We have collaborated on the following publications

2024

90.

Lukáčová, E.; Pös, O.; Túryová, E.; Hurtová, T.; Hanzlíková, Z.; Szemes, T.; Burjanivová, T.

Copy number variations in malignant melanoma: genomic regions, biomarkers, and therapeutic targets Journal Article

In: Neoplasma, 71 (2), pp. 143-152, 2024, ISSN: 00282685.

Abstract | Links | BibTeX | Tags: Copy number variation, Oncology

89.

Rendek, T.; Saade, R.; Pos, O.; Kolnikova, G.; Urbanova, M.; Budis, J.; Mihok, L.; Tomas, M.; Szemes, T.; Repiska, V.

Determination of the Prevalence of Microsatellite Instability, BRAF and KRAS/NRAS Mutation Status in Patients with Colorectal Cancer in Slovakia Journal Article

In: Cancers, 16 (6), 2024, ISSN: 20726694.

Abstract | Links | BibTeX | Tags: Oncology

88.

Holesova, Z.; Pös, O.; Gazdarica, J.; Kucharik, M.; Budis, J.; Hyblova, M.; Minarik, G.; Szemes, T.

Understanding genetic variability: exploring large-scale copy number variants through non-invasive prenatal testing in European populations Journal Article

In: BMC Genomics, 25 (1), 2024, ISSN: 14712164.

Abstract | Links | BibTeX | Tags: Copy number variation, Non-invasive prenatal testing, Population study

87.

Gazdarica, J.; Forgacova, N.; Sladecek, T.; Kucharik, M.; Budis, J.; Hyblova, M.; Sekelska, M.; Gnip, A.; Minarik, G.; Szemes, T.

Insights into non-informative results from non-invasive prenatal screening through gestational age, maternal BMI, and age analyses Journal Article

In: PLoS ONE, 19 (3 March), 2024, ISSN: 19326203.

Abstract | Links | BibTeX | Tags: Aneuploidy, Cell-free nucleic acids, Prenatal diagnosis

86.

Bernardini, G.; Braconi, D.; Zatkova, A.; Sireau, N.; Kujawa, M. J.; Introne, W. J.; Spiga, O.; Geminiani, M.; Gallagher, J. A.; Ranganath, L. R.; Santucci, A.

Alkaptonuria Journal Article

In: Nature Reviews Disease Primers, 10 (1), 2024, ISSN: 2056676X.

Abstract | Links | BibTeX | Tags: Alkaptonuria

85.

Kvapilova, K.; Misenko, P.; Radvanszky, J.; Brzon, O.; Budis, J.; Gazdarica, J.; Pos, O.; Korabecna, M.; Kasny, M.; Szemes, T.; Kvapil, P.; Paces, J.; Kozmik, Z.

Validated WGS and WES protocols proved saliva-derived gDNA as an equivalent to blood-derived gDNA for clinical and population genomic analyses Journal Article

In: BMC Genomics, 25 (1), 2024, ISSN: 14712164.

Abstract | Links | BibTeX | Tags: Single nucleotide variants, Validation

2023

84.

Sládeček, T.; Gažiová, M.; Kucharík, M.; Zaťková, A.; Pös, Z.; Pös, O.; Krampl, W.; Tomková, E.; Hýblová, M.; Minárik, G.; Radvánszky, J.; Budiš, J.; Szemes, T.

Combination of expert guidelines-based and machine learning-based approaches leads to superior accuracy of automated prediction of clinical effect of copy number variations Journal Article

In: Scientific Reports, 13 (1), 2023, ISSN: 20452322.

Abstract | Links | BibTeX | Tags: Computational method, Copy number variation

83.

Planý, M.; Sitarčík, J.; Pavlović, J.; Budiš, J.; Koreňová, J.; Kuchta, T.; Pangallo, D.

Evaluation of bacterial consortia associated with dairy fermentation by ribosomal RNA (rrn) operon metabarcoding strategy using MinION device Journal Article

In: Food Bioscience, 51 , 2023, ISSN: 22124292.

Abstract | Links | BibTeX | Tags: Bacteria, Food microbiome, Nanopore

82.

