Leonid A. Mirny - Publications

Affiliations: 
Medical Engineering and Sciences Massachusetts Institute of Technology, Cambridge, MA, United States 
Area:
Population genetics and evolutionary theory; Polymer physics theory and simulation; Statistical interpretation of genome-wide data
Website:
http://www.fas.harvard.edu/~biophys/Leonid_Mirny.htm

93 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 AlHaj Abed J, Erceg J, Goloborodko A, Nguyen SC, McCole RB, Saylor W, Fudenberg G, Lajoie BR, Dekker J, Mirny LA, Wu CT. Highly structured homolog pairing reflects functional organization of the Drosophila genome. Nature Communications. 10: 4485. PMID 31582763 DOI: 10.1038/s41467-019-12208-3  0.6
2019 Erceg J, AlHaj Abed J, Goloborodko A, Lajoie BR, Fudenberg G, Abdennur N, Imakaev M, McCole RB, Nguyen SC, Saylor W, Joyce EF, Senaratne TN, Hannan MA, Nir G, Dekker J, ... Mirny LA, et al. The genome-wide multi-layered architecture of chromosome pairing in early Drosophila embryos. Nature Communications. 10: 4486. PMID 31582744 DOI: 10.1038/s41467-019-12211-8  0.6
2019 Falk M, Feodorova Y, Naumova N, Imakaev M, Lajoie BR, Leonhardt H, Joffe B, Dekker J, Fudenberg G, Solovei I, Mirny LA. Publisher Correction: Heterochromatin drives compartmentalization of inverted and conventional nuclei. Nature. PMID 31375785 DOI: 10.1038/s41586-019-1454-2  0.6
2019 Mirny LA, Imakaev M, Abdennur N. Two major mechanisms of chromosome organization. Current Opinion in Cell Biology. 58: 142-152. PMID 31228682 DOI: 10.1016/j.ceb.2019.05.001  0.6
2019 Falk M, Feodorova Y, Naumova N, Imakaev M, Lajoie BR, Leonhardt H, Joffe B, Dekker J, Fudenberg G, Solovei I, Mirny LA. Heterochromatin drives compartmentalization of inverted and conventional nuclei. Nature. PMID 31168090 DOI: 10.1038/s41586-019-1275-3  0.6
2018 Metkar M, Ozadam H, Lajoie BR, Imakaev M, Mirny LA, Dekker J, Moore MJ. Higher-Order Organization Principles of Pre-translational mRNPs. Molecular Cell. 72: 715-726.e3. PMID 30415953 DOI: 10.1016/j.molcel.2018.09.012  0.6
2018 Kerpedjiev P, Abdennur N, Lekschas F, McCallum C, Dinkla K, Strobelt H, Luber JM, Ouellette SB, Azhir A, Kumar N, Hwang J, Lee S, Alver BH, Pfister H, Mirny LA, et al. HiGlass: web-based visual exploration and analysis of genome interaction maps. Genome Biology. 19: 125. PMID 30143029 DOI: 10.1186/s13059-018-1486-1  0.6
2018 Nuebler J, Fudenberg G, Imakaev M, Abdennur N, Mirny LA. Chromatin organization by an interplay of loop extrusion and compartmental segregation. Proceedings of the National Academy of Sciences of the United States of America. PMID 29967174 DOI: 10.1073/pnas.1717730115  0.6
2018 Fudenberg G, Abdennur N, Imakaev M, Goloborodko A, Mirny LA. Emerging Evidence of Chromosome Folding by Loop Extrusion. Cold Spring Harbor Symposia On Quantitative Biology. PMID 29728444 DOI: 10.1101/sqb.2017.82.034710  0.6
2018 Gibcus JH, Samejima K, Goloborodko A, Samejima I, Naumova N, Nuebler J, Kanemaki MT, Xie L, Paulson JR, Earnshaw WC, Mirny LA, Dekker J. A pathway for mitotic chromosome formation. Science (New York, N.Y.). PMID 29348367 DOI: 10.1126/science.aao6135  0.6
