122. ISSN 1548-7091. Available from: https://dx.doi.org/10.1038/nmeth.4499.

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

ČERNÁ, Kateřina, Jan OPPELT, Václav ŠEDA, Kateřina MUSILOVÁ, Gabriela PAVLASOVÁ, Veronika SVOBODOVÁ, Jiří MAYER, Šárka POSPÍŠILOVÁ and Marek MRÁZ. MicroRNA induced by DNA damage response regulate the expression of FOXP1 and therapy response in CLL. In 2nd International Conference on the Long and the Short of Non-Coding RNAs, Heraklion, Greece. 2017.

ČERNÁ, Kateřina, Jan OPPELT, Václav ŠEDA, Kateřina MUSILOVÁ, Gabriela PAVLASOVÁ, Jiří MAYER, Šárka POSPÍŠILOVÁ and Marek MRÁZ. MicroRNA induced by DNA damage response regulates the expression of FOXP1 and therapy response in CLL. In XVII International Workshop on Chronic Lymphocytic Leukemia, USA, New York. 2017.

BENEŠ, Nikola, Luboš BRIM, Martin DEMKO, David ŠAFRÁNEK, Samuel PASTVA and Matej HAJNAL. Model Checking Approach to Discrete Bifurcation Analysis. In Doctoral Workshop on Mathematical and Engineering Methods in Computer Science. 2017.

BRIM, Luboš, David ŠAFRÁNEK, Nikola BENEŠ, Martin DEMKO, Samuel PASTVA and Matej HAJNAL. Parameter Synthesis of Biological Models by Model Checking: A Case Study. In 4th International Synthetic & Systems Biology Summer School. SSBSS 2017. 2017.

BENEŠ, Nikola, Luboš BRIM, Martin DEMKO, Samuel PASTVA and David ŠAFRÁNEK. Pithya: A Parallel Tool for Parameter Synthesis of Piecewise Multi-Affine Dynamical Systems. In Rupak Majumdar and Viktor Kunčak. Computer Aided Verification. CAV 2017. LNCS 10426. Cham: Springer International Publishing, 2017, p. 591-598. ISBN 978-3-319-63386-2. Available from: https://dx.doi.org/10.1007/978-3-319-63387-9_29.

BRIM, Luboš, Nikola BENEŠ, David ŠAFRÁNEK, Martin DEMKO, Samuel PASTVA and Matej HAJNAL. PITHYA: High-Performance Parameter Synthesis for Biological Models. In Intelligent Systems for Molecular Biology and European Conference on Computational Biology. ISMB/ECCB 2017. 2017.

POPPOVÁ, Lucie, Pavlína JANOVSKÁ, B. GONZALEZ, Karla PLEVOVÁ, Vojtěch BYSTRÝ, Karol PÁL, Hana PLEŠINGEROVÁ, Marek BORSKÝ, Helena OLBERTOVÁ, Jana KOTAŠKOVÁ, Yvona BRYCHTOVÁ, Michael DOUBEK, Šárka PAVLOVÁ, S. ALONSO, Vítězslav BRYJA and Šárka POSPÍŠILOVÁ. Promoter methylation of ROR ligand WNTA associates with its expression in chronic lymphocytic leukemia. In 3rd International Conference on New Concepts in Lymphoid Malignancies: Focus on CLL and Indolent Lymphoma. 2017.

SVOBODOVÁ VAŘEKOVÁ, Radka, Vladimír HORSKÝ, David SEHNAL, Veronika BENDOVÁ, Lukáš PRAVDA and Jaroslav KOČA. Quo Vadis, Biomacromolecular Structure Quality. In Biophysical Society 61st Annual Meeting, New Orleans, Louisiana. 2017. ISSN 1542-0086. Available from: https://dx.doi.org/10.1016/j.bpj.2016.11.1880.

DRSATA, Tomas, Kamila RÉBLOVÁ, Ivana BESSEOVA, Jiří ŠPONER and Filip LANKAS. rRNA C-Loops: Mechanical Properties of a Recurrent Structural Motif. Journal of Chemical Theory and Computation. Washington DC: American Chemical Society, 2017, vol. 13, No 7, p. 3359-3371. ISSN 1549-9618. Available from: https://dx.doi.org/10.1021/acs.jctc.7b00061.