Forgacova, N.; Holesova, Z.; Hekel, R.; Sedlackova, T.; Pos, Z.; Krivosikova, L.; Janega, P.; Kuracinova, K. M.; Babal, P.; Radvak, P.; Radvanszky, J.; Gazdarica, J.; Budis, J.; Szemes, T.

Evaluation and limitations of different approaches among COVID-19 fatal cases using whole-exome sequencing data Journal Article

In: BMC Genomics, 24 (1), 2023, ISSN: 14712164, (cited By 0).

Abstract | Links | BibTeX | Tags: Non-invasive prenatal testing, Sars-cov-2

81.

Klimova, D.; Jakubechova, J.; Altanerova, U.; Nicodemou, A.; Styk, J.; Szemes, T.; Repiska, V.; Altaner, C.

Extracellular vesicles derived from dental mesenchymal stem/stromal cells with gemcitabine as a cargo have an inhibitory effect on the growth of pancreatic carcinoma cell lines in vitro Journal Article

In: Molecular and Cellular Probes, 67 , 2023, ISSN: 08908508.

Abstract | Links | BibTeX | Tags: Oncology

80.

Styk, J.; Pös, Z.; Pös, O.; Radvanszky, J.; Turnova, E. H.; Buglyó, G.; Klimova, D.; Budis, J.; Repiska, V.; Nagy, B.; Szemes, T.

Microsatellite instability assessment is instrumental for Predictive, Preventive and Personalised Medicine: status quo and outlook Journal Article

In: EPMA Journal, 2023, ISSN: 18785077.

Abstract | Links | BibTeX | Tags: Liquid biopsy, Oncology

79.

Holesova, Z.; Krasnicanova, L.; Saade, R.; Pös, O.; Budis, J.; Gazdarica, J.; Repiska, V.; Szemes, T.

Telomere Length Changes in Cancer: Insights on Carcinogenesis and Potential for Non-Invasive Diagnostic Strategies Journal Article

In: Genes, 14 (3), 2023, ISSN: 20734425.

Abstract | Links | BibTeX | Tags: Liquid biopsy, Oncology

78.

Artimová, R.; Játiová, M.; Baumgartnerová, J.; Lipková, N.; Petrová, J.; Maková, J.; Javoreková, S.; Hleba, L.; Medová, J.; Medo, J.

Microbial Communities on Samples of Commercially Available Fresh-Consumed Leafy Vegetables and Small Berries Journal Article

In: Horticulturae, 9 (2), 2023, ISSN: 23117524.

Abstract | Links | BibTeX | Tags: Bacteria, Food microbiome

77.

Pos, Z.; Khedr, M.; Radvanszky, J.; Penesova, A.; Hekel, R.; Szemes, T.; Ranganath, L. R.; Zatkova, A.

APOC3 and ABCA1 variants in unusual combined hypolipidaemia showing premature peripheral vascular disease Journal Article

In: Bratislava Medical Journal, 124 (5), pp. 351-355, 2023, ISSN: 00069248.

Abstract | Links | BibTeX | Tags:

76.

Gromova, B.; Konecna, B.; Suchonova, M.; Pasztor, S.; Celec, P.; Tothova, L.; Lichvar, M.; Budis, J.; Radvanszky, J.; Rusnakova, D.; Szemes, T.; Machala, Z.; Gardlik, R.

The effect of plasma-activated water in a mouse model of inflammatory bowel disease Journal Article

In: Plasma Processes and Polymers, 20 (9), 2023, ISSN: 16128850.

Abstract | Links | BibTeX | Tags: Gut microbiome

75.

Gombos, G.; Németh, N.; Pös, O.; Styk, J.; Buglyó, G.; Szemes, T.; Danihel, L.; Nagy, B.; Balogh, I.; Soltész, B.

New Possible Ways to Use Exosomes in Diagnostics and Therapy via JAK/STAT Pathways Journal Article

In: Pharmaceutics, 15 (7), 2023, ISSN: 19994923.

Abstract | Links | BibTeX | Tags: Exosomes

74.

Pös, O.; Styk, J.; Buglyó, G.; Zeman, M.; Lukyova, L.; Bernatova, K.; Turnova, E. Hrckova; Rendek, T.; Csók, Á.; Repiska, V.; Nagy, B.; Szemes, T.

