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| Education & Training |
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Nov.2000 - Nov.2003
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Ph.D. student, Division of Chemistry of Natural Compounds, Department of Chemistry, M.V. Lomonosov Moscow State University
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Jun.2000 - Sep.2000
Aug.2002 - Nov.2002
Jan.2003 - Jun.2003
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Visiting Scientist, Institute of Molecular Biology, University of Witten/Herdecke, Germany
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Qualification:
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Ph.D. in Chemistry (specialization - bioorganic chemistry)
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Feb.2001 - Dec.2002
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Student, Complementary Professional Education, Department of Foreign Languages, M.V. Lomonosov Moscow State University
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Qualification:
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Complementary professional education diploma ("Translator in the sphere of professional communication" (English))
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Sep.1995 - Dec.1997
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Group of Computer Science, Chemistry Department of Chemistry, M.V. Lomonosov Moscow State University
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Jan.1998 - Jun.2000
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Group of Chemistry of Natural Compounds, Department of Chemistry, M.V. Lomonosov Moscow State University
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Sep.1995 - Jun.2000
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Department of Chemistry, M.V. Lomonosov Moscow State University
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Qualification:
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Higher education diploma in chemistry (with distinction), specialization in bioorganic chemistry
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| Professional Experience |
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Apr.2007-Now
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Research Assistant (PostDoc), Research group Toll-like receptors and Cancer (F120), German Cancer Research Center (DKFZ), Heidelberg, Germany
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Dec.2003-Mar.2007
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Research Assistant (PostDoc), Institute of Physical Biochemistry, University of Witten/Herdecke, Germany
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Sep.2001 - Nov.2002
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Technology investigator, Samsung Advanced Institute of Technology (SAIT), Moscow office
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| Publications |
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1.
Peter ME, Kubarenko AV, Weber AN, Dalpke AH.
Identification of an N-terminal recognition site in TLR9 that contributes to CpG-DNA-mediated receptor activation (2009) J. Immunol.,
182(12):
7690-7697.
[PubMed]
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2.
Bruell CM, Eichholz C, Kubarenko A, Post V, Katunin VI, Hobbie SN, Rodnina MV, Böttger EC.
Conservation of Bacterial Protein Synthesis Machinery: Initiation and Elongation in Mycobacterium smegmatis (2008) Biochemistry,
47(34):
8828-8839.
[PubMed]
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3.
Kubarenko A, Frank M, Weber AN.
Structure-function relationships of Toll-like receptor domains through homology modelling and molecular dynamics (2007) Biochem. Soc. Trans.,
35(6):
1515-1518.
[PubMed]
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4.
Weber ANR, Kubarenko A.
Tolle Signale - Analyse von Epidemiologie und Krebsmechanismen der Toll-like Rezeptoren (2007) BIOforum,
5(1):
54-55.
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5.
Kubarenko A, Sergiev P, Wintermeyer W, Dontsova O, Rodnina MV.
Involvement of helix 34 of 16 S rRNA in decoding and translocation on the ribosome (2006) J. Biol. Chem.,
281(46):
35235-35244.
[PubMed]
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6.
Кубаренко АВ, Сергиев ПВ, Роднина МВ.
GTPАЗЫ АППАРАТА ТРАНСЛЯЦИИ (2005) Молекулярная биология,
39(5):
746-761.
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7.
Kubarenko AV, Sergiev PV, Rodnina MV.
GTPases of translational apparatus (2005) Mol. Biol. (Mosk),
39(5):
746-761.
[PubMed]
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8.
Buskiewicz I, Kubarenko A, Peske F, Rodnina MV, Wintermeyer W.
Domain rearrangement of SRP protein Ffh upon binding 4.5S RNA and the SRP receptor FtsY (2005) RNA,
11(6):
947-957.
[PubMed]
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9.
Kubarenko AV, Lavrik IN, Sergiev PV, Heupl M, Rodnina M, Wintermeyer W, Bogdanov AA, Dontsova OA.
Contacts of elongation factor G with the small ribosomal subunit: cross-linking approach (2003) Dokl. Biochem. Biophys.,
393(1):
312-314.
[PubMed]
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10.
Kubarenko AV, Sergiev PV, Bogdanov AA, Brimacombe R, Dontsova OA.
A protonated base pair participating in rRNA tertiary structural interactions (2001) Nucleic Acids Res.,
29(24):
5067-5070.