RŮŽIČKA, Michal, Kamila RÉBLOVÁ and Petr KULHÁNEK. Study of structural and elastic properties of DNA mutation motifs using computational methods. In Modeling Interactions in Biomolecules VIII, Plzeň. 2017.

WAYHELOVÁ, Markéta, Jan OPPELT, Jan SMETANA, Filip PARDY, Hana FILKOVÁ, Renata GAILLYOVÁ and Petr KUGLÍK. The clinical impact of targeted „next-generation“ sequencing in molecular diagnostics of intellectual disabilities and multiple congenital abnormalities. In The Biomania Student Scientific Meeting 2017. 2017. ISBN 978-80-210-8737-8.

WAYHELOVÁ, Markéta, Jan OPPELT, Denisa VESELÁ, Jan SMETANA, Filip PARDY, Hana FILKOVÁ, Dita MATUCHOVÁ, Jana ŠOUKALOVÁ, Renata GAILLYOVÁ and Petr KUGLÍK. The clinical utility of array-CGH and targeted NGS in idiopathic intellectual disabilities and developmental delays: a case report of SCN2A p.Ala263Val variant. In The European Human Genetics Conference ESHG 2017. 2017. ISSN 1018-4813.

OPPELT, Jan and Marek MRÁZ. The impact of choice of reference gene annotation. In CEITEC PhD Retreat II. 2017. ISBN 978-80-210-8550-3.

TOM, Nikola, Ondřej TOM, Jitka MALČÍKOVÁ, Šárka PAVLOVÁ, Blanka KUBEŠOVÁ, Vojtěch BYSTRÝ and Šárka POSPÍŠILOVÁ. ToTem – a tool for automated optimization of variant calling pipelines. In Curie-Pasteur-CEITEC joint young scientist retreat. 2017.

HORSKÝ, Vladimír, Veronika BENDOVÁ, Radka SVOBODOVÁ VAŘEKOVÁ and Jaroslav KOČA. Trends in biomacromolecular structure quality. In 2nd Annual Users Meeting of iNEXT. 2017.

HORSKÝ, Vladimír, Veronika BENDOVÁ, Radka SVOBODOVÁ VAŘEKOVÁ and Jaroslav KOČA. Trends in quality and properties of biomacromolecular complexes. In Curie - Pasteur - CEITEC joint young scientist retreat. 2017.

ŽUFANOVÁ, Zuzana, Radka SVOBODOVÁ VAŘEKOVÁ and Michaela WIMMEROVÁ. Validation and analyses of biomacromolecular ligand conformations. In CEITEC PhD Retreat II. 2017. ISBN 978-80-210-8550-3.

BENEŠ, Nikola, Luboš BRIM, Martin DEMKO, Samuel PASTVA and David ŠAFRÁNEK. A Model Checking Approach to Discrete Bifurcation Analysis. In John S. Fitzgerald et al. Formal Methods. FM 2016. LNCS 9995. Neuveden: Springer International Publishing, 2016, p. 85-101. ISBN 978-3-319-48988-9. Available from: https://dx.doi.org/10.1007/978-3-319-48989-6_6.

BOUCHAL, Pavel, Josef MARYÁŠ, Michaela GALOCZOVÁ, Jakub FAKTOR, Monika DVOŘÁKOVÁ, Roumeliotis THEODOROS, Karolína ZOUFALOVÁ, Lenka ČÁPKOVÁ, Hana IMRICHOVÁ, Eva BUDINSKÁ, Spiros D. GARBIS, Bořivoj VOJTĚŠEK and Rudolf NENUTIL. A novel panel of proteins associated with lymph node metastasis in low-grade breast cancer. In Annual Swiss Proteomics Meeting, Brig, Switzerland, 21.-22.4.2016. 2016.

BOUCHAL, Pavel, Jakub FAKTOR, Lenka ČÁPKOVÁ, Eva BUDINSKÁ and Rudolf NENUTIL. Aplikace SWATH-MS v nádorovém výzkumu. In Setkání uživatelů hmotnostní spektrometrie SCIEX, Praha, 14.6.2016. 2016.