Cross-Kingdom Interaction of miRNAs and Gut Microbiota with Non-Invasive Diagnostic and Therapeutic Implications in Colorectal Cancer Journal Article

In: International Journal of Molecular Sciences, 24 (13), 2023, ISSN: 16616596.

Abstract | Links | BibTeX | Tags: Gut microbiome, Oncology

73.

Baláž, A.; Kajsik, M.; Budiš, J.; Szemes, T.; Turňa, J.

PHERI—Phage Host ExploRation Pipeline Journal Article

In: Microorganisms, 11 (6), 2023, ISSN: 20762607.

Abstract | Links | BibTeX | Tags: Bacteriophages, Computational method

72.

Sitarčík, J.; Vinař, T.; Brejová, B.; Krampl, W.; Budiš, J.; Radvánszky, J.; Lucká, M.

WarpSTR: Determining tandem repeat lengths using raw nanopore signals Journal Article

In: Bioinformatics, 39 (6), 2023, ISSN: 13674803.

Abstract | Links | BibTeX | Tags:

71.

Rešková, Z.; Andrezál, M.; Drahovská, H.; Szemes, T.; Kuchta, T.

Molecular characterization of Escherichia coli isolated from hemp seeds Journal Article

In: Journal of Food and Nutrition Research, 62 (2), pp. 177-182, 2023, ISSN: 13368672.

Abstract | Links | BibTeX | Tags: Bacteria

70.

Budiš, J.; Krampl, W.; Kucharík, M.; Hekel, R.; Goga, A.; Sitarčík, J.; Lichvár, M.; Smol'ak, D.; Böhmer, M.; Baláž, A.; Ďuriš, F.; Gazdarica, J.; Šoltys, K.; Turňa, J.; Radvánszky, J.; Szemes, T.

SnakeLines: integrated set of computational pipelines for sequencing reads Journal Article

In: Journal of integrative bioinformatics, 20 (3), 2023, ISSN: 16134516.

Abstract | Links | BibTeX | Tags: Computational pipeline

2022

69.

Hyblova, M.; Gnip, A.; Kucharik, M.; Budis, J.; Sekelska, M.; Minarik, G.

Maternal Copy Number Imbalances in Non-Invasive Prenatal Testing: Do They Matter? Journal Article

In: Diagnostics, 12 (12), 2022, ISSN: 20754418.

Abstract | Links | BibTeX | Tags: Copy number variation, Non-invasive prenatal testing

68.

Soltész, B.; Buglyó, G.; Németh, N.; Szilágyi, M.; Pös, O.; Szemes, T.; Balogh, I.; Nagy, B.

The role of exosomes in cancer progression Journal Article

In: International Journal of Molecular Sciences, 23 (1), 2022, ISSN: 16616596.

Abstract | Links | BibTeX | Tags: Cell-free nucleic acids, Liquid biopsy, Oncology

67.

Gažiová, M.; Sládeček, T.; Pös, O.; Števko, M.; Krampl, W.; Pös, Z.; Hekel, R.; Hlavačka, M.; Kucharík, M.; Radvánszky, J.; Budiš, J.; Szemes, T.

Automated prediction of the clinical impact of structural copy number variations Journal Article

In: Scientific Reports, 12 (1), 2022, ISSN: 20452322.

Abstract | Links | BibTeX | Tags: Computational method, Copy number variation, Variant interpretation

66.

Cibulka, M.; Brodnanova, M.; Grendar, M.; Necpal, J.; Benetin, J.; Han, V.; Kurca, E.; Nosal, V.; Skorvanek, M.; Vesely, B.; Stanclova, A.; Lasabova, Z.; Pös, Z.; Szemes, T.; Stuchlik, S.; Grofik, M.; Kolisek, M.

Alzheimer’s Disease-Associated SNP rs708727 in SLC41A1 May Increase Risk for Parkinson’s Disease: Report from Enlarged Slovak Study Journal Article

In: International Journal of Molecular Sciences, 23 (3), 2022, ISSN: 16616596.

Abstract | Links | BibTeX | Tags: Single nucleotide variants

65.

Buglyó, G.; Styk, J.; Pös, O.; Csók, Á.; Repiska, V.; Soltész, B.; Szemes, T.; Nagy, B.

