Publications
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2021
HON, J.; MARUŠIAK, M.; MARTÍNEK, T.; KUNKA, A.; ZENDULKA, J.; BEDNÁŘ, D.; DAMBORSKÝ, J. SoluProt: prediction of soluble protein expression in Escherichia coli. BIOINFORMATICS, 2021, vol. 37, no. 1,
p. 23-28. ISSN: 1367-4803. DetailPUTEROVÁ, J.; MARTÍNEK, T. digIS: Towards detecting distant and putative novel insertion sequences in prokaryotic genomes. BMC BIOINFORMATICS, 2021, vol. 22, no. 258,
p. 1-20. ISSN: 1471-2105. Detail -
2020
HON, J.; BORKO, S.; ŠTOURAČ, J.; PROKOP, Z.; BEDNÁŘ, D.; ZENDULKA, J.; MARTÍNEK, T.; DAMBORSKÝ, J. EnzymeMiner: automated mining of soluble enzymes with diverse structures, catalytic properties and stabilities. Nucleic Acids Research, 2020, vol. 48, no. 1,
p. 104-109. ISSN: 1362-4962. Detail -
2019
HON, J.; BORKO, S.; MARUŠIAK, M.; MARTÍNEK, T.; BEDNÁŘ, D.; DAMBORSKÝ, J. EnzymeMiner: Web Server for Automated Mining and Annotation of Soluble Enzymes in Genomic Databases. ISMB/ECCB 2019. Basilej: 2019.
p. 0-0. DetailSUMBALOVÁ, L.; MARTÍNEK, T.; BEDNÁŘ, D.; DAMBORSKÝ, J. Prediction of Critical Residues in Protein Structures using Amino Acid Networks. ISMB/ECCB 2019. Basilej: 2019.
p. 0-0. Detail -
2018
HON, J.; MARUŠIAK, M.; MARTÍNEK, T.; ZENDULKA, J.; BEDNÁŘ, D.; DAMBORSKÝ, J. SoluProt: Prediction of Protein Solubility. DAZ & WIKT 2018 Proceedings. Brno: Brno University of Technology, 2018.
p. 261-265. ISBN: 978-80-214-5679-2. DetailMUSIL, M.; MARTÍNEK, T.; ZENDULKA, J. FireProt: web server for automated design of thermostable proteins. DAZ & WIKT 2018 Proceedings. Brno: 2018.
p. 1-4. DetailPUTEROVÁ, J.; MARTÍNEK, T. digIS: automated pipeline for detecting distant, novel insertion sequence elements in prokaryotes. Data & Knowledge 2018. Brno: Brno University of Technology, 2018.
p. 1-5. ISBN: 978-80-214-5679-2. DetailSUMBALOVÁ, L.; ŠTOURAČ, J.; MARTÍNEK, T.; BEDNÁŘ, D.; DAMBORSKÝ, J. HotSpot Wizard 3.0: Web Server for Automated Design of Mutations and Smart Libraries based on Sequence Input Information. Nucleic Acids Research, 2018, vol. 46, no. 1,
p. 356-362. ISSN: 1362-4962. Detail -
2017
HON, J.; LEXA, M.; MARTÍNEK, T.; ZENDULKA, J. pqsfinder: imperfection-tolerant identification of potential quadruplex-forming sequences in R. ISMB/ECCB 2017. Praha: 2017.
p. 0-0. DetailHON, J.; MARTÍNEK, T.; ZENDULKA, J.; LEXA, M. pqsfinder: an exhaustive and imperfection-tolerant search tool for potential quadruplex-forming sequences in R. BIOINFORMATICS, 2017, vol. 33, no. 21,
p. 3373-3379. ISSN: 1367-4803. DetailMUSIL, M.; ŠTOURAČ, J.; BENDL, J.; BREZOVSKÝ, J.; PROKOP, Z.; ZENDULKA, J.; MARTÍNEK, T.; BEDNÁŘ, D.; DAMBORSKÝ, J. FireProt: web server for automated design of thermostable proteins. Nucleic Acids Research, 2017, vol. 45, no. 1,
p. 393-399. ISSN: 1362-4962. DetailPUTEROVÁ, J.; RAZUMOVA, O.; MARTÍNEK, T.; ALEXANDROV, O.; DIVASHUK, M.; KUBÁT, Z.; HOBZA, R.; KARLOV, G.; KEJNOVSKÝ, E. Satellite DNA and Transposable Elements in Seabuckthorn ( Hippophae rhamnoides ), a Dioecious Plant with Small Y and Large X Chromosomes. GENOME BIOL EVOL, 2017, vol. 9, no. 1,
p. 197-212. ISSN: 1759-6653. Detail -
2016
BRÁZDOVÁ, M.; TICHÝ, V.; HELMA, R.; BAŽANTOVÁ, P.; POLÁŠKOVÁ, A.; KREJČÍ, A.; PETR, M.; NAVRÁTILOVÁ, L.; TICHÁ, O.; NEJEDLÝ, K.; BENNINK, M.; SUBRAMANIAM, V.; BÁBKOVÁ, Z.; MARTÍNEK, T.; LEXA, M.; ADÁMIK, M. p53 Specifically Binds Triplex DNA In Vitro and in Cells. PLOS ONE, 2016, vol. 11, no. 12,
p. 1-25. ISSN: 1932-6203. Detail -
2014
LEXA, M.; MARTÍNEK, T.; BRÁZDOVÁ, M. Uneven distribution of potential triplex sequences in the human genome: In silico study using the R/Bioconductor package triplex. In Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms. Angers: SciTePress - Science and Technology Publications, 2014.
