Leonid A. Mirny

Division of Health Sciences and Technology, Massachusetts Institute of Technology

Affiliated withMassachusetts Institute of Technology

Research Area

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JoVE Journal Publications

ArticleTotal : 1	Year
Publication title Cited by 504	2010

Other Publications

Article	Year
Using orthologous and paralogous proteins to identify specificity determining residues. Genome biology\| PubMed ID: 11897020	2002
Structural analysis of conserved base pairs in protein-DNA complexes. Nucleic acids research\| PubMed ID: 11917033	2002
Using orthologous and paralogous proteins to identify specificity-determining residues in bacterial transcription factors. Journal of molecular biology\| PubMed ID: 12139929	2002
Amino acids determining enzyme-substrate specificity in prokaryotic and eukaryotic protein kinases. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 12679523	2003
Protein complexes and functional modules in molecular networks. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 14517352	2003
Diffusion in correlated random potentials, with applications to DNA. Physical review. E, Statistical, nonlinear, and soft matter physics\| PubMed ID: 15244613	2004
Kinetics of protein-DNA interaction: facilitated target location in sequence-dependent potential. Biophysical journal\| PubMed ID: 15465864	2004
CoC: a database of universally conserved residues in protein folds. Bioinformatics (Oxford, England)\| PubMed ID: 15746286	2005
A metabolic network in the evolutionary context: multiscale structure and modularity. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 16731630	2006
Using the topology of metabolic networks to predict viability of mutant strains. Biophysical journal\| PubMed ID: 16782788	2006
Intricate knots in proteins: Function and evolution. PLoS computational biology\| PubMed ID: 16978047	2006
Zfx controls the self-renewal of embryonic and hematopoietic stem cells. Cell\| PubMed ID: 17448993	2007
Protein knot server: detection of knots in protein structures. Nucleic acids research\| PubMed ID: 17517776	2007
How gene order is influenced by the biophysics of transcription regulation. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 17709750	2007
Operating regimes of signaling cycles: statics, dynamics, and noise filtering. PLoS computational biology\| PubMed ID: 18159939	2007
Tumor suppressor p53 slides on DNA with low friction and high stability. Biophysical journal\| PubMed ID: 18424488	2008
Spatial effects on the speed and reliability of protein-DNA search. Nucleic acids research\| PubMed ID: 18453629	2008
Predicting transcription factor specificity with all-atom models. Nucleic acids research\| PubMed ID: 18829719	2008
Using evolutionary information to find specificity-determining and co-evolving residues. Methods in molecular biology (Clifton, N.J.)\| PubMed ID: 19381538	2009
Using genome-wide measurements for computational prediction of SH2-peptide interactions. Nucleic acids research\| PubMed ID: 19502496	2009
Different gene regulation strategies revealed by analysis of binding motifs. Trends in genetics : TIG\| PubMed ID: 19815308	2009
Comprehensive mapping of long-range interactions reveals folding principles of the human genome. Science (New York, N.Y.)\| PubMed ID: 19815776	2009
A Stevedore's protein knot. PLoS computational biology\| PubMed ID: 20369018	2010
Quantitative characterization of filament dynamics by single-molecule lifetime measurements. Methods in cell biology\| PubMed ID: 20466154	2010
Nucleosome-mediated cooperativity between transcription factors. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 21149679	2010
A single-molecule characterization of p53 search on DNA. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 21178072	2011
The fractal globule as a model of chromatin architecture in the cell. Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology\| PubMed ID: 21274616	2011
Dancing on DNA: kinetic aspects of search processes on DNA. Chemphyschem : a European journal of chemical physics and physical chemistry\| PubMed ID: 21560221	2011
Bridging the resolution gap in structural modeling of 3D genome organization. PLoS computational biology\| PubMed ID: 21779160	2011
High order chromatin architecture shapes the landscape of chromosomal alterations in cancer. Nature biotechnology\| PubMed ID: 22101486	2011