MIDLIK, Adam, Karel BERKA, Radka SVOBODOVÁ VAŘEKOVÁ and Jaroslav KOČA. Automatická anotácia sekundárnych štruktúr v cytochrómoch P450 a hodnotenie ich štruktúrnej podobnosti. In Národní bioinformatická konference ENBIK. 2016.

JIRSOVÁ, Dagmar, Martina HÁJÍČKOVÁ, Jan OPPELT and Roman GEABUER. Beech transcriptome data: “I am stressed!”. In IUFRO ‘Genomics and Forest Genetics’ Conference. 2016.

SMETANA, Jan, Petr KUGLÍK, Henrieta GREŠLIKOVÁ, Renata KUPSKÁ, Pavel NĚMEC, Aneta MIKULÁŠOVÁ, Iveta VALÁŠKOVÁ, Jan OPPELT, Martina ALMÁŠI, Marta KREJČÍ, Zdeněk ADAM, Luděk POUR and Roman HÁJEK. Clonal cytogenetics changes in progression of multiple myeloma to extramedullary relapse and plasmocellular leukemia: a case report. International Journal of Clinical and Experimental Pathology. USA: e-Century Publishing Corporation, Madiso, 2016, vol. 9, No 1, p. 49-62. ISSN 1936-2625.

DIDI, Vojtěch, Jana VAŠÍČKOVÁ, Radek JUPA, Mariana BENITEZ KEINRAD, Tereza DOBISOVÁ, Anna BÍLKOVÁ, Eva BUDINSKÁ, Radim ČEGAN, Roman HOBZA, Shawn MANSFIELD, Vít GLOSER and Jan HEJÁTKO. Cytokinins control cell differentiation via regulation of secondary cell wall master switches NST1 and NST3. In Norwegian Plant Biology 2016. 2016.

ŠKORPÍKOVÁ, Lucie, Jana ILGOVÁ, David POTĚŠIL, Zbyněk ZDRÁHAL, Martin DEMKO, Jan OPPELT, Milan GELNAR and Martin KAŠNÝ. Deep insight into secretome and transcriptome of Trichinella spiralis and Trichinela pseudospiralis. In EMOP XII – the 12th European Multicolloquium of Parasitology. 2016.

PRAVDA, Lukáš, David SEHNAL, Radka SVOBODOVÁ VAŘEKOVÁ and Jaroslav KOČA. Detekce biomolekulárních substruktur pomocí PatternQuery. In ENBIK - Národní bioinformatická konference. 2016. ISBN 978-80-7080-960-0.

NYGÅRD, Sune Boris, Ben VAINER, Signe Lykke NIELSEN, Fred BOSMAN, Sabine TEJPAR, Arnaud ROTH, Mauro DELORENZI, Nils BRÜNNER and Eva BUDINSKÁ. DNA Topoisomerase I Gene Copy Number and mRNA Expression Assessed as Predictive Biomarkers for Adjuvant Irinotecan in Stage II/III Colon Cancer. Clinical Cancer Research. Philadelphia: American Association for Cancer Research Inc., 2016, vol. 22, No 7, p. 1621-1631. ISSN 1078-0432. Available from: https://dx.doi.org/10.1158/1078-0432.CCR-15-0561.

BUDINSKÁ, Eva, Fred BOSMAN and Vlad POPOVICI. Experiments in Molecular Subtype Recognition Based on Histopathology Images. Online. In 2016 IEEE 13TH INTERNATIONAL SYMPOSIUM ON BIOMEDICAL IMAGING (ISBI). NEW YORK: IEEE, 2016, p. 1168-1172. ISBN 978-1-4799-2350-2. Available from: https://dx.doi.org/10.1109/ISBI.2016.7493474.

DEMKO, Martin, Nikola BENEŠ, Luboš BRIM, Samuel PASTVA and David ŠAFRÁNEK. High-Performance Symbolic Parameter Synthesis of Biological Models: A Case Study. In Ezio Bartocci et al. Computational Methods in Systems Biology. CMSB 2016. LNBI 9859. Neuveden: Springer International Publishing, 2016, p. 82-97. ISBN 978-3-319-45176-3. Available from: https://dx.doi.org/10.1007/978-3-319-45177-0_6.