2017 Gassler J, Brandão HB, Imakaev M, Flyamer IM, Ladstätter S, Bickmore WA, Peters JM, Mirny LA, Tachibana K. A mechanism of cohesin-dependent loop extrusion organizes zygotic genome architecture. The Embo Journal. 36: 3600-3618. PMID 29217590 DOI: 10.15252/embj.201798083  0.6
2017 Gassler J, Brandão HB, Imakaev M, Flyamer IM, Ladstätter S, Bickmore WA, Peters JM, Mirny LA, Tachibana K. A mechanism of cohesin-dependent loop extrusion organizes zygotic genome architecture. The Embo Journal. 36: 3600-3618. PMID 29217590 DOI: 10.15252/embj.201798083  0.6
2017 Dekker J, Belmont AS, Guttman M, Leshyk VO, Lis JT, Lomvardas S, Mirny LA, O'Shea CC, Park PJ, Ren B, Politz JCR, Shendure J, Zhong S. Corrigendum: The 4D nucleome project. Nature. PMID 29168505 DOI: 10.1038/nature24667  0.36
2017 Dekker J, Belmont AS, Guttman M, Leshyk VO, Lis JT, Lomvardas S, Mirny LA, O'Shea CC, Park PJ, Ren B, Politz JCR, Shendure J, Zhong S. The 4D nucleome project. Nature. 549: 219-226. PMID 28905911 DOI: 10.1038/nature23884  0.36
2017 Nora EP, Goloborodko A, Valton AL, Gibcus JH, Uebersohn A, Abdennur N, Dekker J, Mirny LA, Bruneau BG. Targeted Degradation of CTCF Decouples Local Insulation of Chromosome Domains from Genomic Compartmentalization. Cell. 169: 930-944.e22. PMID 28525758 DOI: 10.1016/j.cell.2017.05.004  0.6
2017 Flyamer IM, Gassler J, Imakaev M, Brandão HB, Ulianov SV, Abdennur N, Razin SV, Mirny LA, Tachibana-Konwalski K. Single-nucleus Hi-C reveals unique chromatin reorganization at oocyte-to-zygote transition. Nature. PMID 28355183 DOI: 10.1038/nature21711  0.6
2016 Sawai CM, Babovic S, Upadhaya S, Knapp DJ, Lavin Y, Lau CM, Goloborodko A, Feng J, Fujisaki J, Ding L, Mirny LA, Merad M, Eaves CJ, Reizis B. Hematopoietic Stem Cells Are the Major Source of Multilineage Hematopoiesis in Adult Animals. Immunity. PMID 27590115 DOI: 10.1016/j.immuni.2016.08.007  0.6
2016 Goloborodko A, Marko JF, Mirny LA. Chromosome Compaction by Active Loop Extrusion. Biophysical Journal. 110: 2162-2168. PMID 27224481 DOI: 10.1016/j.bpj.2016.02.041  0.6
2016 Fudenberg G, Imakaev M, Lu C, Goloborodko A, Abdennur N, Mirny LA. Formation of Chromosomal Domains by Loop Extrusion. Cell Reports. PMID 27210764 DOI: 10.1016/j.celrep.2016.04.085  0.6
2016 Khrameeva EE, Fudenberg G, Gelfand MS, Mirny LA. History of chromosome rearrangements reflects the spatial organization of yeast chromosomes. Journal of Bioinformatics and Computational Biology. 1641002. PMID 27021249 DOI: 10.1142/S021972001641002X  0.6
2016 Wang F, Kaplan JL, Gold BD, Bhasin MK, Ward NL, Kellermayer R, Kirschner BS, Heyman MB, Dowd SE, Cox SB, Dogan H, Steven B, Ferry GD, Cohen SA, Baldassano RN, ... ... Mirny LA, et al. Detecting Microbial Dysbiosis Associated with Pediatric Crohn Disease Despite the High Variability of the Gut Microbiota. Cell Reports. PMID 26804920 DOI: 10.1016/j.celrep.2015.12.088  0.68
2016 Boettiger AN, Bintu B, Moffitt JR, Wang S, Beliveau BJ, Fudenberg G, Imakaev M, Mirny LA, Wu CT, Zhuang X. Super-resolution imaging reveals distinct chromatin folding for different epigenetic states. Nature. PMID 26760202 DOI: 10.1038/nature16496  0.6
