Biostatistics & Bioinformatics

Biostatistics & BioinformaticsThe Biostatistics & Bioinformatics Core provides expertise and infrastructure for various types of analysis as well as for acquisition, storage and distribution of complex datasets. Core personnel have expertise in IT infrastructure, programming, web/database management, data mining, statistics and bio/chemoinformatics consult and assist in study design, implementation, and analysis, and develop new software tools to support research activities of other IMTM cores.

In addition to standard equipment and common software resources the computing infrastructure of the core includes two high performance computing clusters:

  1. IBM BladeCenter H (276 cores, 39 TB):
    • 23x BladeCenter HS22 (48 GB, 2x Intel Xeon CPU X5650, 2.67 GHz, 6 cores),
    • 38 TB SATA + 1 TB SAS
  2. IBM Flex System (1008 cores, 835 TB):
    • 42x CPU Node (2x Intel Xeon E5-2650 8C, 2.0 GHz),
    • 18x GPU Node 48 GB (2x Intel Xeon E5-2650 8C, 2.0 GHz, NVidia Tesla M2090),
    • 2x High GPU Power Node 384 GB (2x Intel Xeon E5-2650 8C, 2.0 GHz, NVidia Tesla M2090)
    • 1x Backup Node (2x Intel Xeon E5-2650 8C, 2.0 GHz)
    • 24x 300 GB + 276x 3TB  

 

Personnel:

Head: Jana Vrbková 
Biostatistics: Pavla Kouřilová
Bio&Chemo/Informatics: Jiří Voller, Miroslav Hruška, Petr Pavliš, Martin Sátora, Jan Moucha, Martin Szotkowski, Jan Lošťák

 

References:

ÜBERALL, I., V. KOLEK, J. KLEIN, V. KREJČÍ, J. ŠŤASTNÁ, L. RADOVÁ, J. ŠKARDA a E. FRIDMAN. The Immunohistochemical expression of BNIP3 protein in non-small-cell lung cancer: a tissue microarray study. Apmis. 2010, 118(8), 565-570. ISSN 0903-4641. IF (2009): 1.745
JORDA, R., L. HAVLÍČEK, I.W. MCNAE, M.D. WALKINSHAW, J. VOLLER, A. ŠTURC, J. NAVRÁTILOVÁ, M. KUZMA, M. MISTRÍK, J. BÁRTEK, M. STRNAD a V. KRYŠTOF. Pyrazolo[4,3-d]pyrimidine Bioisostere of Roscovitine: Evaluation of a Novel Selective Inhibitor of Cyclin-Dependent Kinases with Antiproliferative Activity. Journal of Medicinal Chemistry. 2011, 54(8), 2980-2993. ISSN 0022-2623. IF (2010): 5.207
LUZNA, P., J. GREGAR, I. ÜBERALL, L. RADOVÁ, V. PROCHAZKA a J. ML. EHRMANN. RESEARCH Open Access Changes of microRNAs-192, 196a and 203 correlate with Barrett’s esophagus diagnosis and its progression compared to normal healthy individuals. Diagnostic Pathology. 2011, 6(114), 1-7. ISSN 1746-1596. IF (2010): 1.388
ČÍŽKOVÁ, M., K. BOUCHALOVA, D. FRIEDECKY, A. POLÝNKOVÁ, A. JANOŠŤÁKOVÁ, L. RADOVÁ, K. CWIERTKA, R. TROJANEC, M. ZEZULOVÁ, M. ZLEVOROVÁ, M. HAJDÚCH a B. MELICHAR. High lapatinib plasma levels in breast cancer patients: risk or benefit?. Tumori. 2012, 98(1), 162-165. ISSN 0300-8916. IF (2011): 0.606
SKARDA, J., Z. KOLAR, M. JANÍKOVÁ, L. RADOVÁ, V. KOLEK, E. FRIDMAN a J. KOPOLOVIC. Analysis of the prognostic impact of nestin expression in non-small cell lung cancer. Biomedical Papers of the Medical Faculty of Palacký University, Olomouc, Czech Republic. 2012, 156(2), 135-142. ISSN 1213-8118. IF (2011): 0.702
TYLECKOVA, J., R. HRABAKOVA, K. MAIRYCHOVA, P. HALADA, L. RADOVÁ, P. DZUBAK, M. HAJDÚCH, S. J. GADHER a H. KOVAROVA. Cancer Cell response to Anthracyclines Effects: Mysteries of the Hidden Proteins Associated with These Drugs.International Journal of Molecular Sciences. 2012, 2012(13), 15536-15564. ISSN 1422-0067. IF (2011): 2.598
GRELL, P., P. FABIAN, M. KHOYLOU, L. RADOVA, O. SLABY, R. HRSTKA, R. VYZULA, M. HAJDÚCH a M. SVOBODA. Akt expression and compartmentalization in prediction of clinical outcome in HER2-positive metastatic breast cancer patients treated with trastuzumab. International Journal of Oncology. 2012, 41(4), 1204-1212. ISSN 1019-6439. IF (2011): 2.399
GACHECHILADZE, M., I. UBERALL, V. KOLEK, J. KLEIN, V. KREJCI, J. STASTNA, L. RADOVA, E. FRIDMAN a J. SKARDA. Correlation between BRCA1 expression and clinicopathological factors including brain metastases in patients with non-small-cell lung cancer. Biomedical Papers of the Medical Faculty of the University Palacký, Olomouc, Czech Republic. 2013,157(3), 227-232. ISSN 1213-8118. IF (2012): 0.990
REDOVA, M., A. POPRACH, A. BESSE, R. ILIEV, J. NEKVINDOVA, R. LAKOMY, L. RADOVA, M. SVOBODA, J. DOLEZEL, R. VYZULA a O. SLABY. MiR-210 expression in tumor tissue and in vitro effects of its silencing in renal cell carcinoma. Tumor Biology. 2013, 34(1), 481-491. ISSN 1010-4283. IF (2012): 2.518
POTESIL, J., F. KOPRIVA, P. DZUBAK, M. GODAVA, L. RADOVA, J. SROVNAL, V. MIHAL a M. HAJDÚCH. Expression of multidrug resistance protein 1 and multidrug resistance-associated protein 1 in peripheral blood lymphocytes amongst children and young adults. Central European Journal of Immunology. 2013, 38(4), 518-529. ISSN 1426-3912. IF (2012): 0.378
ŠILLER M., S. GOYAL, F.K. YOSHIMOTO, Y. XIAO, S. WEI a F.P. GUENGERICH. Oxidation of Endogenous N-Arachidonoylserotonin by Human Cytochrome P450 2U1. Journal of Biological Chemistry. 2014, 289(15), 10476-10487. ISSN 0021-9258. IF (2013): 4.600