HEJRET, Václav, Stanislav GEIDL, Radka SVOBODOVÁ VAŘEKOVÁ and Jaroslav KOČA. ChrgDescCalc.py – nástroj na výpočet nábojových deskriptorů (ChrgDescCalc.py - tool for calculating charge descriptors). In ENBIK - Národní bioinformatická konference. 2016. ISBN 978-80-7080-960-0.

HANÁKOVÁ, Barbora, Jan OPPELT and Eva BUDINSKÁ. Identification of subtype specific microbiome from tumour tissue RNAseq data in colorectal cancer. In 15th European Conference on Computational Biology. 2016.

POPOVICI, Vlad, Eva BUDINSKÁ, Lenka ČÁPKOVÁ, Daniel SCHWARZ, Ladislav DUŠEK, Josef FEIT and Rolf JAGGI. Joint analysis of histopathology image features and gene expression in breast cancer. BMC Bioinformatics. London: BioMed Central, 2016, vol. 17, No 209, p. 1-9. ISSN 1471-2105. Available from: https://dx.doi.org/10.1186/s12859-016-1072-z.

MOLINA-SERRANO, Diego, Vassia SCHIZA, Christis DEMOSTHENOUS, Emmanouil STAVROU, Jan OPPELT, Dimitris KYRIAKOU, Wei LIU, Gertrude ZISSER, Helmut BERGLER, Weiwei DANG and Antonis KIRMIZIS. Loss of Nat4 and its associated histone H4 N-terminal acetylation mediates calorie restriction-induced longevity. EMBO reports. Hoboken: Wiley-Blackwell, 2016, vol. 17, No 12, p. 1829-1843. ISSN 1469-221X. Available from: https://dx.doi.org/10.15252/embr.201642540.

JANEČKOVÁ, Veronika, Ivana JEŽÍŠKOVÁ, Tereza TLAMKOVÁ, Eva BUDINSKÁ, Z. KOSAŘOVÁ, Martin ČULEN, A. FOLTA, Petr CETKOVSKÝ, P. ŽÁK, Tomáš SZOTKOWSKI, P. JINDRA and Zdeněk RÁČIL. Mutační analýza pacientů s akutní myeloidní leukémií – optimalizace hodnocení sekvenačních dat a předběžné výsledky národní studie. In XXX. Olomoucké hematologické dny. 2016.

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.

ADAMS, Paul D., Kathleen AERTGEERTS, Cary BAUER, Jeffrey A. BELL, Helen M. BERMAN, Talapady N. BHAT, Jeff M. BLANEY, Evan BOLTON, Gerard BRICOGNE, David BROWN, Stephen K. BURLEY, David A. CASE, Kirk L. CLARK, Tom DARDEN, Paul EMSLEY, Victoria A. FEHER, Zukang FENG, Colin R. GROOM, Seth F. HARRIS, Jorg HENDLE, Thomas HOLDER, Andrzej JOACHIMIAK, Gerard J. KLEYWEGT, Tobias KROJER, Joseph MARCOTRIGIANO, Alan E. MARK, John L. MARKLEY, Matthew MILLER, Wladek MINOR, Gaetano T. MONTELIONE, Garib MURSHUDOV, Atsushi NAKAGAWA, Haruki NAKAMURA, Anthony NICHOLLS, Marc NICKLAUS, Robet T. NOLTE, Anil K. PADYANA, Catherine E. PEISHOFF, Susan PIENIAZEK, Randy J. READ, Chenghua SHAO, Steven SHERIFF, Oliver SMART, Stephen SOISSON, John SPURLINO, Terry STOUCH, Radka SVOBODOVÁ VAŘEKOVÁ, Wolfram TEMPEL, Thomas C. TERWILLIGER, Dale TRONRUD, Sameer VELANKAR, Suzanna C. WARD, Gregory L. WARREN, John D. WESTBROOK, Pamela WILLIAMS, Huanwang YANG and Jasmine YOUNG. Outcome of the First wwPDB/CCDC/D3R Ligand Validation Workshop. Structure. CAMBRIDGE: CELL PRESS, 2016, vol. 24, No 4, p. 502-508. ISSN 0969-2126. Available from: https://dx.doi.org/10.1016/j.str.2016.02.017.