2015 Kind J, Pagie L, de Vries SS, Nahidiazar L, Dey SS, Bienko M, Zhan Y, Lajoie B, de Graaf CA, Amendola M, Fudenberg G, Imakaev M, Mirny LA, Jalink K, Dekker J, et al. Genome-wide Maps of Nuclear Lamina Interactions in Single Human Cells. Cell. 163: 134-47. PMID 26365489 DOI: 10.1016/j.cell.2015.08.040  0.6
2015 Imakaev MV, Fudenberg G, Mirny LA. Modeling chromosomes: Beyond pretty pictures. Febs Letters. 589: 3031-6. PMID 26364723 DOI: 10.1016/j.febslet.2015.09.004  1
2015 Imakaev MV, Tchourine KM, Nechaev SK, Mirny LA. Effects of topological constraints on globular polymers. Soft Matter. 11: 665-71. PMID 25472862 DOI: 10.1039/c4sm02099e  1
2015 Kind J, Pagie L, deVries SS, Nahidiazar L, Dey SS, Bienko M, Zhan Y, Lajoie B, deGraaf CA, Amendola M, Fudenberg G, Imakaev M, Mirny LA, Jalink K, Dekker J, et al. Genome-wide Maps of Nuclear Lamina Interactions in Single Human Cells Cell. DOI: 10.1016/j.cell.2015.08.040  1
2014 Doyle B, Fudenberg G, Imakaev M, Mirny LA. Chromatin loops as allosteric modulators of enhancer-promoter interactions. Plos Computational Biology. 10: e1003867. PMID 25340767 DOI: 10.1371/journal.pcbi.1003867  1
2014 Mizuguchi T, Fudenberg G, Mehta S, Belton JM, Taneja N, Folco HD, FitzGerald P, Dekker J, Mirny L, Barrowman J, Grewal SI. Cohesin-dependent globules and heterochromatin shape 3D genome architecture in S. pombe. Nature. 516: 432-5. PMID 25307058 DOI: 10.1038/nature13833  1
2014 McFarland CD, Mirny LA, Korolev KS. Tug-of-war between driver and passenger mutations in cancer and other adaptive processes. Proceedings of the National Academy of Sciences of the United States of America. 111: 15138-43. PMID 25277973 DOI: 10.1073/pnas.1404341111  1
2014 Yaglom JA, McFarland C, Mirny L, Sherman MY. Oncogene-triggered suppression of DNA repair leads to DNA instability in cancer. Oncotarget. 5: 8367-78. PMID 25252808  1
2014 Weisberg SP, Smith-Raska MR, Esquilin JM, Zhang J, Arenzana TL, Lau CM, Churchill M, Pan H, Klinakis A, Dixon JE, Mirny LA, Mukherjee S, Reizis B. ZFX controls propagation and prevents differentiation of acute T-lymphoblastic and myeloid leukemia. Cell Reports. 6: 528-40. PMID 24485662 DOI: 10.1016/j.celrep.2014.01.007  1
2013 Naumova N, Imakaev M, Fudenberg G, Zhan Y, Lajoie BR, Mirny LA, Dekker J. Organization of the mitotic chromosome. Science (New York, N.Y.). 342: 948-53. PMID 24200812 DOI: 10.1126/science.1236083  1
2013 Le TB, Imakaev MV, Mirny LA, Laub MT. High-resolution mapping of the spatial organization of a bacterial chromosome. Science (New York, N.Y.). 342: 731-4. PMID 24158908 DOI: 10.1126/science.1242059  1
2013 Dekker J, Mirny L. Biological techniques: Chromosomes captured one by one Nature. 502: 45-46. PMID 24067607 DOI: 10.1038/nature12691  1
2013 Dekker J, Marti-Renom MA, Mirny LA. Exploring the three-dimensional organization of genomes: interpreting chromatin interaction data. Nature Reviews. Genetics. 14: 390-403. PMID 23657480 DOI: 10.1038/nrg3454  1
2013 McFarland CD, Korolev KS, Kryukov GV, Sunyaev SR, Mirny LA. Impact of deleterious passenger mutations on cancer progression. Proceedings of the National Academy of Sciences of the United States of America. 110: 2910-5. PMID 23388632 DOI: 10.1073/pnas.1213968110  1
