OMICS Proteomics

OMICS Proteomics

Mgr. Karel Harant

Mgr. Karel Harant — Laboratory head

About us

We offer complex proteome analysis and quantification on the latest generation of Mass spectrometry equipment–Thermo Orbitrap Fusion. We are able to quantify your sample on the whole proteome level using an untargeted approach or just a selected protein with a targeted analysis. The most common applications are: quantitative analysis of whole proteomes comparing, for example, treated and control samples, analysis of immunoprecipitated proteins and targeted quantification of selected peptides.

Our Services:

  • Preparation of samples for analysis (we are able to prepare a sample for analysis from your tissue or cell line)
  • Proteomic analysis of your samples – identification and quantification of proteins (aproximately 4500 quantified proteins from the human cell line in a single injection)
  • Data analysis and basic statistical evaluation
  • Consultation about experimental designs and how to obtain the maximum amount of informationfrom your experiment


We are able to quantify your sample using different approaches – label free quantification, SILAC, isobaric tag quantification (iTRAQ), dimethyl labelling etc. We can also offer detection and quantification of various posttranslational modifications (PTMs), such as phosphorylation, acetylation or other PTMs. In addition to basic data analysis which is free for each sample, we can  perform more complex bioinformatic and statistical analysis or train your staff how to use proteomics software and how to interpret proteomic data.


We will be your partner in your research efforts. Each analysis is consulted individually beforehand to perfectly meet your demands. All our services are available for everybody from the academic and non academic areas. We work in pay per analysis mode and we don’t demand co-authorship on your publications. In case of stable and long-term cooperation You can obtain an individualized price quote.



Proteomic core facility

vacuum concentrator

vacuum concentrator

vacuum concentrator  without cooling , oil rotary vacuum pump


Compound Discoverer 2.0

Compound Discoverer 2.0



Software package for targeted SRM and MRM data acquisition, data processing and quantification

Software - Freeware



Cytochrome c Oxidase Subunit 4 Isoform Exchange Results in Modulation of Oxygen Affinity
Cells. 2020 Feb; 9(2): 443. Published online 2020 Feb 14. doi: 10.3390/cells9020443 PMCID: PMC7072730 PMID: 32075102
David Pajuelo Reguera,1 Kristýna Čunátová,1,2 Marek Vrbacký,1 Alena Pecinová,1 Josef Houštěk,1 Tomáš Mráček,1,* and Petr Pecina1,*

Ujcikova, H., Cechova, K., Jagr, M., Roubalova, L., Vosahlikova, M., & Svoboda, P. (2020). Proteomic analysis of protein composition of rat hippocampus exposed to morphine for 10 days; comparison with animals after 20 days of morphine withdrawal. PLOS ONE, 15(4), e0231721. doi:10.1371/journal.pone.0231721 

Ujcikova, H., Cechova, K., Roubalova, L., Brejchova, J., Kaufman, J., Holan, V., & Svoboda, P. (2020). The high-resolution proteomic analysis of protein composition of rat spleen lymphocytes stimulated by Concanavalin A; a comparison with morphine-treated cells. Journal of Neuroimmunology, 341, 577191. doi:10.1016/j.jneuroim.2020.577191

Polanska N, Ishemgulova A, Volfova V,
Flegontov P, Votypka J, Yurchenko V, et al. (2020)
Sergentomyia schwetzi: Salivary gland
transcriptome, proteome and enzymatic activities
in two lineages adapted to different blood sources.
PLoS ONE 15(3): e0230537.

Maršíková J., Pavlíčková M., Wilkinson D., Váchová L., Hlaváček O., Hatáková L., Palková Z. (2020) The Whi2p-Psr1p/Psr2p complex regulates interference competition and expansion of cells with competitive advantage in yeast colonies. PNAS first published June 15, 2020


Makki A., Rada P, Žárský V., Kereiche S., Kovacik L., Novotny M., Jores T., Rapaport D., Tachezy J. 2019 Triplet-pore structure of a highly divergent TOM complex of hydrogenosomes in Trichomonas vaginalis. PLoS Biology. 17(1):e3000098. doi: 10.1371/journal.pbio.3000098


Syslova, E., Landa, P., Stuchlikova, L.R., Matouskova, P., Skalova, L., Szotakova, B., Navratilova, M., Vanek, T. and Podlipna, R. (2019) Metabolism of the anthelmintic drug fenbendazole in Arabidopsis thaliana and its effect on transcriptome and proteome. Chemosphere, 218, 662-669.