BENEŠ, Nikola, Luboš BRIM, Martin DEMKO, Samuel PASTVA and David ŠAFRÁNEK. Parallel SMT-Based Parameter Synthesis with Application to Piecewise Multi-Affine Systems. In Cyrille Artho et al. Automated Technology for Verification and Analysis. ATVA 2016. LNCS 9938. Neuveden: Springer International Publishing, 2016, p. 192-208. ISBN 978-3-319-46519-7. Available from: https://dx.doi.org/10.1007/978-3-319-46520-3_13.

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.

OPPELT, Jan, Marie JANKŮJOVÁ and Marek MRÁZ. Porovnání výsledků genové exprese pří použití různých anotací genomu (Comparison of the results of gene expression using different genome annotation). In ENBIK2016. 2016. ISBN 978-80-7080-960-0.

KOČA, Jaroslav, Radka SVOBODOVÁ VAŘEKOVÁ, Lukáš PRAVDA, Karel BERKA, Stanislav GEIDL, David SEHNAL and Michal OTYEPKA. Structural Bioinformatics Tools for Drug Design: Extraction of Biologically Relevant Information from Structural Databases. Online. 1st ed. Cham: Springer International Publishing, 2016, 144 pp. SpringerBriefs in Biochemistry and Molecular Biology. ISBN 978-3-319-47388-8. Available from: https://dx.doi.org/10.1007/978-3-319-47388-8.

PERCZEL, András, Atanas G. ATANASOV, Vladimír SKLENÁŘ, Jiří NOVÁČEK, Veronika PAPOUŠKOVÁ, Pavel KADEŘÁVEK, Lukáš ŽÍDEK, Henryk KOZLOWSKI, Joanna WATLY, Aleksandra HECEL, Paulina KOLKOWSKA, Jaroslav KOČA, Radka SVOBODOVÁ VAŘEKOVÁ, Lukáš PRAVDA, David SEHNAL, Vladimír HORSKÝ, Stanislav GEIDL, Ricardo D. ENRIZ, Pavel MATĚJKA, Adéla JENIŠTOVÁ, Marcela DENDISOVÁ, Alžběta KOKAISLOVÁ, Volkmar WEISSIG, Mark OLSEN, Aidan COFFEY, Jude AJUEBOR, Ruth KEARY, Marta SANZ-GAITERO, Mark J. VAN RAAIJ, Olivia MCAULIFFE, Birgit WALTENBERGER, Andrei MOCAN, Karel ŠMEJKAL, Elke H. HEISS, Marc DIEDERICH, Robert MUSIOL, Janez KOŠMRLJ, Jaroslaw POLANSKI and Josef JAMPÍLEK. The Eighth Central European Conference “Chemistry towards Biology”: Snapshot. MOLECULES. Basel: MDPI AG, 2016, vol. 21, No 10, p. nestránkováno, 27 pp. ISSN 1420-3049. Available from: https://dx.doi.org/10.3390/molecules21101381.

ISON, Jon, Kristoffer RAPACKI, Herve MENAGER, Matus KALAS, Emil RYDZA, Piotr CHMURA, Christian ANTHON, Niall BEARD, Karel BERKA, Dan BOLSER, Tim BOOTH, Anthony BRETAUDEAU, Jan BREZOVSKÝ, Rita CASADIO, Gianni CESARENI, Frederik COPPENS, Michael CORNELL, Gianmauro CUCCURU, Kristian DAVIDSEN, Gianluca DELLA VEDOVA, Tunca DOGAN, Olivia DOPPELT-AZEROUAL, Laura EMERY, Elisabeth GASTEIGER, Thomas GATTER, Tatyana GOLDBERG, Marie GROSJEAN, Bjoern GRUNING, Manuela HELMER-CITTERICH, Hans IENASESCU, Vassilios IOANNIDIS, Martin Closter JESPERSEN, Rafael JIMENEZ, Nick JUTY, Peter JUVAN, Maximilian KOCH, Camille LAIBE, Jing-Woei LI, Luana LICATA, Fabien MAREUIL, Ivan MICETIC, Rune Mollegaard FRIBORG, Sebastien MORETTI, Chris MORRIS, Steffen MOLLER, Aleksandra NENADIC, Hedi PETERSON, Giuseppe PROFITI, Peter RICE, Paolo ROMANO, Paola RONCAGLIA, Rabie SAIDI, Andrea SCHAFFERHANS, Veit SCHWAMMLE, Callum SMITH, Maria Maddalena SPEROTTO, Heinz STOCKINGER, Radka SVOBODOVÁ VAŘEKOVÁ, Silvio C. E. TOSATTO, Victor DE LA TORRE, Paolo UVA, Allegra VIA, Guy YACHDAV, Federico ZAMBELLI, Gert VRIEND, Burkhard ROST, Helen PARKINSON, Peter LONGREEN and Soren BRUNAK. Tools and data services registry: a community effort to document bioinformatics resources. Nucleic Acids Research. Oxford: Oxford University Press, 2016, vol. 44, D1, p. "D38"-"D47", 10 pp. ISSN 0305-1048. Available from: https://dx.doi.org/10.1093/nar/gkv1116.