2012 Engreitz JM, Agarwala V, Mirny LA. Three-dimensional genome architecture influences partner selection for chromosomal translocations in human disease. Plos One. 7: e44196. PMID 23028501 DOI: 10.1371/journal.pone.0044196  1
2012 Leith JS, Tafvizi A, Huang F, Uspal WE, Doyle PS, Fersht AR, Mirny LA, van Oijen AM. Sequence-dependent sliding kinetics of p53. Proceedings of the National Academy of Sciences of the United States of America. 109: 16552-7. PMID 23012405 DOI: 10.1073/pnas.1120452109  1
2012 Imakaev M, Fudenberg G, McCord RP, Naumova N, Goloborodko A, Lajoie BR, Dekker J, Mirny LA. Iterative correction of Hi-C data reveals hallmarks of chromosome organization. Nature Methods. 9: 999-1003. PMID 22941365 DOI: 10.1038/nmeth.2148  1
2012 Fudenberg G, Mirny LA. Higher-order chromatin structure: bridging physics and biology. Current Opinion in Genetics & Development. 22: 115-24. PMID 22360992 DOI: 10.1016/j.gde.2012.01.006  1
2011 Fudenberg G, Getz G, Meyerson M, Mirny LA. High order chromatin architecture shapes the landscape of chromosomal alterations in cancer. Nature Biotechnology. 29: 1109-13. PMID 22101486 DOI: 10.1038/nbt.2049  1
2011 Marti-Renom MA, Mirny LA. Bridging the resolution gap in structural modeling of 3D genome organization. Plos Computational Biology. 7: e1002125. PMID 21779160 DOI: 10.1371/journal.pcbi.1002125  1
2011 Tafvizi A, Mirny LA, van Oijen AM. Dancing on DNA: kinetic aspects of search processes on DNA. Chemphyschem : a European Journal of Chemical Physics and Physical Chemistry. 12: 1481-9. PMID 21560221 DOI: 10.1002/cphc.201100112  1
2011 Mirny LA. 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. 19: 37-51. PMID 21274616 DOI: 10.1007/s10577-010-9177-0  1
2011 Tafvizi A, Huang F, Fersht AR, Mirny LA, van Oijen AM. A single-molecule characterization of p53 search on DNA. Proceedings of the National Academy of Sciences of the United States of America. 108: 563-8. PMID 21178072 DOI: 10.1073/pnas.1016020107  1
2011 Reith D, Mirny L, Virnau P. GPU based molecular dynamics simulations of polymer rings in concentrated solution: Structure and scaling Progress of Theoretical Physics Supplement. 135-145.  1
2010 Mirny LA. Nucleosome-mediated cooperativity between transcription factors. Proceedings of the National Academy of Sciences of the United States of America. 107: 22534-9. PMID 21149679 DOI: 10.1073/pnas.0913805107  1
2010 Mirny LA, Needleman DJ. Quantitative characterization of filament dynamics by single-molecule lifetime measurements. Methods in Cell Biology. 95: 583-600. PMID 20466154 DOI: 10.1016/S0091-679X(10)95029-2  1
2010 van Berkum NL, Lieberman-Aiden E, Williams L, Imakaev M, Gnirke A, Mirny LA, Dekker J, Lander ES. Hi-C: a method to study the three-dimensional architecture of genomes. Journal of Visualized Experiments : Jove. PMID 20461051 DOI: 10.3791/1869  1
2010 Bölinger D, Su?kowska JI, Hsu HP, Mirny LA, Kardar M, Onuchic JN, Virnau P. A Stevedore's protein knot. Plos Computational Biology. 6: e1000731. PMID 20369018 DOI: 10.1371/journal.pcbi.1000731  1
