Publication Records

ŤAPUCHOVÁ, Ivana, Robert PYTLIK, Pavel ŠIMARA, Lenka TESAŘOVÁ and Irena KOUTNÁ. Cytomegalovirus and other herpesviruses after hematopoietic cell and solid organ transplantation: From antiviral drugs to virus-specific T cells. Transplant Immunology. Amsterdam: Elsevier B.V., 2022, vol. 71, April, p. 1-13. ISSN 0966-3274. Available from: https://dx.doi.org/10.1016/j.trim.2022.101539.

LUKJANOV, Viktor, Irena KOUTNÁ and Pavel ŠIMARA. CAR T-Cell Production Using Nonviral Approaches. Journal of Immunology Research. London: Hindawi, 2021, vol. 2021, Mar 27, p. 1-9. ISSN 2314-8861. Available from: https://dx.doi.org/10.1155/2021/6644685.

ŠIMARA, Pavel, Lenka TESAŘOVÁ, Ivana ŤAPUCHOVÁ, J. CELEROVA and Irena KOUTNÁ. T-Cell Activation: Post-Infection Diagnostic Tool for COVID-19. Folia biologica. Praha: Institute of Molecular Genetics, 2021, vol. 67, No 1, p. 16-27. ISSN 0015-5500.

FARKAŠ, Šimon, Pavel ŠIMARA, Daniela ŘEHÁKOVÁ, Lenka VEVERKOVÁ and Irena KOUTNÁ. Endothelial Progenitor Cells Produced From Human Pluripotent Stem Cells by a Synergistic Combination of Cytokines, Small Compounds, and Serum-Free Medium. Frontiers in Cell and Developmental Biology. Lausanne: Frontiers Media S.A., 2020, vol. 8, No 309, p. 1-15. ISSN 2296-634X. Available from: https://dx.doi.org/10.3389/fcell.2020.00309.

TESAŘOVÁ, Lenka, Klára JAREŠOVÁ, Pavel ŠIMARA and Irena KOUTNÁ. Umbilical Cord-Derived Mesenchymal Stem Cells Are Able to Use bFGF Treatment and Represent a Superb Tool for Immunosuppressive Clinical Applications. International Journal of Molecular Sciences. Basel: Multidisciplinary Digital Publishing Institute, 2020, vol. 21, No 15, p. 1-27. ISSN 1422-0067. Available from: https://dx.doi.org/10.3390/ijms21155366.

ŠIMARA, Pavel, Viktor LUKJANOV, Pavel OTÁHAL and Irena KOUTNÁ. Virus-free production of CAR T-cells for the treatment of solid tumors. In CAR-TCR Europe Summit. 2020.

FARKAŠ, Šimon, Pavel ŠIMARA, Daniela ŘEHÁKOVÁ, Tereza SOURALOVÁ and Irena KOUTNÁ. Novel synergistic culturing approach for efficient and robust differentiation of human pluripotent stem cells into endothelial progenitors. In 8. ročník konference Stem Cells and Cell Therapy: From Research to Modern Clinical Applications, Lednice, Czech Republic. 2019.

ŠALINGOVÁ, Barbara, Pavel ŠIMARA, Pavel MATULA, Lenka ZAJÍČKOVÁ, Petr SYNEK, Ondřej JAŠEK, Lenka VEVERKOVÁ, Miroslava SEDLÁČKOVÁ, Zuzana NICHTOVA and Irena KOUTNÁ. The Effect of Uncoated SPIONs on hiPSC-Differentiated Endothelial Cells. International Journal of Molecular Sciences. BASEL: Molecular Diversity Preservation International, 2019, vol. 20, No 14, p. 1-16. ISSN 1422-0067. Available from: https://dx.doi.org/10.3390/ijms20143536.

ŠIMARA, Pavel, Lenka TESAŘOVÁ, Daniela ŘEHÁKOVÁ, Šimon FARKAŠ, Barbara ŠALINGOVÁ, Kateřina KUTÁLKOVÁ, Eva VAVREČKOVÁ, Pavel MATULA, Petr MATULA, Lenka VEVERKOVÁ and Irena KRONTORÁD KOUTNÁ. Reprogramming of Adult Peripheral Blood Cells into Human Induced Pluripotent Stem Cells as a Safe and Accessible Source of Endothelial Cells. Stem Cells and Development. Mary Ann Liebert, Inc. publishers, 2018, vol. 27, No 1, p. 10-22. ISSN 1547-3287. Available from: https://dx.doi.org/10.1089/scd.2017.0132.