[PubMed]
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| Professional skills |
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More than seven years of research:
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=> on molecular biology, including plasmid DNA purification, restriction digestion, ligation, transformation and gene expression, gel-purification of DNA fragments, PCR, RT-PCR, RT-analysis, electroporation, manual and automatic DNA sequencing, agarose and PAAG gel electrophoresis, pulse field gel electrophoresis system, site-directed mutagenesis for mutation introduction into DNA, familiar with all kinds of molecular biology techniques and products.
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=> on ribosome biochemistry, including site-directed mutagenesis for mutation introduction into the ribosomal RNA, ribosome purification, delta7 strains maintenance and pure mutant ribosome purification, ribosomel activities assays (initiation, dipeptide formation, translocation with steady state and pre-steady state kinetics techniques - stopped flow method, quenched-flow technique).
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=> on RNA biochemistry, including total RNA isolation and purification, in vitro T7 RNA transcription and purification, chemical footprinting and probing of RNA, primer extension and toe-printing, agarose and PAAG gel electrophoresis, autoradiography.
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=> on protein biochemistry, including recombinant fusion protein cloning such as His-Tag protein fusion, recombinant protein gene expression, protein purification, precipitation, ion exchange, protease cleavage, affinity column chromatography, SDS-PAGE, 2-D protein gel, Western blot, protein kinetics, gel-purification of recombinant proteins, gel elution, dialysis, gel filtration, ultra centrifugation, ultra sonication, freeze-drying, spectrophotometry (visible light/UV) and scientific photography.
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=> on kinetics, including Stopped-flow and Quenched-flow techniques, data processing and analysis using scintific software.
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=> advanced computer skills, including word processing, data statistical analysis, graphics imaging, internet setup, website design, programming and administration (HTML, Apache, PHP, MySQL), local network administration, scientific publication and presentation, computer database management, Windows programming (Pascal, Delphi, PHP), numerical computing software (Maple, MathCAD, Scientist), bioinformatics (sequences alignments, PubMed, BLAST, GenBank etc.) and biosoftware (SwissPDB-Viewer, PyMol, WinClone etc.), familiar with Corel Draw 6 and later, Corel PhotoPaint 6 and later, SigmaPlot, TableCurve 2D, Prism 3 and later, MS Office 97 and later, MS Outlook, Multimedia system, MS Windows platform, Adobe Acrobat, Adobe Photoshop etc.
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=> on web-development,
created and supported public projects: nature.chem.msu.su, ribosome.ru;
developed own powerful multi-user engine: andrew3d.net, pilgrim.ru, photogallery.pilgrim.ru.
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| Management experience |
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=> More than seven years of professional scientific lab management experience, including lab daily management, data and record keeping, computer data analysis, scientific meeting presentation and paper publication, lab logs maintaining, equipment maintenance, environmental health and safety surveys, radio isotope safety survey and monitoring, bio-hazardous waste management, radioactive material waste handling and chemical waste treatment.
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=> Self-motivated personality, independent experiment design, trouble-shooting capability, refine existing techniques, reporting to principal investigator about project progress, excellent oral and written skills, excellent interpersonal communication skills, outstanding self-organization skills and team-work orientation.
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| Teaching and communication experienc |
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=> During past seven years, training and supervising graduate and visiting students the lab techniques involving all aspects of molecular biology, biochemistry and microbiology, also interacting with other research groups about on-going collaboration projects, giving introduction course on molecular biology for the first-year students.
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| Participation in the International Grants and Projects |
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=> Deutsche Forschungsgemeinschaft (DFG, German National Research Council) (RO 2004/5-2 - Catalytic Mechanism of Peptide Bond Formation on the Ribosome, Prof. Dr. Marina V. Rodnina)
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=> Hovard Hughes Medical Institute Grant (HHMI #55000303 - The dynamics of conformational changes in the the structure of the ribosome caused by the peptidyl transferase reaction, and by interactions with elongation factors and tmRNA, Prof. Dr. Dontsova O.A.)
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=> INTAS Grant (98-2110 - Interactions of tRNA and tmRNA (10Sa RNA) aminoacyl-tRNA synthetases and other proteins of translational apparatus, Prof. Dr. Dontsova O.A.)
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=> INTAS Grant (97-1972 - Interaction of translation factors with ribosomes studied by steady state and time resolved crosslinking, Prof. Dr. Bogdanov A.A.)
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