2010 Needleman DJ, Groen A, Ohi R, Maresca T, Mirny L, Mitchison T. Fast microtubule dynamics in meiotic spindles measured by single molecule imaging: evidence that the spindle environment does not stabilize microtubules. Molecular Biology of the Cell. 21: 323-33. PMID 19940016 DOI: 10.1091/mbc.E09-09-0816  1
2009 Lieberman-Aiden E, van Berkum NL, Williams L, Imakaev M, Ragoczy T, Telling A, Amit I, Lajoie BR, Sabo PJ, Dorschner MO, Sandstrom R, Bernstein B, Bender MA, Groudine M, Gnirke A, ... ... Mirny LA, et al. Comprehensive mapping of long-range interactions reveals folding principles of the human genome. Science (New York, N.Y.). 326: 289-93. PMID 19815776 DOI: 10.1126/science.1181369  1
2009 Wunderlich Z, Mirny LA. Different gene regulation strategies revealed by analysis of binding motifs. Trends in Genetics : Tig. 25: 434-40. PMID 19815308 DOI: 10.1016/j.tig.2009.08.003  1
2009 Wunderlich Z, Mirny LA. Using genome-wide measurements for computational prediction of SH2-peptide interactions. Nucleic Acids Research. 37: 4629-41. PMID 19502496 DOI: 10.1093/nar/gkp394  1
2009 Kolesov G, Mirny LA. Using evolutionary information to find specificity-determining and co-evolving residues. Methods in Molecular Biology (Clifton, N.J.). 541: 421-48. PMID 19381538 DOI: 10.1007/978-1-59745-243-4_18  1
2009 Mirny L, Slutsky M, Wunderlich Z, Tafvizi A, Leith J, Kosmrlj A. How a protein searches for its site on DNA: The mechanism of facilitated diffusion Journal of Physics a: Mathematical and Theoretical. 42. DOI: 10.1088/1751-8113/42/43/434013  1
2008 Jamal Rahi S, Virnau P, Mirny LA, Kardar M. Predicting transcription factor specificity with all-atom models. Nucleic Acids Research. 36: 6209-17. PMID 18829719 DOI: 10.1093/nar/gkn589  1
2008 Wunderlich Z, Mirny LA. Spatial effects on the speed and reliability of protein-DNA search. Nucleic Acids Research. 36: 3570-8. PMID 18453629 DOI: 10.1093/nar/gkn173  1
2008 Tafvizi A, Huang F, Leith JS, Fersht AR, Mirny LA, van Oijen AM. Tumor suppressor p53 slides on DNA with low friction and high stability. Biophysical Journal. 95: L01-3. PMID 18424488 DOI: 10.1529/biophysj.108.134122  1
2008 Mirny L. Biophysics: Cell commuters avoid delays Nature Physics. 4: 93-95. DOI: 10.1038/nphys848  1
2007 Gomez-Uribe C, Verghese GC, Mirny LA. Operating regimes of signaling cycles: statics, dynamics, and noise filtering. Plos Computational Biology. 3: e246. PMID 18159939 DOI: 10.1371/journal.pcbi.0030246  1
2007 Kolesov G, Wunderlich Z, Laikova ON, Gelfand MS, Mirny LA. How gene order is influenced by the biophysics of transcription regulation. Proceedings of the National Academy of Sciences of the United States of America. 104: 13948-53. PMID 17709750 DOI: 10.1073/pnas.0700672104  1
2007 Kolesov G, Virnau P, Kardar M, Mirny LA. Protein knot server: detection of knots in protein structures. Nucleic Acids Research. 35: W425-8. PMID 17517776 DOI: 10.1093/nar/gkm312  1
2007 Galan-Caridad JM, Harel S, Arenzana TL, Hou ZE, Doetsch FK, Mirny LA, Reizis B. Zfx controls the self-renewal of embryonic and hematopoietic stem cells. Cell. 129: 345-57. PMID 17448993 DOI: 10.1016/j.cell.2007.03.014  1
