Homepage of Michael Tolstorukov
Michael Y. Tolstorukov |
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e-mail: [email protected]; [email protected] – tel: + 1 (617) 643-6152 |
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Updated: 10 Feb 2013 |
EDUCATION
AREAS OF PROFESSIONAL INTERESTS AND EXPERTISE
PROFESSIONAL EXPERIENCE AND EMPLOYMENT HISTORY Department of Molecular Biology, Massachusetts General Hospital
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Titles: |
Departmental Fellow / Assistant in Molecular Biology (Department of Molecular Biology, MGH); Associate Geneticist (Brigham and Woman’s Hospital); Instructor in Medicine (Harvard Medical School) |
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Research: |
Leading a computational group that works in the fields of epigenomics and genome biology. |
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July 2007 – Sept 2012 |
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: |
Instructor in Medicine (since 09/2011); Postdoctoral Fellow (2007-2011, advisor Dr. P.J. Park) |
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Research: |
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 |
Department of Molecular and Applied Biophysics, V. Karazin Kharkov National University, Kharkov, Ukraine |
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Titles: |
Assistant Professor (1999-2007), Junior Research Scientist (1997-1999) |
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Research: |
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: |
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 |
Laboratory of Experimental and Computational Biology, National Cancer Institute, National Institutes of Health, Bethesda, MD |
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Titles: |
Post-doctoral Visiting Fellow |
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Research: |
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. |
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
2000 – 2005 |
Postdoctoral Visiting Fellow Award, NIH Visiting Program |
1999 |
Travel Fellowship to attend XIII Biophysical Congress in New Delhi under IUPAB / UNESCO / ICSU Programme |
1998 |
Grant from ICTP, Italy to attend the Workshop on “Structure of biological macromolecules” |
1997 |
CRDF Travel Grant #97093 to attend the International Conference ANDM’97 |
1996 -1997 |
Post-graduate Soros Student Fellowship, IRF (Switzerland-Ukraine) |
1995 -1998 |
Full Merit Post-graduate Scholarship, School of Radio Physics, Kharkov National University |
1994 |
1st prize in the Young Scientist Paper Contest, School of Radio Physics, Kharkov National University |
1990 -1995 |
Full Merit Scholarship, School of Radio Physics, Kharkov National University |
PROFESSIONAL SERVICE
· Secretary of the School Scientific Council, School of Radiophysics, V. Karazin Kharkov National University, 1999-2000
· Local Organizing Committee Member, II Ukrainian Biophysical Society Congress, Kharkov, Ukraine, 1999
· Local Organizing Committee Member, International Conference on Mathematical Methods in the Electromagnetic Theory, Kharkov, Ukraine, 1998
· Paper reviewing for scientific journals (Biopolymers; Bioinformatics; Proteins: Structure, Function, and Bioinformatics; FEBS Letters)