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Professional resume
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get a PDF file
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OBJECTIVE:
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research
and teaching in
genome and structural biology /
bioinformatics /
computational biology / biophysics
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EDUCATION
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1995-1999
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Ph.D.
in Physics and Mathematics with specialty in Biophysics, 1999
School
of Radiophysics, V. Karazin
Kharkov National University, Kharkov, Ukraine
Ph.D. Thesis: "Influence of hydration on
dynamical properties of nucleic acids," Supervisor: Prof. V.Y. Maleev
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1998
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Workshop
on the Structure of Biological Macromolecules, March, 1998
Abdus Salam International Centre
for Theoretical Physics (ICTP), Trieste, Italy
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1990-1995
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Combined
B.S.&M.S. in Physics of Biological Systems (with honors),
1995
School
of Radiophysics, V. Karazin
Kharkov National University, Kharkov, Ukraine
M.S. Thesis: "Study of hysteresis phenomenon in the
nucleic acid-water system," Supervisors: Prof. V.Y. Maleev, Dr. A.I.
Gasan, and Dr. S.V. Gatash
B.S. Thesis: "Influence of hydration on
conformational changes in biopolymers," Supervisor: Dr. A.I. Gasan
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AREAS OF PROFESSIONAL INTERESTS
AND EXPERTISE
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Bioinformatics and computational biology
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Genomics and genome biology
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Chromatin structure, nucleosome positioning
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Epigenetic gene regulation, development
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Methodology for analysis of next generation sequencing data
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Structural biology
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Protein-DNA
interactions
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Nucleic acid
structure and conformational dynamics, hydration
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PROFESSIONAL EXPERIENCE
AND EMPLOYMENT HISTORY
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July 2007 – Present
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Department of Medicine, Brigham
and Women’s Hospital; Center for Biomedical Informatics, Harvard
Med School, Boston, MA, USA (since 2008)
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Titles:
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Instructor in Medicine (since 09/2011); Postdoctoral Fellow (2007-2011,
advisor Dr. P.J. Park)
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Research:
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Next generation sequencing data analysis:
methodology and application to chromatin structure studies, Epigenetic
pathways, Nucleosome positioning: genome-wide profiling and prediction,
Histone variants, Gene expression analysis, model organism Encode (part of
Drosophila Chromosomal Proteins group)
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1995 – June 2007
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Department of Molecular and Applied
Biophysics, V. Karazin
Kharkov National University, Kharkov, Ukraine
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Titles:
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Assistant Professor (1999-2007), Junior
Research Scientist (1997-1999)
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Research:
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Structural genomics: Nucleosome
positioning; CpG islands; Comparative analysis of pro- and eukaryotic
transcription pathways; Bacterial chromosome packaging; Bioinformatic
analysis and modeling protein-DNA interaction; Conformational transitions
in DNA.
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Teaching:
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Lecturing
for undergraduate and graduate students: Undergraduate course: Structure
and function of biopolymers. Graduate course: Numerical Analysis of
Biological Macromolecules with Computer Practicum. Supervision of
student projects.
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March 2000 – 2005
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Laboratory of Experimental and
Computational Biology, National
Cancer Institute, National Institutes of Health, Bethesda,
MD
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Titles:
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Post-doctoral Visiting Fellow
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Research:
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Sequence-dependence of the DNA structure
and gene regulation in pro- and eukaryotic genomes; DNA packing in
bacterial nucleoid; Bioinformatic analysis of DNA sequence-dependent
deformability in the protein-DNA complexes; Sequence-dependence of B/A
transition in DNA.
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COMPUTATIONAL
EXPERTISE
Scientific programming in R, FORTRAN
(extensive experience); C/C++, Perl (some experience)
Linux/Windows environment
Bioinformatics resources and web services
for sequence and structure analysis: GEO, ClustalW, TRANSFAC, USCS Genome
browser, PDB/NDB, EASE
Molecular modeling in NAMD, VMD; Chimera
GRANTS,
AWARDS, ACHIEVEMENTS
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2000 - 2005
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Postdoctoral Visiting Fellow
Award, NIH Visiting Program
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1999
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Travel Fellowship to attend XIII
Biophysical Congress in New Delhi under IUPAB / UNESCO / ICSU Programme
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1998
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Grant from ICTP, Italy to attend
the Workshop on "Structure of biological macromolecules"
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1997
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CRDF Travel Grant #97093 to attend
the International Conference ANDM’97
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1996 -1997
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Post-graduate Soros Student
Fellowship, IRF (Switzerland-Ukraine)
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1995 -1998
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Full Merit Post-graduate
Scholarship, School of Radio Physics, Kharkov National University
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1994
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1st prize in the Young Scientist
Paper Contest, School of Radio Physics, Kharkov National University
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1990 -1995
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Full Merit Scholarship, School
of Radio Physics, Kharkov National University
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PROFESSIONAL
SERVICE
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Secretary of the School Scientific Council, School of
Radiophysics, V. Karazin Kharkov
National University, 1999-2000
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Local Organizing Committee Member, II Ukrainian
Biophysical Society Congress, Kharkov, Ukraine, 1999
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Local Organizing Committee Member, International
Conference on Mathematical Methods in the Electromagnetic Theory, Kharkov,
Ukraine, 1998
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Paper reviewing for scientific journals (Biopolymers;
Bioinformatics; Proteins: Structure, Function, and Bioinformatics;
FEBS Letters)
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