2007 Levine J, Kueh HY, Mirny L. Intrinsic fluctuations, robustness, and tunability in signaling cycles. Biophysical Journal. 92: 4473-81. PMID 17400695 DOI: 10.1529/biophysj.106.088856  1
2006 Virnau P, Mirny LA, Kardar M. Intricate knots in proteins: Function and evolution. Plos Computational Biology. 2: e122. PMID 16978047 DOI: 10.1371/journal.pcbi.0020122  1
2006 Wunderlich Z, Mirny LA. Using the topology of metabolic networks to predict viability of mutant strains. Biophysical Journal. 91: 2304-11. PMID 16782788 DOI: 10.1529/biophysj.105.080572  1
2006 Spirin V, Gelfand MS, Mironov AA, Mirny LA. A metabolic network in the evolutionary context: multiscale structure and modularity. Proceedings of the National Academy of Sciences of the United States of America. 103: 8774-9. PMID 16731630 DOI: 10.1073/pnas.0510258103  1
2005 Donald JE, Hubner IA, Rotemberg VM, Shakhnovich EI, Mirny LA. CoC: a database of universally conserved residues in protein folds. Bioinformatics (Oxford, England). 21: 2539-40. PMID 15746286 DOI: 10.1093/bioinformatics/bti360  1
2004 Slutsky M, Mirny LA. Kinetics of protein-DNA interaction: facilitated target location in sequence-dependent potential. Biophysical Journal. 87: 4021-35. PMID 15465864 DOI: 10.1529/biophysj.104.050765  1
2004 Slutsky M, Kardar M, Mirny LA. Diffusion in correlated random potentials, with applications to DNA. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 69: 061903. PMID 15244613 DOI: 10.1103/PhysRevE.69.061903  1
2003 Spirin V, Mirny LA. Protein complexes and functional modules in molecular networks. Proceedings of the National Academy of Sciences of the United States of America. 100: 12123-8. PMID 14517352 DOI: 10.1073/pnas.2032324100  1
2003 Chen W, Mirny L, Shakhnovich EI. Fold recognition with minimal gaps. Proteins. 51: 531-43. PMID 12784212 DOI: 10.1002/prot.10402  1
2003 Li L, Shakhnovich EI, Mirny LA. 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. 100: 4463-8. PMID 12679523 DOI: 10.1073/pnas.0737647100  1
2002 Ekins S, Mirny L, Schuetz EG. A ligand-based approach to understanding selectivity of nuclear hormone receptors PXR, CAR, FXR, LXRα, and LXRβ Pharmaceutical Research. 19: 1788-1800. PMID 12523656 DOI: 10.1023/A:1021429105173  1
2002 Mirny LA, Gelfand MS. Using orthologous and paralogous proteins to identify specificity-determining residues in bacterial transcription factors. Journal of Molecular Biology. 321: 7-20. PMID 12139929 DOI: 10.1016/S0022-2836(02)00587-9  1
2002 Mirny LA, Gelfand MS. Structural analysis of conserved base pairs in protein-DNA complexes. Nucleic Acids Research. 30: 1704-11. PMID 11917033  1
2002 Mirny LA, Gelfand MS. Using orthologous and paralogous proteins to identify specificity determining residues. Genome Biology. 3: PREPRINT0002. PMID 11897020  1
2002 Dokholyan NV, Mirny LA, Shakhnovich EI. Understanding conserved amino acids in proteins Physica a: Statistical Mechanics and Its Applications. 314: 600-606. DOI: 10.1016/S0378-4371(02)01079-8  1