Liquid Biopsy as a Source of Nucleic Acid Biomarkers in the Diagnosis and Management of Lynch Syndrome Journal Article

In: International Journal of Molecular Sciences, 23 (8), 2022, ISSN: 16616596.

Abstract | Links | BibTeX | Tags: Liquid biopsy, Oncology

64.

Radvánszka, M.; Paul, E. D.; Hajdu, R.; Boršová, K.; Kováčová, V.; Putaj, P.; Bírová, S.; Čirková, I.; Čarnecký, M.; Buranovská, K.; Szobi, A.; Vojtaššáková, N.; Drobná, D.; Čabanová, V.; Sláviková, M.; Ličková, M.; Vaňová, V.; Havlíková, S. Fumačová; Lukáčiková, Ľ.; Kajanová, I.; Koči, J.; Rusňáková, D.; Sedláčková, T.; Max, K. E. A.; Tuschl, T.; Szemes, T.; Klempa, B.; Čekan, P.

Sequential development of several RT-qPCR tests using LNA nucleotides and dual probe technology to differentiate SARS-CoV-2 from influenza A and B Journal Article

In: Microbial Biotechnology, 2022, ISSN: 17517907.

Abstract | Links | BibTeX | Tags: Sars-cov-2, Viruses

63.

Martin, A.; Peter, P.; Marian, K.; Martin, G.; Michaela, F.; Juraj, G.; Vladimir, F.

Is amniopatch an effective treatment for spontaneous previable premature rupture of membranes? Analysis of perinatal outcome Journal Article

In: Bratislava Medical Journal, 123 (5), pp. 326-333, 2022, ISSN: 00069248.

Abstract | Links | BibTeX | Tags:

62.

Eva, R.; Zuzana, P.; Andrea, Z.; Michaela, H.; Frantisek, B.; Tomas, S.; Ludevit, K.; Jan, R.

Molecularly confi rmed pontocerebellar hypoplasia in a large family from Slovakia with four severely affected children Journal Article

In: Bratislava Medical Journal, 123 (8), pp. 568-572, 2022, ISSN: 00069248.

Abstract | Links | BibTeX | Tags:

61.

Forgacova, N.; Gazdarica, J.; Budis, J.; Kucharik, M.; Sekelska, M.; Szemes, T.

Non-intuitive trends of fetal fraction development related to gestational age and fetal gender, and their practical implications for non-invasive prenatal testing Journal Article

In: Molecular and Cellular Probes, 66 , 2022, ISSN: 08908508.

Abstract | Links | BibTeX | Tags: Genetic testing, Non-invasive prenatal testing, Prenatal diagnosis

60.

Rusňáková, D.; Sedláčková, T.; Radvák, P.; Böhmer, M.; Mišenko, P.; Budiš, J.; Bokorová, S.; Lipková, N.; Forgáčová-Jakúbková, M.; Sládeček, T.; Sitarčík, J.; Krampl, W.; Gažiová, M.; Kaliňáková, A.; Staroňová, E.; Tichá, E.; Vrábľová, T.; Ševčíková, L.; Kotvasová, B.; Maďarová, L.; Feiková, S.; Beňová, K.; Reizigová, L.; Onderková, Z.; Ondrušková, D.; Loderer, D.; Škereňová, M.; Danková, Z.; Janíková, K.; Halašová, E.; Nováková, E.; Turňa, J.; Szemes, T.

Systematic Genomic Surveillance of SARS-CoV-2 Virus on Illumina Sequencing Platforms in the Slovak Republic—One Year Experience Journal Article

In: Viruses, 14 (11), 2022, ISSN: 19994915.

Abstract | Links | BibTeX | Tags: Sars-cov-2, Viruses

59.

Smoľak, D.; Šalamúnová, S.; Jacková, A.; Haršányová, M.; Budiš, J.; Szemes, T.; Vilček, Š.

Analysis of RNA virome in rectal swabs of healthy and diarrheic pigs of different age Journal Article

In: Comparative Immunology, Microbiology and Infectious Diseases, 90-91 , 2022, ISSN: 01479571.

Abstract | Links | BibTeX | Tags: Viruses

58.

Styk, J.; Buglyó, G.; Pös, O.; Csók, Á.; Soltész, B.; Lukasz, P.; Repiská, V.; Nagy, B.; Szemes, T.

