Leonid A. Mirny Division of Health Sciences and Technology Massachusetts Institute of Technology Biography Publications Institution JoVE Articles Leonid A. Mirny has not added a biography. If you are Leonid A. Mirny and would like to personalize this page please email our Author Liaison for assistance. Publications High Order Chromatin Architecture Shapes the Landscape of Chromosomal Alterations in Cancer Nature Biotechnology. Dec, 2011 | Pubmed ID: 22101486 Bridging the Resolution Gap in Structural Modeling of 3D Genome Organization PLoS Computational Biology. Jul, 2011 | Pubmed ID: 21779160 Dancing on DNA: Kinetic Aspects of Search Processes on DNA Chemphyschem : a European Journal of Chemical Physics and Physical Chemistry. Jun, 2011 | Pubmed ID: 21560221 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. Jan, 2011 | Pubmed ID: 21274616 A Single-molecule Characterization of P53 Search on DNA Proceedings of the National Academy of Sciences of the United States of America. Jan, 2011 | Pubmed ID: 21178072 Nucleosome-mediated Cooperativity Between Transcription Factors Proceedings of the National Academy of Sciences of the United States of America. Dec, 2010 | Pubmed ID: 21149679 Quantitative Characterization of Filament Dynamics by Single-molecule Lifetime Measurements Methods in Cell Biology. 2010 | Pubmed ID: 20466154 A Stevedore's Protein Knot PLoS Computational Biology. Apr, 2010 | Pubmed ID: 20369018 Comprehensive Mapping of Long-range Interactions Reveals Folding Principles of the Human Genome Science (New York, N.Y.). Oct, 2009 | Pubmed ID: 19815776 Different Gene Regulation Strategies Revealed by Analysis of Binding Motifs Trends in Genetics : TIG. Oct, 2009 | Pubmed ID: 19815308 Using Genome-wide Measurements for Computational Prediction of SH2-peptide Interactions Nucleic Acids Research. Aug, 2009 | Pubmed ID: 19502496 Using Evolutionary Information to Find Specificity-determining and Co-evolving Residues Methods in Molecular Biology (Clifton, N.J.). 2009 | Pubmed ID: 19381538 Predicting Transcription Factor Specificity with All-atom Models Nucleic Acids Research. Nov, 2008 | Pubmed ID: 18829719 Spatial Effects on the Speed and Reliability of Protein-DNA Search Nucleic Acids Research. Jun, 2008 | Pubmed ID: 18453629 Tumor Suppressor P53 Slides on DNA with Low Friction and High Stability Biophysical Journal. Jul, 2008 | Pubmed ID: 18424488 Operating Regimes of Signaling Cycles: Statics, Dynamics, and Noise Filtering PLoS Computational Biology. Dec, 2007 | Pubmed ID: 18159939 How Gene Order is Influenced by the Biophysics of Transcription Regulation Proceedings of the National Academy of Sciences of the United States of America. Aug, 2007 | Pubmed ID: 17709750 Protein Knot Server: Detection of Knots in Protein Structures Nucleic Acids Research. Jul, 2007 | Pubmed ID: 17517776 Zfx Controls the Self-renewal of Embryonic and Hematopoietic Stem Cells Cell. Apr, 2007 | Pubmed ID: 17448993 Intricate Knots in Proteins: Function and Evolution PLoS Computational Biology. Sep, 2006 | Pubmed ID: 16978047 Using the Topology of Metabolic Networks to Predict Viability of Mutant Strains Biophysical Journal. Sep, 2006 | Pubmed ID: 16782788 A Metabolic Network in the Evolutionary Context: Multiscale Structure and Modularity Proceedings of the National Academy of Sciences of the United States of America. Jun, 2006 | Pubmed ID: 16731630 CoC: a Database of Universally Conserved Residues in Protein Folds Bioinformatics (Oxford, England). May, 2005 | Pubmed ID: 15746286 Kinetics of Protein-DNA Interaction: Facilitated Target Location in Sequence-dependent Potential Biophysical Journal. Dec, 2004 | Pubmed ID: 15465864 Diffusion in Correlated Random Potentials, with Applications to DNA Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. Jun, 2004 | Pubmed ID: 15244613 Protein Complexes and Functional Modules in Molecular Networks Proceedings of the National Academy of Sciences of the United States of America. Oct, 2003 | Pubmed ID: 14517352 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. Apr, 2003 | Pubmed ID: 12679523 Using Orthologous and Paralogous Proteins to Identify Specificity-determining Residues in Bacterial Transcription Factors Journal of Molecular Biology. Aug, 2002 | Pubmed ID: 12139929 Structural Analysis of Conserved Base Pairs in Protein-DNA Complexes Nucleic Acids Research. Apr, 2002 | Pubmed ID: 11917033 Using Orthologous and Paralogous Proteins to Identify Specificity Determining Residues Genome Biology. 2002 | Pubmed ID: 11897020 Hi-C: A Method to Study the Three-dimensional Architecture of Genomes. Nynke L. van Berkum*1, Erez Lieberman-Aiden*2,3,4,5, Louise Williams*2, Maxim Imakaev6, Andreas Gnirke2, Leonid A. Mirny3,6, Job Dekker1, Eric S. Lander2,7,8 1Program in Gene Function and Expression, Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, 2Broad Institute of Harvard and Massachusetts Institute of Technology, 3Division of Health Sciences and Technology, Massachusetts Institute of Technology, 4Program for Evolutionary Dynamics, Department of Organismic and Evolutionary Biology, Department of Mathematics, Harvard University, 5Department of Applied Mathematics, Harvard University, 6Department of Physics, Massachusetts Institute of Technology, 7Department of Systems Biology, Harvard Medical School, 8Department of Biology, Massachusetts Institute of Technology JoVE 1869 Biologia
Hi-C: A Method to Study the Three-dimensional Architecture of Genomes. Nynke L. van Berkum*1, Erez Lieberman-Aiden*2,3,4,5, Louise Williams*2, Maxim Imakaev6, Andreas Gnirke2, Leonid A. Mirny3,6, Job Dekker1, Eric S. Lander2,7,8 1Program in Gene Function and Expression, Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, 2Broad Institute of Harvard and Massachusetts Institute of Technology, 3Division of Health Sciences and Technology, Massachusetts Institute of Technology, 4Program for Evolutionary Dynamics, Department of Organismic and Evolutionary Biology, Department of Mathematics, Harvard University, 5Department of Applied Mathematics, Harvard University, 6Department of Physics, Massachusetts Institute of Technology, 7Department of Systems Biology, Harvard Medical School, 8Department of Biology, Massachusetts Institute of Technology JoVE 1869 Biologia