2001 Mirny L, Shakhnovich E. Protein folding theory: From lattice to all-atom models Annual Review of Biophysics and Biomolecular Structure. 30: 361-396. PMID 11340064 DOI: 10.1146/annurev.biophys.30.1.361  1
2001 Mirny L, Shakhnovich E. Evolutionary conservation of the folding nucleus Journal of Molecular Biology. 308: 123-129. PMID 11327757 DOI: 10.1006/jmbi.2001.4602  1
2000 Vendruscolo M, Mirny LA, Shakhnovich EI, Domany E. Comparison of two optimization methods to derive energy parameters for protein folding: perceptron and Z score. Proteins. 41: 192-201. PMID 10966572 DOI: 10.1002/1097-0134(20001101)41:2<192::AID-PROT40>3.0.CO;2-3  1
2000 Mirny LA, Finkelstein AV, Shakhnovich EI. Statistical significance of protein structure prediction by threading. Proceedings of the National Academy of Sciences of the United States of America. 97: 9978-83. PMID 10954732 DOI: 10.1073/pnas.160271197  1
2000 Li L, Mirny LA, Shakhnovich EI. Kinetics, thermodynamics and evolution of non-native interactions in a protein folding nucleus. Nature Structural Biology. 7: 336-42. PMID 10742180 DOI: 10.1038/74111  1
1999 Mirny LA, Shakhnovich EI. Universally conserved positions in protein folds: reading evolutionary signals about stability, folding kinetics and function. Journal of Molecular Biology. 291: 177-96. PMID 10438614 DOI: 10.1006/jmbi.1999.2911  1
1999 Finkelstein AV, Rykunov DS, Lobanov MY, Badretdinov AY, Reva BA, Skolnick J, Mirny LA, Shakhnovich EI. When and how the homologs can overcome errors in the energy estimates and make the 3D structure prediction possible Biofizika. 44: 990-991.  1
1998 Mirny LA, Shakhnovich EI. Protein structure prediction by threading. Why it works and why it does not. Journal of Molecular Biology. 283: 507-26. PMID 9769221 DOI: 10.1006/jmbi.1998.2092  1
1998 Mirny LA, Abkevich VI, Shakhnovich EI. How evolution makes proteins fold quickly. Proceedings of the National Academy of Sciences of the United States of America. 95: 4976-81. PMID 9560213 DOI: 10.1073/pnas.95.9.4976  1
1996 Mirny LA, Abkevich V, Shakhnovich EI. Universality and diversity of the protein folding scenarios: a comprehensive analysis with the aid of a lattice model. Folding & Design. 1: 103-16. PMID 9079370 DOI: 10.1016/S1359-0278(96)00019-3  1
1996 Mirny LA, Shakhnovich EI. How to derive a protein folding potential? A new approach to an old problem. Journal of Molecular Biology. 264: 1164-79. PMID 9000638 DOI: 10.1006/jmbi.1996.0704  1
1996 Mirny L, Domany E. Protein fold recognition and dynamics in the space of contact maps Proteins: Structure, Function and Genetics. 26: 391-410. PMID 8990495 DOI: 10.1002/(SICI)1097-0134(199612)26:4<391::AID-PROT3>3.0.CO;2-F  1
1996 Shlyakhter A, Mirny L, Vlasov A, Wilson R. Monte Carlo modeling of epidemiological studies Human and Ecological Risk Assessment (Hera). 2: 920-938.  1
1995 Alon RN, Mirny L, Sussman JL, Gutnick DL. Detection of α/β-hydrolase fold in the cell surface esterases of Acinetobacter species using an analysis of 3D profiles Febs Letters. 371: 231-235. PMID 7556598 DOI: 10.1016/0014-5793(95)00861-3  1
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