Extracellular Nucleic Acids in the Diagnosis and Progression of Colorectal Cancer Journal Article

In: Cancers, 14 (15), 2022, ISSN: 20726694.

Abstract | Links | BibTeX | Tags: Cell-free nucleic acids, Liquid biopsy, Oncology

57.

Soltész, B.; Pös, O.; Wlachovska, Z.; Budis, J.; Hekel, R.; Strieskova, L.; Liptak, J. B.; Krampl, W.; Styk, J.; Németh, N.; Keserű, J. S.; Jenei, A.; Buglyó, G.; Klekner, Á.; Nagy, B.; Szemes, T.

Mitochondrial DNA copy number changes, heteroplasmy, and mutations in plasma-derived exosomes and brain tissue of glioblastoma patients Journal Article

In: Molecular and Cellular Probes, 66 , 2022, ISSN: 08908508.

Abstract | Links | BibTeX | Tags: Copy number variation, Mitochondria, Oncology

2021

56.

Ženišová, K; Cabicarová, T; Sidari, R; Kolek, E; Pangallo, D; Szemes, T; Kuchta, T

Effects of co-fermentation with lachancea thermotolerans or metschnikowia pulcherrima on concentration of aroma compounds in pinot blanc wine Journal Article

In: Journal of Food and Nutrition Research, 60 (1), pp. 87-91, 2021, ISSN: 13368672.

Abstract | Links | BibTeX | Tags: Bacteria, Food microbiome, Fungi

55.

Poláková, S Bágeľová; Lichtner, Ž; Szemes, T; Smolejová, M; Sulo, P

Mitochondrial DNA duplication, recombination, and introgression during interspecific hybridization Journal Article

In: Scientific Reports, 11 (1), 2021, ISSN: 20452322.

Abstract | Links | BibTeX | Tags: Fungi, Mitochondria

54.

Kucharík, M; Budiš, J; Hýblová, M; Minárik, G; Szemes, T

Copy number variant detection with low-coverage whole-genome sequencing represents a viable alternative to the conventional array-cgh Journal Article

In: Diagnostics, 11 (4), 2021, ISSN: 20754418.

Abstract | Links | BibTeX | Tags: Cell-free nucleic acids, Computational method, Copy number variation, Liquid biopsy, Non-invasive prenatal testing

53.

Pecimonova, M; Radvanszky, J; Smolak, D; Budis, J; Lichvar, M; Kristinova, D; Rozova, I; Turna, J; Szemes, T

Admixed phenotype of NEDD4L associated periventricular nodular heterotopia: A case report Journal Article

In: Medicine, 100 (22), pp. e26136, 2021, ISSN: 15365964.

Abstract | Links | BibTeX | Tags: Case study, Genetic testing, Single nucleotide variants, Variant interpretation

52.

Radvanszky, J; Hyblova, M; Radvanska, E; Spalek, P; Valachova, A; Magyarova, G; Bognar, C; Polak, E; Szemes, T; Kadasi, L

Characterisation of non-pathogenic premutation-range myotonic dystrophy type 2 alleles Journal Article

In: Journal of Clinical Medicine, 10 (17), 2021, ISSN: 20770383.

Abstract | Links | BibTeX | Tags: Non-invasive prenatal testing, Oncology, Single nucleotide variants

51.

Forgacova, N; Gazdarica, J; Budis, J; Radvanszky, J; Szemes, T

Repurposing non‑invasive prenatal testing data: Population study of single nucleotide variants associated with Colorectal Cancer and Lynch Syndrome Journal Article

In: Oncology Letters, 22 (5), 2021, ISSN: 17921074.

Abstract | Links | BibTeX | Tags: Non-invasive prenatal testing, Oncology, Population study

50.

Hekel, R.; Budis, J.; Kucharik, M.; Radvanszky, J.; Pös, Z.; Szemes, T.

Privacy-preserving storage of sequenced genomic data Journal Article

In: BMC Genomics, 22 (1), 2021, ISSN: 14712164.

Abstract | Links | BibTeX | Tags:

49.

Brejová, B.; Hodorová, V.; Boršová, K.; Čabanová, V.; Szemes, T.; Mišík, M.; Klempa, B.; Nosek, J.; Vinař, T.