ARTAZA, H., N. C. HONG, M. CORPAS, A. CORPUZ, R. HOOFT, R. C. JIMENEZ, B. LESKOŠEK, B. G. OLIVIER, J. STOURAC, Radka SVOBODOVÁ VAŘEKOVÁ, T. VAN PARYS and D. VAUGHAN. Top 10 metrics for life science software good practices [version 1; referees: 2 approved]. F1000Research. F1000 Research Ltd., 2016, vol. 5, August, p. nestránkováno, 9 pp. ISSN 2046-1402. Available from: https://dx.doi.org/10.12688/f1000research.9206.1.

HAJNAL, Matej, David ŠAFRÁNEK, Martin DEMKO, Samuel PASTVA, Pavel KREJČÍ and Luboš BRIM. Toward Modelling and Analysis of Transient and Sustained Behaviour of Signalling Pathways. In Eugenio Cinquemani. Hybrid Systems Biology. HSB 2016. LNBI 9957. Neuveden: Springer International Publishing, 2016, p. 57-66. ISBN 978-3-319-47150-1. Available from: https://dx.doi.org/10.1007/978-3-319-47151-8_4.

GEIDL, Stanislav, Václav HEJRET, Radka SVOBODOVÁ VAŘEKOVÁ and Jaroslav KOČA. Využití nábojových deskriptorů v chemoinformatice. In ENBIK - Národní bioinformatická konference. 2016. ISBN 978-80-7080-960-0.

GRILLOVÁ, Linda, Jan OPPELT, Lucy POVEDA, Giancarlo RUSSO, Radim STRNADEL and David ŠMAJS. Whole genome sequencing of Treponema pallidum DNA directly from human samples. In Spirochetes, Biology of Gordon Research Conference. 2016.

PRAVDA, Lukáš, Karel BERKA, Radka SVOBODOVÁ VAŘEKOVÁ, David SEHNAL, Crina-Maria IONESCU, Michal OTYEPKA and Jaroslav KOČA. Anatomy of protein channels. In CEITEC PhD Retreat, Valtice, The Czech Republic. 2015. ISBN 978-80-210-7825-3.

IONESCU, Crina-Maria, David SEHNAL, Francesco Luca FALGINELLA, Purbaj PANT, Lukáš PRAVDA, Tomáš BOUCHAL, Radka SVOBODOVÁ VAŘEKOVÁ, Stanislav GEIDL and Jaroslav KOČA. AtomicChargeCalculator: Interactive Web-based calculation of atomic charges in large biomolecular complexes and drug like molecules. Journal of Cheminformatics. London: BIOMED CENTRAL LTD, 2015, vol. 7, No 50, p. "nestránkováno", 13 pp. ISSN 1758-2946. Available from: https://dx.doi.org/10.1186/s13321-015-0099-x.

BOUCHAL, Pavel, Monika DVOŘÁKOVÁ, Theodoros ROUMELIOTIS, Zbyněk BORTLÍČEK, Ivana IHNATOVÁ, Iva PROCHÁZKOVÁ, JTC HO, Josef MARYÁŠ, Hana IMRICHOVÁ, Eva BUDINSKÁ, Rostislav VYZULA, Spiros D, GARBIS, Bořivoj VOJTĚŠEK and Rudolf NENUTIL. Combined proteomics and transcriptomics identifies carboxypeptidase B1 and NF-kappa B associated proteins as putative biomarkers of metastasis in low grade breast cancer. In European Cancer Congress 2015, Vienna, Austria, 25.-29.9.2015 - European Journal of Cancer, Vol. 51, S3. Oxford: Elsevier Science Inc., 2015. s. S24-S25, 2 s. 2015. ISSN 0959-8049.