ŠIMARA, Pavel, Lenka TESAŘOVÁ, Daniela ŘEHÁKOVÁ, Šimon FARKAŠ, Barbara ŠALINGOVÁ, Kateřina KUTÁLKOVÁ, Eva VAVREČKOVÁ, Pavel MATULA, Petr MATULA and Irena KRONTORÁD KOUTNÁ. Reprogramming of peripheral blood cells into hiPSCs as a source of endothelial cells. In SY-Stem symposium 2018. 2018.

SVOBODA, David, Tereza NEČASOVÁ, Lenka TESAŘOVÁ and Pavel ŠIMARA. Tubular Network Formation Process Using 3D Cellular Potts Model. In Gooya A., Goksel O., Oguz I., Burgos N. Simulation and Synthesis in Medical Imaging. LNCS 11037. Neuveden: Springer, 2018, p. 90-99. ISBN 978-3-030-00535-1. Available from: https://dx.doi.org/10.1007/978-3-030-00536-8_10.

ŠIMARA, Pavel, Lenka TESAŘOVÁ, Daniela ŘEHÁKOVÁ, Pavel MATULA, Stanislav STEJSKAL, Aleš HAMPL and Irena KRONTORÁD KOUTNÁ. DNA double-strand breaks in human induced pluripotent stem cell reprogramming and long-term in vitro culturing. Stem Cell Research & Therapy. Springer Nature, 2017, vol. 8, No 73, p. 1-13. ISSN 1757-6512. Available from: https://dx.doi.org/10.1186/s13287-017-0522-5.

TESAŘOVÁ, Lenka, Pavel ŠIMARA, Stanislav STEJSKAL and Irena KRONTORÁD KOUTNÁ. Hematopoietic developmental potential of human pluripotent stem cell lines is accompanied by the morphology of embryoid bodies and the expression of endodermal and hematopoietic markers. Cellular Reprogramming. 2017, vol. 19, No 4, p. 270-284. ISSN 2152-4971. Available from: https://dx.doi.org/10.1089/cell.2016.0042.

ŠIMARA, Pavel, Irena KRONTORÁD KOUTNÁ, Lenka TESAŘOVÁ and Šimon FARKAŠ. POTENTIAL OF hiPSCs DERIVED FROM DIFFERENT CELL TYPES TO DIFFERENTIATE INTO FUNCTIONAL ENDOTHELIAL CELLS. In ISSCR 2017 Annual Meeting. 2017.

ŠIMARA, Pavel, Irena KRONTORÁD KOUTNÁ, Lenka TESAŘOVÁ, Daniela ŘEHÁKOVÁ and Pavel MATULA. DNA double strand breaks detection in pluripotent stem cells with regard to cell cycle stages. In ISSCR 2016 Annual Meeting. 2016.

ŠIMARA, Pavel, Lenka TESAŘOVÁ, Daniela ŘEHÁKOVÁ, Pavel MATULA and Irena KRONTORÁD KOUTNÁ. Genomic Stability of the Cells during hiPSC Reprogramming and Endothelial Differentiation. In 12th International Congress of Cell Biology. 2016.

ŠALINGOVÁ, Barbara, Pavel ŠIMARA, Petr SYNEK, Lenka ZAJÍČKOVÁ, Zuzana NICHTOVÁ and Irena KRONTORÁD KOUTNÁ. Paramagnetic nanoparticles in stem cell therapy. In Bioimplantologie. 2016.

TESAŘOVÁ, Lenka, Pavel ŠIMARA, Stanislav STEJSKAL and Irena KRONTORÁD KOUTNÁ. The Aberrant DNA Methylation Profile of Human Induced Pluripotent Stem Cells Is Connected to the Reprogramming Process and Is Normalized During In Vitro Culture. PLOS ONE. Public Library of Science, 2016, vol. 11, No 6, p. nestránkováno, 16 pp. ISSN 1932-6203. Available from: https://dx.doi.org/10.1371/journal.pone.0157974.