Palyzová, A., Zahradník, J., Marešová, H., & Řezanka, T. (2019). Characterization of the catabolic pathway of diclofenac in Raoultella sp. KDF8. International Biodeterioration & Biodegradation, 137, 88–94. doi:10.1016/j.ibiod.2018.11.013

Jankovska, E., Svitek, M., Holada, K. and Petrak, J. (2019) Affinity depletion versus relative protein enrichment: a side-by-side comparison of two major strategies for increasing human cerebrospinal fluid proteome coverage. Clin Proteomics, 16, 9.

Vit, O., Harant, K., Klener, P., Man, P. and Petrak, J. (2019) A three-pronged "Pitchfork" strategy enables an extensive description of the human membrane proteome and the identification of missing proteins. J Proteomics, 204, 103411.

Makukhin, N., Havelka, V., Polachova, E., Rampirova, P., Tarallo, V., Strisovsky, K. and Misek, J. (2019) Resolving oxidative damage to methionine by an unexpected membrane-associated stereoselective reductase discovered using chiral fluorescent probes. FEBS J.

Kohutova, J., Elsnicova, B., Holzerova, K., Neckar, J., Sebesta, O., Jezkova, J., Vecka, M., Vebr, P., Hornikova, D., Szeiffova Bacova, B. et al. (2018) Anti-arrhythmic Cardiac Phenotype Elicited by Chronic Intermittent Hypoxia Is Associated With Alterations in Connexin-43 Expression, Phosphorylation, and Distribution. Front Endocrinol (Lausanne), 9, 789.

Sumova, P., Sima, M., Kalouskova, B., Polanska, N., Vanek, O., Oliveira, F., … Volf, P. (2019). Amine-binding properties of salivary yellow-related proteins in phlebotomine sand flies. Insect Biochemistry and Molecular Biology, 103245. doi:10.1016/j.ibmb.2019.103245

Nosek V 1, Míšek J . Enzymatic kinetic resolution of chiral sulfoxides - an enantiocomplementary approach. Chem Commun (Camb). 2019 Aug 27;55(70):10480-10483. doi: 10.1039/c9cc05470g.


Van Nguyen P., Hlavacek O., Marsikova J., Vachova L., Palkova Z. (2018) Cyc8p and Tup1p transcription regulators antagonistically regulate Flo11p expression and complexity. PLoS genetics,

.Sykora, M., Pospisek, M., Novak, J., Mrvova, S., Krasny, L. and Vopalensky, V. (2018) Transcription apparatus of the yeast virus-like elements: Architecture, function, and evolutionary origin. PLoS Pathog, 14, e1007377.

Bilkova, B., Swiderska, Z., Zita, L., Laloe, D., Charles, M., Benes, V., Stopka, P. and Vinkler, M. (2018) Domestic Fowl Breed Variation in Egg White Protein Expression: Application of Proteomics and Transcriptomics. J Agric Food Chem, 66, 11854-11863.

Melenovsky, V., Cervenka, L., Viklicky, O., Franekova, J., Havlenova, T., Behounek, M., Chmel, M. and Petrak, J. (2018) Kidney Response to Heart Failure: Proteomic Analysis of Cardiorenal Syndrome. Kidney Blood Press Res, 43, 1437-1450.

Rossmeisl, M., Pavlisova, J., Janovska, P., Kuda, O., Bardova, K., Hansikova, J., Svobodova, M., Oseeva, M., Veleba, J., Kopecky, J., Jr. et al. (2018) Differential modulation of white adipose tissue endocannabinoid levels by n-3 fatty acids in obese mice and type 2 diabetic patients. Biochim Biophys Acta, 1863, 712-725.

Kuda, O., Brezinova, M., Silhavy, J., Landa, V., Zidek, V., Dodia, C., Kreuchwig, F., Vrbacky, M., Balas, L., Durand, T. et al. (2018) Nrf2-Mediated Antioxidant Defense and Peroxiredoxin 6 Are Linked to Biosynthesis of Palmitic Acid Ester of 9-Hydroxystearic Acid. Diabetes, 67, 1190-1199.

Rohde, F., Schusser, B., Hron, T., Farkasova, H., Plachy, J., Hartle, S., Hejnar, J., Elleder, D. and Kaspers, B. (2018) Characterization of Chicken Tumor Necrosis Factor-alpha, a Long Missed Cytokine in Birds. Front Immunol, 9, 605.

Mach, J., Bila, J., Zeniskova, K., Arbon, D., Malych, R., Glavanakovova, M., Nyvltova, E. and Sutak, R. (2018) Iron economy in Naegleria gruberi reflects its metabolic flexibility. Int J Parasitol.

Kuntova, B., Stopkova, R. and Stopka, P. (2018) Transcriptomic and Proteomic Profiling Revealed High Proportions of Odorant Binding and Antimicrobial Defense Proteins in Olfactory Tissues of the House Mouse. Front Genet, 9, 26.