BOUCHAL, Pavel, Monika DVOŘÁKOVÁ, Theodoros ROUMELIOTIS, Zbyněk BORTLÍČEK, Ivana IHNATOVÁ, Iva PROCHÁZKOVÁ, JTC HO, Josef MARYÁŠ, Hana IMRICHOVÁ, Eva BUDINSKÁ, Rostislav VYZULA, SD GARBIS, Bořivoj VOJTĚŠEK and Rudolf NENUTIL. Combined Proteomics and Transcriptomics Identifies Carboxypeptidase B1 and Nuclear Factor kappa B (NF-kappa B) Associated Proteins as Putative Biomarkers of Metastasis in Low Grade Breast Cancer. MOLECULAR & CELLULAR PROTEOMICS. BETHESDA: AMER SOC BIOCHEMISTRY MOLECULAR BIOLOGY INC, 2015, vol. 14, No 7, p. 1814-1830. ISSN 1535-9476. Available from: https://dx.doi.org/10.1074/mcp.M114.041335.

JENSEN, Niels F., Jjan STENVANG, Mette K. BECK, Barbora HANÁKOVÁ, Kirstine C. BELLING, Khoa N. DO, Birgitte VIUFF, Sune B. NYGARD, Ramneek GUPTA, Mads H. RASMUSSEN, Line S. TARPGAARD, Tine P. HANSEN, Eva BUDINSKÁ, Per PFEIFFER, Fred BOSMAN, Sabine TEJPAR, Arnaud ROTH, Mauro DELORENZI, Claus L. ANDERSEN, Maria U. RØMER, Nils BRÜNNER and José M.A. MOREIRA. Establishment and characterization of models of chemotherapy resistance in colorectal cancer: Towards a predictive signature of chemoresistance. Molecular oncology. Oxford: Elsevier Science Inc., 2015, vol. 9, No 6, p. 1169-1185. ISSN 1574-7891. Available from: https://dx.doi.org/10.1016/j.molonc.2015.02.008.

BRIM, Luboš, Martin DEMKO, Samuel PASTVA and David ŠAFRÁNEK. High-Performance Discrete Bifurcation Analysis for Piecewise-Affine Dynamical Systems. In Alessandro Abate, David Šafránek. Hybrid Systems Biology Fourth International Workshop, HSB 2015, Madrid, Spain, September 4-5, 2015. Revised Selected Papers. LNCS 9271. Neuveden: Springer International Publishing, 2015, p. 58-74. ISBN 978-3-319-26915-3. Available from: https://dx.doi.org/10.1007/978-3-319-26916-0_4.

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.

GEIDL, Stanislav, Radka SVOBODOVÁ VAŘEKOVÁ, Veronika BENDOVÁ, Lukáš PETRUSEK, Crina-Maria IONESCU, Zdeněk JURKA, Ruben A. ABAGYAN and Jaroslav KOČA. How Does the Methodology of 3D Structure Preparation Influence the Quality of pK(a) Prediction? Journal of Chemical Information and Modeling. WASHINGTON: AMER CHEMICAL SOC, 2015, vol. 55, No 6, p. 1088-1097. ISSN 1549-9596. Available from: https://dx.doi.org/10.1021/ci500758w.

PRAVDA, Lukáš, Karel BERKA, Radka SVOBODOVÁ VAŘEKOVÁ, David SEHNAL, Michal OTYEPKA and Jaroslav KOČA. MOLE 2.5: Improved Tool for Analysis of Ligand-Accessible Channels. In ISMB/ECCB 2015, Dublin, Ireland. 2015.

SVOBODOVÁ VAŘEKOVÁ, Radka, Lukáš PRAVDA, David SEHNAL, Crina-Maria IONESCU and Jaroslav KOČA. MotiveQuery: Web application for fast detection of biomacromolecular fragments in the entire Protein Data Bank. In ISMB/ECCB 2015, Dublin, Ireland. 2015.