KRATOCHVÍLOVÁ, Kateřina, Lukáš MORÁŇ, Stanislava PAĎOUROVÁ, Stanislav STEJSKAL, Lenka TESAŘOVÁ, Pavel ŠIMARA, Aleš HAMPL, Irena KRONTORÁD KOUTNÁ and Petr VAŇHARA. The role of the endoplasmic reticulum stress in stemness, pluripotency and development. European Journal of Cell Biology. Jena: Elsevier GMBH, 2016, vol. 95, 3-5, p. 115-123. ISSN 0171-9335. Available from: https://dx.doi.org/10.1016/j.ejcb.2016.02.002.

STEJSKAL, Stanislav, Karel ŠTĚPKA, Lenka TESAŘOVÁ, Karel STEJSKAL, Martina MATĚJKOVÁ, Pavel ŠIMARA, Zbyněk ZDRÁHAL and Irena KRONTORÁD KOUTNÁ. Cell cycle-dependent changes in H3K56ac in human cells. Cell Cycle. Philadelphia: Taylor&Francis Inc, 2015, vol. 14, No 24, p. 3851-3863. ISSN 1538-4101. Available from: https://dx.doi.org/10.1080/15384101.2015.1106760.

KRONTORÁD KOUTNÁ, Irena, Pavel ŠIMARA, Pavel MATULA, Lenka TESAŘOVÁ and Barbara ŠALINGOVÁ. Derivation of human induced pluripotent stem cells and Advanced Methods of Image Processing. In CEITEC PhD Retreat, 23-24.4.2015, Valtice Czech Republic. 2015.

TESAŘOVÁ, Lenka, Barbara ŠALINGOVÁ, Pavel ŠIMARA and Irena KRONTORÁD KOUTNÁ. Hematopoietic developmental potential is variable in pluripotent stem cell lines. In Conference Frontiers in Material and Life Sciences: Creating Life in 3D, 2-4 September, 2015, Brno. 2015.

SOROKIN, Dmitry, Lenka STIXOVÁ, Petra SEHNALOVÁ, Soňa LEGARTOVÁ, Jana SUCHÁNKOVÁ, Pavel ŠIMARA, Stanislav KOZUBEK, Pavel MATULA, Magdalena SKALNÍKOVÁ, Ivan RAŠKA and Eva BÁRTOVÁ. Localized movement and morphology of UBF1-positive nucleolar regions are changed by gamma-irradiation in G2 phase of the cell cycle. Nucleus. 2015, vol. 6, No 4, p. 301-313. ISSN 1949-1034. Available from: https://dx.doi.org/10.1080/19491034.2015.1075111.

TESAŘOVÁ, Lenka, Pavel ŠIMARA, Stanislav STEJSKAL and Irena KRONTORÁD KOUTNÁ. Pluripotent stem cell lines display variable hematopoietic developmental potential. In 2015 EMBL Symposium: Frontiers in Stem Cells & Cancer, Heidelberg, Germany, Mar 29-31, 2015. 2015.

STEJSKAL, Stanislav, Bára SZAROWSKÁ, Lenka TESAŘOVÁ, Pavel ŠIMARA and Irena KRONTORÁD KOUTNÁ. Single-cell analysis of long-range interactions of POU5F1 foci in hESC cells. In EMBL konference: Frontiers in Stec Cells and Cancer. 2015.

ŠIMARA, Pavel, Irena KRONTORÁD KOUTNÁ, Stanislav STEJSKAL and Lenka TESAŘOVÁ. The effect of reprogramming method, source cell type and long-term cell culture on genomic stability of human induced pluripotent stem cells. In ISSCR 2015 Annual Meeting. 2015.