Sequencing SARS-CoV-2 in Slovakia: An unofficial genomic surveillance report Conference

2962 , CEUR-WS, 2021, ISSN: 16130073.

Abstract | Links | BibTeX | Tags: Sars-cov-2

48.

Goga, A.; Böhmer, M.; Hekel, R.; Krampl, W.; Brejová, B.; Vinař, T.; Budiš, J.; Szemes, T.

SnakeLines workflow for SARS-CoV-2 variant detection from next-generation sequencing reads Conference

2962 , CEUR-WS, 2021, ISSN: 16130073.

Abstract | Links | BibTeX | Tags: Sars-cov-2, Variant calling

47.

Forgacova, N.; Gazdarica, J.; Budis, J.; Sekelska, M.; Szemes, T.

Identification and analyses of variants associated with COVID-19 from non-invasive prenatal testing in Slovak population Conference

2962 , CEUR-WS, 2021, ISSN: 16130073.

Abstract | Links | BibTeX | Tags: Non-invasive prenatal testing, Population study, Sars-cov-2, Variant calling

46.

Misova, I; Pitelova, A; Budis, J; Gazdarica, J; Sedlackova, T; Jordakova, A; Benko, Z; Smondrkova, M; Mayerova, N; Pichlerova, K; Strieskova, L; Prevorovsky, M; Gregan, J; Cipak, L; Szemes, T; Polakova, S B

Repression of a large number of genes requires interplay between homologous recombination and HIRA Journal Article

In: Nucleic Acids Research, 49 (4), pp. 1914-1934, 2021, ISSN: 03051048.

Abstract | Links | BibTeX | Tags: Epigenetics, Transcriptomics

45.

Pös, O; Radvanszky, J; Styk, J; Pös, Z; Buglyó, G; Kajsik, M; Budis, J; Nagy, B; Szemes, T

Copy number variation: Methods and clinical applications Journal Article

In: Applied Sciences (Switzerland), 11 (2), pp. 1-16, 2021, ISSN: 20763417.

Abstract | Links | BibTeX | Tags: Copy number variation, Review, Variant interpretation

44.

Maronek, M; Gromova, B; Liptak, R; Konecna, B; Pastorek, M; Cechova, B; Harsanyova, M; Budis, J; Smolak, D; Radvanszky, J; Szemes, T; Harsanyiova, J; Trancikova, A Kralova; Gardlik, R

Extracellular DNA Correlates with Intestinal Inflammation in Chemically Induced Colitis in Mice Journal Article

In: Cells, 10 (1), 2021, ISSN: 20734409.

Abstract | Links | BibTeX | Tags: Body fluids, Cell-free nucleic acids

2020

43.

Böhmer, M; Smoľak, D; Ženišová, K; Čaplová, Z; Pangallo, D; Puškárová, A; Bučková, M; Cabicarová, T; Budiš, J; Šoltýs, K; Rusňáková, D; Kuchta, T; Szemes, T

Comparison of microbial diversity during two different wine fermentation processes Journal Article

In: FEMS microbiology letters, 367 (18), 2020, ISSN: 15746968.

Abstract | Links | BibTeX | Tags: Bacteria, Food microbiome, Fungi, Metagenomics, Plants

42.

Böhmer, M; Ozdín, D; Račko, M; Lichvár, M; Budiš, J; Szemes, T

Identification of bacterial and fungal communities in the roots of orchids and surrounding soil in heavy metal contaminated area of mining heaps Journal Article

In: Applied Sciences (Switzerland), 10 (20), pp. 1-18, 2020, ISSN: 20763417.

Abstract | Links | BibTeX | Tags: Bacteria, Environmental microbiome, Metagenomics, Plants

41.

Hyblova, M; Harsanyova, M; Nikulenkov-Grochova, D; Kadlecova, J; Kucharik, M; Budis, J; Minarik, G

Validation of copy number variants detection from pregnant plasma using low-pass whole-genome sequencing in noninvasive prenatal testing-like settings Journal Article

In: Diagnostics, 10 (8), 2020, ISSN: 20754418.

Abstract | Links | BibTeX | Tags: Copy number variation, Fetal fraction, Non-invasive prenatal testing, Validation