BRIM, Luboš, Milan ČEŠKA, Martin DEMKO, Samuel PASTVA and David ŠAFRÁNEK. Parameter Synthesis by Parallel Coloured CTL Model Checking. In Roux, Olivier and Bourdon, Jérémie. Computational Methods in Systems Biology. Neuveden: Springer International Publishing, 2015, p. 251-263. ISBN 978-3-319-23400-7. Available from: https://dx.doi.org/10.1007/978-3-319-23401-4_21.

SEHNAL, David, Lukáš PRAVDA, Radka SVOBODOVÁ VAŘEKOVÁ, Crina-Maria IONESCU and Jaroslav KOČA. PatternQuery: web application for fast detection of biomacromolecular structural patterns in the entire Protein Data Bank. Nucleic Acids Research. Oxford: Oxford University Press, 2015, vol. 43, W1, p. "W383"-"W388", 6 pp. ISSN 0305-1048. Available from: https://dx.doi.org/10.1093/nar/gkv561.

PRAVDA, Lukáš, David SEHNAL, Radka SVOBODOVÁ VAŘEKOVÁ, Crina-Maria IONESCU and Jaroslav KOČA. PatternQuery: Web application for fast detection of biomacromolecular structural patterns in the entire Protein Data Bank. In 3Dsig meeting at ISMB/ECCB 2015, Dublin, Ireland. 2015.

IHNATOVÁ, Ivana and Eva BUDINSKÁ. ToPASeq: an R package for topology-based pathway analysis of microarray and RNA-Seq data. BMC Bioinformatics. London: BioMed Central, 2015, vol. 16, No 350, p. 1-8. ISSN 1471-2105. Available from: https://dx.doi.org/10.1186/s12859-015-0763-1.

SCHIMEK, Michael G., Eva BUDINSKÁ, Karl G. KUGLER, Vendula ŠVENDOVÁ, Jie DING and Shili LIN. TopKLists: a comprehensive R package for statistical inference, stochastic aggregation, and visualization of multiple omics ranked lists. STATISTICAL APPLICATIONS IN GENETICS AND MOLECULAR BIOLOGY. BERLIN: WALTER DE GRUYTER GMBH, 2015, vol. 14, No 3, p. 311-316. ISSN 2194-6302. Available from: https://dx.doi.org/10.1515/sagmb-2014-0093.

SEHNAL, David, Radka SVOBODOVÁ VAŘEKOVÁ, Lukáš PRAVDA, Crina-Maria IONESCU, Stanislav GEIDL, Vladimír HORSKÝ, Deepti JAISWAL, Michaela WIMMEROVÁ and Jaroslav KOČA. ValidatorDB: database of up-to-date validation results for ligands and non-standard residues from the Protein Data Bank. Nucleic Acids Research. United Kingdom: Oxford University Press, 2015, vol. 43, D1, p. "D369"-"D375", 7 pp. ISSN 0305-1048. Available from: https://dx.doi.org/10.1093/nar/gku1118.

SVOBODOVÁ VAŘEKOVÁ, Radka, David SEHNAL, Lukáš PRAVDA, Crina-Maria IONESCU and Jaroslav KOČA. ValidatorDB: database of up-to-date validation results for ligands and non-standard residues from the Protein Data Bank. In 3Dsig meeting at ISMB/ECCB 2015, Dublin, Ireland. 2015.

BOUCHAL, Pavel, Josef MARYÁŠ, Monika DVOŘÁKOVÁ, Theodoros ROUMELIOTIS, Jenny HO, Jakub FAKTOR, Lenka ČÁPKOVÁ, Hana IMRICHOVÁ, Eva BUDINSKÁ, S D GARBIS, Bořivoj VOJTĚŠEK and Rudolf NENUTIL. Vyhledávání a validace potenciálních biomarkerů metastazování u nádorů prsu typu luminal A (Discovery and validation of potential biomarkers of metastasis in luminal A breast cancer). In Neformální proteomické setkání. 2015.

SEHNAL, David, Lukáš PRAVDA, Crina-Maria IONESCU, Radka SVOBODOVÁ VAŘEKOVÁ and Jaroslav KOČA. WebChemistry: a platform for the detection, validation, comparison, and characterization of structural patterns in biomacromolecules. In ISMB/ECCB 2015, Dublin, Ireland. 2015.