POTĚŠIL, David, Stanislav STEJSKAL, Marek BORSKÝ, Pavel ŠIMARA, Martina HAVELKOVÁ, Filip RÁZGA, Irena KRONTORÁD KOUTNÁ, Dana DVOŘÁKOVÁ, Jiří MAYER, Zdeněk RÁČIL and Zbyněk ZDRÁHAL. Determination of Imatinib in the Blood Cells of Chronic Myelogenous Leukemia Patients by Ion-Trap Mass Spectrometry. Analytical Letters. PHILADELPHIA: TAYLOR & FRANCIS INC, 2014, vol. 47, No 6, p. 944-957. ISSN 0003-2719. Available from: https://dx.doi.org/10.1080/00032719.2013.860538.

TESAŘOVÁ, Lenka, Pavel ŠIMARA, Stanislav STEJSKAL and Irena KRONTORÁD KOUTNÁ. DNA methylation levels of selected genes in human pluripotent stem cell lines intended for hematopoietic differentiation. In 2014 EMBO Conference Stem Cells in Cancer and Regenerative medicine, Heidelberg, Germany, Oct 9-12, 2014. 2014.

ŠALINGOVÁ, Barbara, Martina MADARÁSOVÁ, Stanislav STEJSKAL, Lenka TESAŘOVÁ, Pavel ŠIMARA and Irena KRONTORÁD KOUTNÁ. From Endothelial Progenitor Cells to Tissue Engineering: How Far Have We Come? Journal of Stem Cell Research & Therapy. 5716 Corsa Ave, Los Angeles, USA: OMICS group, 2014, vol. 4, No 3, p. 185-195. ISSN 2157-7633. Available from: https://dx.doi.org/10.4172/2157-7633.1000185.

ŠIMARA, Pavel, Lenka TESAŘOVÁ, Stanislava PAĎOUROVÁ and Irena KRONTORÁD KOUTNÁ. Generation of Human Induced Pluripotent Stem Cells Using Genome Integrating or Non-integrating Methods. In Advances in Molecular and Cancer Biology. 2014.

ŠIMARA, Pavel, Lenka TESAŘOVÁ, Stanislava PAĎOUROVÁ and Irena KRONTORÁD KOUTNÁ. Generation of Human Induced Pluripotent Stem Cells Using Genome Integrating or Non-integrating Methods. Folia Biologica. Praha: Univerzita Karlova, 2014, vol. 60, S1, p. 85-89. ISSN 0015-5500.

TESAŘOVÁ, Lenka, Pavel ŠIMARA, Stanislav STEJSKAL and Irena KRONTORÁD KOUTNÁ. Haematopoietic developmental potential of human pluripotent stem cell lines. Folia biologica. Praha: Univerzita Karlova, 2014, vol. 60, No 1, p. 90-94. ISSN 0015-5500.

TESAŘOVÁ, Lenka, Pavel ŠIMARA, Barbara ŠALINGOVÁ and Irena KRONTORÁD KOUTNÁ. Hematopoietic differentiation of human pluripotent stem cells. In Advances in Molecular and Cancer Biology. 2014.

RUČKA, Zdeněk, Irena KRONTORÁD KOUTNÁ, Lenka TESAŘOVÁ, Michaela POTĚŠILOVÁ, Stanislav STEJSKAL, Pavel ŠIMARA, Petr VAŇHARA, Jan DOLEŽEL, Václav ZVONÍČEK, Oldřich COUFAL and Ivan ČAPOV. Intravenous insulin therapy during lung resection does not affect lung function or surfactant proteins. BMC Pulmonary Medicine. London, United Kingdom: BIOMED CENTRAL LTD, 2014, vol. 14, No 1, p. 155-163. ISSN 1471-2466. Available from: https://dx.doi.org/10.1186/1471-2466-14-155.

ŠIMARA, Pavel, Stanislav STEJSKAL, Irena KRONTORÁD KOUTNÁ, David POTĚŠIL, Lenka TESAŘOVÁ, Michaela POTĚŠILOVÁ, Zbyněk ZDRÁHAL and Jiří MAYER. Apoptosis in chronic myeloid leukemia cells transiently treated with imatinib or dasatinib is caused by residual BCR-ABL kinase inhibition. American Journal of Hematology. NJ 07030-577 United States: John Wiley & Sons, 2013, vol. 88, No 5, p. 385-393. ISSN 0361-8609. Available from: https://dx.doi.org/10.1002/ajh.23419.