p. 80-88. ISBN: 978-989-758-012-3. DetailLEXA, M.; ŠTEFLOVÁ, P.; MARTÍNEK, T.; VORLÍČKOVÁ, M.; VYSKOT, B.; KEJNOVSKÝ, E. Guanine quadruplexes are formed by specific regions of human transposable elements. BMC GENOMICS, 2014, vol. 15, no. 1032,
p. 1-12. ISSN: 1471-2164. DetailPOLČÁK, L.; HRANICKÝ, R.; MARTÍNEK, T. On Identities in Modern Networks. The Journal of Digital Forensics, Security and Law, 2014, vol. 2014, no. 2,
p. 9-22. ISSN: 1558-7215. Detail -
2013
BRÁZDOVÁ, M.; MARTÍNEK, T.; LEXA, M. In silico search for secondary structures in p53 target genes using R/Bioconductor. ITAT 2013: Information Technologies - Applications and Theory. Donovaly: CreativeSpace Independent Publishing Platform, 2013.
p. 42-46. ISBN: 978-1-4909-5208-6. DetailHON, J.; MARTÍNEK, T.; RAJDL, K.; LEXA, M. Triplex: an R/Bioconductor package for identification and visualization of potential intramolecular triplex patterns in DNA sequences. BIOINFORMATICS, 2013, vol. 29, no. 15,
p. 1900-1901. ISSN: 1367-4803. Detail -
2011
LEXA, M.; MARTÍNEK, T.; BURGETOVÁ, I.; KOPEČEK, D.; BRÁZDOVÁ, M. A dynamic programming algorithm for identification of triplex-forming sequences. BIOINFORMATICS, 2011, vol. 27, no. 18,
p. 2510-2517. ISSN: 1367-4803. DetailMARTÍNEK, T.; LEXA, M. Architecture Model for Approximate Tandem Repeat Detection. 22nd IEEE International Conference on Application-specific Systems, Architectures and Processors. Santa Monica, California: IEEE Computer Society, 2011.
p. 239-242. ISBN: 978-1-4577-1290-6. Detail -
2010
MARTÍNEK, T. Evaluation of Biological Sequence Similarity Using FPGA Technology. Information Sciences and Technologies Bulletin of the ACM Slovakia, 2010, vol. 2, no. 2,
p. 93-102. ISSN: 1338-1237. DetailMARTÍNEK, T.; LEXA, M. Hardware Acceleration of Approximate Tandem Repeat Detection. IEEE Symposium on Field-Programmable Custom Computing Machines. Charlotte: IEEE Computer Society, 2010.
p. 79-86. ISBN: 978-0-7695-4056-6. Detail -
2009
MARTÍNEK, T. Architektura sběrnice PCI, PCI-X a PCI Express. Sborník příspěvků 35. konference Europen. Plzeň: Česká společnost uživatelů otevřených systémů EurOpen.CZ, 2009.
s. 37-50. ISBN: 978-80-86583-17-4. DetailMARTÍNEK, T.; LEXA, M.; VOŽENÍLEK, J. Architecture model for approximate palindrome detection. In 2009 IEEE Symposium on Design and Diagnostics of Electronic Circuits and Systems. Liberec: IEEE Computer Society, 2009.
p. 90-95. ISBN: 978-1-4244-3339-1. Detail -
2008
MÁLEK, T.; MARTÍNEK, T.; KOŘENEK, J. GICS: Generic Interconnection System. 2008 International Conference on Field Programmable Logic and Applications. Heidelberg: IEEE Computer Society, 2008.
p. 263-268. ISBN: 978-1-4244-1960-9. DetailMARTÍNEK, T.; KOŠEK, M. NetCOPE: Platform for Rapid Development of Network Applications. In Proc. of 2008 IEEE Design and Diagnostics of Electronic Circuits and Systems Workshop. Bratislava: IEEE Computer Society, 2008.
p. 219-224. ISBN: 978-1-4244-2276-0. DetailMARTÍNEK, T.; LEXA, M. Hardware Acceleration of Approximate Palindromes Searching. In The International Conference on Field-Programmable Technology. Taipei: IEEE Computer Society, 2008.