Cerna M, Kuntova B, Talacko P, Stopkova R, and Stopka P. 2017. Differential regulation of vaginal lipocalins (OBP, MUP) during the estrous cycle of the house mouse. Sci Rep 7:11674.

Erban, T., Harant, K., Chalupnikova, J., Kocourek, F. and Stara, J. (2017) Beyond the survival and death of the deltamethrin-threatened pollen beetle Meligethes aeneus: An in-depth proteomic study employing a transcriptome database. J Proteomics, 150, 281-289.

Stopkova R, Klempt P, Kuntova B, and Stopka P. 2017. On the tear proteome of the house mouse (Mus musculus musculus) in relation to chemical signalling. PeerJ 6:e3541.

Valis, K., Grobarova, V., Hernychova, L., Buganova, M., Kavan, D., Kalous, M., Cerny, J., Stodulkova, E., Kuzma, M., Flieger, M. et al. (2017) Reprogramming of leukemic cell metabolism through the naphthoquinonic compound Quambalarine B. Oncotarget, 8, 103137-103153.

Stafkova, J., Rada, P., Meloni, D., Zarsky, V., Smutna, T., Zimmann, N., Harant, K., Pompach, P., Hrdy, I. and Tachezy, J. (2017) Dynamic secretome of Trichomonas vaginalis: Case study of beta-amylases. Mol Cell Proteomics.

Vyklicka, L., Boukalova, S., Macikova, L., Chvojka, S. and Vlachova, V. (2017) The human transient receptor potential vanilloid 3 channel is sensitized via the ERK pathway. J Biol Chem.

Vosahlikova, M., Ujcikova, H., Chernyavskiy, O., Brejchova, J., Roubalova, L., Alda, M. and Svoboda, P. (2017) Effect of therapeutic concentration of lithium on live HEK293 cells; increase of Na+/K+-ATPase, change of overall protein composition and alteration of surface layer of plasma membrane. Biochim Biophys Acta, 1861, 1099-1112.

Laššuthová P, Gregor M, Sarnová L, Machalová E, Sedláček R, Seeman P: Clinical, In Silico, and Experimental Evidence for Pathogenicity of Two Novel Splice Site Mutations in the SH3TC2 Gene. J Neurogenet 2012 26(3-4): 413-20. [pubmed] [doi]


Hartmannova, H., Piherova, L., Tauchmannova, K., Kidd, K., Acott, P.D., Crocker, J.F., Oussedik, Y., Mallet, M., Hodanova, K., Stranecky, V. et al. (2016) Acadian variant of Fanconi syndrome is caused by mitochondrial respiratory chain complex I deficiency due to a non-coding mutation in complex I assembly factor NDUFAF6. Hum Mol Genet, 25, 4062-4079.

Manakov, D., Ujcikova, H., Pravenec, M. and Novotny, J. (2016) Alterations in the cardiac proteome of the spontaneously hypertensive rat induced by transgenic expression of CD36. J Proteomics, 145, 177-186.

Stopka P, Kuntova B, Klempt P, Havrdova L, Cerna M, and Stopkova R. 2016. On the saliva proteome of the Eastern European house mouse (Mus musculus musculus) focusing on sexual signalling and immunity. Sci Rep 6:32481.

Vit, O., Man, P., Kadek, A., Hausner, J., Sklenar, J., Harant, K., Novak, P., Scigelova, M., Woffendin, G. and Petrak, J. (2016) Large-scale identification of membrane proteins based on analysis of trypsin-protected transmembrane segments. J Proteomics, 149, 15-22.

Ujcikova, H., Vosahlikova, M., Roubalova, L. and Svoboda, P. (2016) Proteomic analysis of protein composition of rat forebrain cortex exposed to morphine for 10days; comparison with animals exposed to morphine and subsequently nurtured for 20days in the absence of this drug. J Proteomics, 145, 11-23.


Mgr. Karel Harant Mgr. Karel Harant

Karel Harant

Head of Proteomic Core Facilty
Mgr. Pavel Talacko Mgr. Pavel Talacko

Pavel Talacko

Non-targeted proteomics, targeted proteomics
RNDr. Petr Žáček, Ph.D. RNDr. Petr Žáček, Ph.D.

Petr Žáček, Ph.D.

GC / MS specialist, small molecule analysis
RNDr. Anna Janovská RNDr. Anna Janovská

Anna Janovská

LC/MS Specialist, small molecule analysis
Mgr. Veronika Ševců Mgr. Veronika Ševců

Veronika Ševců

researcher, preparation of proteomic samples