STEJSKAL, Stanislav, Martina MATĚJKOVÁ, Karel ŠTĚPKA, Michaela POTĚŠILOVÁ, Lenka TESAŘOVÁ, Pavel ŠIMARA and Irena KRONTORÁD KOUTNÁ. Cell cycle dependent changes of H3K56ac levels in cancer and hES cells. In 2013 IMB Conference: Chromatin Dynamics and Stem Cells. 2013.

RUČKA, Zdeněk, Petr VAŇHARA, Irena KRONTORÁD KOUTNÁ, Lenka TESAŘOVÁ, Michaela POTĚŠILOVÁ, Stanislav STEJSKAL, Pavel ŠIMARA, Jan DOLEŽEL, Václav ZVONÍČEK, Oldřich COUFAL and Ivan ČAPOV. Differential effects of insulin and dexamethasone on pulmonary surfactant-associated genes and proteins in A549 and H441 cells and lung tissue. INTERNATIONAL JOURNAL OF MOLECULAR MEDICINE. UNITED STATES: SPANDIDOS PUBL LTD, 2013, vol. 32, No 1, p. 211-218. ISSN 1107-3756. Available from: https://dx.doi.org/10.3892/ijmm.2013.1363.

TESAŘOVÁ, Lenka, Irena KRONTORÁD KOUTNÁ, Alena DRDÚLOVÁ, Stanislav STEJSKAL, Michaela POTĚŠILOVÁ and Pavel ŠIMARA. In vitro developmental potential of human embryonic stem cell lines evaluated by gene expression analysis of a new set of differentiation markers. In 2013 ISSCR’s Stem Cell in Translation, Florence, Italy, Sept 15-18. 2013.

ŠIMARA, Pavel, Jason MOTL and Dan KAUFMAN. Pluripotent stem cells and gene therapy. Translational Research. 2013, vol. 161, No 4, p. 284-292. ISSN 1931-5244. Available from: https://dx.doi.org/10.1016/j.trsl.2013.01.001.

ŠIMARA, Pavel, Stanislav STEJSKAL, Irena KRONTORÁD KOUTNÁ, David POTĚŠIL, Lenka TESAŘOVÁ, Michaela POTĚŠILOVÁ, Zbyněk ZDRÁHAL and Jiří MAYER. Apoptosis in Chronic Myeloid Leukemia Cells Transiently Treated with Imatinib or Dasatinib Is Caused by Residual BCR-ABL Kinase Inhibition. In 54th ASH Annual Meeting and Exposition. 2012. ISSN 1528-0020.

ŠIMARA, Pavel, Martina PETERKOVÁ, Stanislav STEJSKAL, Michaela POTĚŠILOVÁ, Irena KRONTORÁD KOUTNÁ, Zdeněk RÁČIL, Filip RÁZGA, Tomáš JURČEK, Dana DVOŘÁKOVÁ and Jiří MAYER. BCR-ABL activity measured by 50% inhibitory concentration for imatinib, p-CrkL/CrkL ratio or p-CrkL ratio in CD34+ cells of patients with chronic myeloid leukemia does not predict treatment response. Leukemia & lymphoma. England: Informa Healthcare, 2012, vol. 53, No 8, p. 1627-1629. ISSN 1042-8194. Available from: https://dx.doi.org/10.3109/10428194.2012.656104.

KRONTORÁD KOUTNÁ, Irena, Pavel ŠIMARA, Petra ONDRÁČKOVÁ and Lenka TESAŘOVÁ. Flow Cytometry Analysis of Intracelular Protein (Flow cytometrická analýza intracelulárních proteinů). Online. In Ingrid Schmid, University of California, Los Angeles. Flow Cytometry , Recent Perspectives. Rijeka, Croatia: InTech, 2012, p. 421-438. Open science/open minds. ISBN 978-953-51-0626-5. Available from: https://dx.doi.org/10.5772/38400.

KRONTORÁD KOUTNÁ, Irena, Martina PETERKOVÁ, Pavel ŠIMARA, Stanislav STEJSKAL, Lenka TESAŘOVÁ and Michal KOZUBEK. Proliferation and differentiation potential of CD133+ and CD34+ populations from the bone marrow and mobilized peripheral blood. Annals of hematology. Germany: Springer, 2011, vol. 90, (2), p. 127-137. ISSN 0939-5555.