p. 65-72. ISBN: 978-1-4244-2796-3. Detail -
2007
LEXA, M.; MARTÍNEK, T.; BECK, P.; FUČÍK, O.; VALLE, G.; ZARA, I. Genomic PCR simulation with hardware-accelerated approximate sequence matching. In 21st European Conference on Modelling and Simulation. Praha: European Council for Modelling and Simulation, 2007.
p. 333-338. ISBN: 978-0-9553018-2-7. DetailMARTÍNEK, T. Automatizované mapování architektur s proměnným počtem výpočetních elementů. In Počítačové architektury a diagnostika 2007. Česko-slovenský seminář pro studenty doktorandského studia. Plzeň: Západočeská univerzita v Plzni, 2007.
s. 77-83. ISBN: 978-80-7043-605-9. DetailMARTÍNEK, T.; LEXA, M.; BECK, P.; FUČÍK, O. Automatic Generation of Circuits for Approximate String Matching. In 2007 IEEE Design and Diagnostics of Electronic Circuits and Systems. Krakow: IEEE Computer Society, 2007.
p. 203-208. ISBN: 1-4244-1161-0. DetailSEKANINA, L.; MARTÍNEK, T. Evolving Image Operators Directly in Hardware. In Genetic and Evolutionary Computation for Image Processing and Analysis. EURASIP Book Series on Signal Processing and Communications, Volume 8. New York: Hindawi Publishing Corporation, 2007.
p. 93-112. ISBN: 978-977-454-001-1. DetailTOBOLA, J.; KOTÁSEK, Z.; KOŘENEK, J.; MARTÍNEK, T.; STRAKA, M. Online Protocol Testing for FPGA Based Fault Tolerant Systems. In 10th EUROMICRO Conference on Digital System Design DSD 2007. Lubeck, Germany: IEEE Computer Society, 2007.
p. 676-679. ISBN: 0-7695-2978-X. Detail -
2006
ČERNÝ, S.; STRUŽKA, P.; KOŘENEK, J.; MARTÍNEK, T.; KOTÁSEK, Z. FPGA Components in Simulink. In Proceedings of XXVIIIth International Autumn Colloquium ASIS 2006. Ostrava: 2006.
p. 158-163. ISBN: 80-86840-26-3. DetailMARTÍNEK, T.; KOŘENEK, J.; NOVOTNÝ, J. Network Monitoring Adaptor for 10Gbps Technology using FPGA. In CESNET Conference 2006 Proceedings. Prague : CESNET, z. s. p. o.: CESNET National Research and Education Network, 2006.
p. 143-151. ISBN: 978-80-239-6533-9. DetailMARTÍNEK, T.; LEXA, M.; KOŘENEK, J.; FUČÍK, O. A flexible technique for the automatic design of approximate string matching architectures. In Proc. of 2006 IEEE Design and Diagnostics of Electronic Circuits and Systems Workshop. Praha: IEEE Computer Society, 2006.
p. 83-84. ISBN: 1-4244-0184-4. DetailSEKANINA, L.; MARTÍNEK, T.; GAJDA, Z. Extrinsic and Intrinsic Evolution of Multifunctional Combinational Modules. In 2006 IEEE World Congress on Computational Intelligence. CA: IEEE Computational Intelligence Society, 2006.
p. 9676-9683. ISBN: 0-7803-9489-5. Detail -
2005
MARTÍNEK, T. Analýza datových toků s využitím sebe-rekonfigurovatelných automatů. In Sborník příspěvků ze semináře Počítačové Architektury a Diagnostika. Praha: Fakulta elektrotechniky ČVUT, 2005.
s. 119-124. ISBN: 80-01-03298-1. DetailMARTÍNEK, T., SEKANINA, L. An Evolvable Image Filter: Experimental Evaluation of a Complete Hardware Implementation in FPGA. In Evolvable Systems: From Biology to Hardware. LNCS 3637. Berlin: Springer Verlag, 2005.
p. 76-85. ISBN: 978-3-540-28736-0. DetailMARTÍNEK, T., ZEMČÍK, P., KOŘENEK, J. FPGA-Based Platform for Network Applications. In Proc. of 8th IEEE Design and Diagnostic of Electronic Circuits and Systems Workshop. Sopron: University of West Hungary, 2005.
p. 194-197. ISBN: 9639364487. Detail -
2004
MARTÍNEK, T., KOŘENEK, J., NOVOTNÝ, J. Passive network monitoring adapter intended for 10Gbps technology. In Sborník příspěvků z XXV. konference Europen. Plzeň: Czech Open Systems User's Group, 2004.
p. 55-63. ISBN: 80-86583-07-4. Detail -
2002
MARTÍNEK, T. Deterministic parallel LR parsing. Proceedings of 8th conference and competition STUDENT EEICT 2002. Brno: Brno University of Technology, 2002.
p. 192-194. ISBN: 80-214-2114-2. Detail