PELLICANO, Francesca, Pavel ŠIMARA, Amy SINCLAIR, Gudmundur Vignir HELGASON, Mhairi COPLAND, Steven GRANT and Tessa HOLYOAKE. The MEK inhibitor PD184352 enhances BMS-214662-induced apoptosis in CD34+ CML stem/progenitor cells. Leukemia. London: Nature Publishing Group, 2011, vol. 25, No 7, p. 1159-1167. ISSN 0887-6924. Available from: https://dx.doi.org/10.1038/leu.2011.67.

ŠIMARA, Pavel, Stanislav STEJSKAL, Martina PETERKOVÁ, Irena KRONTORÁD KOUTNÁ, Zdeněk RÁČIL and Jiří MAYER. Dasatinib Promotes BIM Dependent Apoptosis Via MEK/ERK without Need for Permanent BCR-ABL Inhibition. In ASH 2010. 2010. ISSN 1528-0020.

ŠIMARA, Pavel, Stanislav STEJSKAL, Martina PETERKOVÁ, Jiří MAYER, Zdeněk RÁČIL, Irena KRONTORÁD KOUTNÁ and Michal KOZUBEK. Dasatinib suppresses MEK/ERK pathway activity without sustained BCR-ABL inhibition and promotes BIM dependent apoptosis in chronic myeloid leukaemia cells. In XXIV. Olomoucké hematologické dny s mezinárodní účastí. 2010. ISSN 1213-5763.

ŠIMARA, Pavel, Stanislav STEJSKAL, Martina PETERKOVÁ, Irena KRONTORÁD KOUTNÁ, Zdeněk RÁČIL and Jiří MAYER. Determination of pCrkL level in chronic myeloid leukaemia cells using flow cytometry. In Advances in Molecular and Cancer Biology, 2010. Brno, Česká Republika: muni PRESS, 2010, p. 43-45. ISBN 978-80-210-5312-0.

POTĚŠIL, David, Filip RÁZGA, Stanislav STEJSKAL, Lenka TESAŘOVÁ, Pavel ŠIMARA, Martina PETERKOVÁ, Dana DVOŘÁKOVÁ, Ludmila MALÁŠKOVÁ, Irena KRONTORÁD KOUTNÁ, Zdeněk RÁČIL, Jiří MAYER and Zbyněk ZDRÁHAL. Stanovení intracelulární koncentrace imatinibu u CML pacientů (Determination of intracellular imatinib concentration in CML patients). 2010. ISSN 1213-5763.

ŠIMARA, Pavel, Irena KOUTNÁ, Stanislav STEJSKAL, Petr KRONTORÁD, Zdeněk RUČKA, Martina PETERKOVÁ and Michal KOZUBEK. Combination of mRNA and protein microarray analysis in complex cell profiling. Neoplasma. Bratislava, Slovensko: AEPress, s.r.o., 2009, 2/2009, No 56, p. 141-149. ISSN 0028-2685.

ŠIMARA, Pavel, Steven GRANT, Tessa HOLYOAKE and Francesca PELLICANO. MEK inhibition enhances BMS-214662-induced apoptosis in primitive CD34+ CML stem/progenitor cells. In ESH: CHRONIC MYELOID LEUKEMIA - Biological Basis of Therapy. 2009.

PETERKOVÁ, Martina, Irena KOUTNÁ, Pavel ŠIMARA, Stanislav STEJSKAL and Lenka TESAŘOVÁ. The in vitro proliferation potential and proportion of CD133+ versus CD34+ hematopoietic stem cells. In Experimental Hematology, Volume 37, Number 9. University of Nevada, USA: Elsevier, 2009, p. 35-36. ISSN 0301-472X.

ŠIMARA, Pavel, Irena KOUTNÁ, Stanislav STEJSKAL, Martina PETERKOVÁ, Petr KRONTORÁD and Zdeněk RUČKA. Large-scale Microarray Analysis of Protein and mRNA Level Changes in HL-60 Cells. 2007.