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[Comparison of Atherosclerotic Lesions in Patients With Acute Myocardial Infarction and Stable Angina Pectoris Using Intravascular Ultrasound].

Kardiologiia

Tagieva NR, Shakhnovich RM, Mironov VM, Yezhov MV, Matchin YG, Mitroshkin MG, Safarova MS, Shitov VN, Ruda MY.
PMID: 28294910
Kardiologiia. 2015 Jul;55(7):5-13.

No abstract available.

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Tagieva NR, Shakhnovich RM, Mironov VM, et al. [Comparison of Atherosclerotic Lesions in Patients With Acute Myocardial Infarction and Stable Angina Pectoris Using Intravascular Ultrasound]. Kardiologiia. 2015;55(7):5-13
Tagieva, N. R., Shakhnovich, R. M., Mironov, V. M., Yezhov, M. V., Matchin, Y. G., Mitroshkin, M. G., Safarova, M. S., Shitov, V. N., & Ruda, M. Y. (2015). [Comparison of Atherosclerotic Lesions in Patients With Acute Myocardial Infarction and Stable Angina Pectoris Using Intravascular Ultrasound]. Kardiologiia, 55(7), 5-13.
Tagieva, N R, et al. "[Comparison of Atherosclerotic Lesions in Patients With Acute Myocardial Infarction and Stable Angina Pectoris Using Intravascular Ultrasound]." Kardiologiia vol. 55,7 (2015): 5-13.
Tagieva NR, Shakhnovich RM, Mironov VM, Yezhov MV, Matchin YG, Mitroshkin MG, Safarova MS, Shitov VN, Ruda MY. [Comparison of Atherosclerotic Lesions in Patients With Acute Myocardial Infarction and Stable Angina Pectoris Using Intravascular Ultrasound]. Kardiologiia. 2015 Jul;55(7):5-13. Russian. PMID: 28294910.
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Exploring the Mutational Robustness of Nucleic Acids by Searching Genotype Neighborhoods in Sequence Space.

The journal of physical chemistry letters

Zhou Q, Sun X, Xia X, Fan Z, Luo Z, Zhao S, Shakhnovich E, Liang H.
PMID: 28045264
J Phys Chem Lett. 2017 Jan 19;8(2):407-414. doi: 10.1021/acs.jpclett.6b02769. Epub 2017 Jan 05.

To assess the mutational robustness of nucleic acids, many genome- and protein-level studies have been performed, where nucleic acids are treated as genetic information carriers and transferrers. However, the molecular mechanisms through which mutations alter the structural, dynamic, and...

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Zhou Q, Sun X, Xia X, et al. Exploring the Mutational Robustness of Nucleic Acids by Searching Genotype Neighborhoods in Sequence Space. J Phys Chem Lett. 2017;8(2):407-414doi: 10.1021/acs.jpclett.6b02769.
Zhou, Q., Sun, X., Xia, X., Fan, Z., Luo, Z., Zhao, S., Shakhnovich, E., & Liang, H. (2017). Exploring the Mutational Robustness of Nucleic Acids by Searching Genotype Neighborhoods in Sequence Space. The journal of physical chemistry letters, 8(2), 407-414. https://doi.org/10.1021/acs.jpclett.6b02769
Zhou, Qingtong, et al. "Exploring the Mutational Robustness of Nucleic Acids by Searching Genotype Neighborhoods in Sequence Space." The journal of physical chemistry letters vol. 8,2 (2017): 407-414. doi: https://doi.org/10.1021/acs.jpclett.6b02769
Zhou Q, Sun X, Xia X, Fan Z, Luo Z, Zhao S, Shakhnovich E, Liang H. Exploring the Mutational Robustness of Nucleic Acids by Searching Genotype Neighborhoods in Sequence Space. J Phys Chem Lett. 2017 Jan 19;8(2):407-414. doi: 10.1021/acs.jpclett.6b02769. Epub 2017 Jan 05. PMID: 28045264.
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Graph's Topology and Free Energy of a Spin Model on the Graph.

Physical review letters

Choi JM, Gilson AI, Shakhnovich EI.
PMID: 28282198
Phys Rev Lett. 2017 Feb 24;118(8):088302. doi: 10.1103/PhysRevLett.118.088302. Epub 2017 Feb 24.

In this Letter we investigate a direct relationship between a graph's topology and the free energy of a spin system on the graph. We develop a method of separating topological and energetic contributions to the free energy, and find...

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Choi JM, Gilson AI, Shakhnovich EI. Graph's Topology and Free Energy of a Spin Model on the Graph. Phys Rev Lett. 2017;118(8):088302doi: 10.1103/PhysRevLett.118.088302.
Choi, J. M., Gilson, A. I., & Shakhnovich, E. I. (2017). Graph's Topology and Free Energy of a Spin Model on the Graph. Physical review letters, 118(8), 088302. https://doi.org/10.1103/PhysRevLett.118.088302
Choi, Jeong-Mo, et al. "Graph's Topology and Free Energy of a Spin Model on the Graph." Physical review letters vol. 118,8 (2017): 088302. doi: https://doi.org/10.1103/PhysRevLett.118.088302
Choi JM, Gilson AI, Shakhnovich EI. Graph's Topology and Free Energy of a Spin Model on the Graph. Phys Rev Lett. 2017 Feb 24;118(8):088302. doi: 10.1103/PhysRevLett.118.088302. Epub 2017 Feb 24. PMID: 28282198; PMCID: PMC5668130.
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The evolution dynamics of model proteins.

The Journal of chemical physics

Tiana G, Dokholyan NV, Broglia RA, Shakhnovich EI.
PMID: 15260793
J Chem Phys. 2004 Aug 01;121(5):2381-9. doi: 10.1063/1.1768513.

Explicit simulations of protein evolution, where protein chains are described at a molecular, although simplified, level provide important information to understand the similarities found to exist between known proteins. The results of such simulations suggest that a number of...

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Tiana G, Dokholyan NV, Broglia RA, et al. The evolution dynamics of model proteins. J Chem Phys. 2004;121(5):2381-9doi: 10.1063/1.1768513.
Tiana, G., Dokholyan, N. V., Broglia, R. A., & Shakhnovich, E. I. (2004). The evolution dynamics of model proteins. The Journal of chemical physics, 121(5), 2381-9. https://doi.org/10.1063/1.1768513
Tiana, Guido, et al. "The evolution dynamics of model proteins." The Journal of chemical physics vol. 121,5 (2004): 2381-9. doi: https://doi.org/10.1063/1.1768513
Tiana G, Dokholyan NV, Broglia RA, Shakhnovich EI. The evolution dynamics of model proteins. J Chem Phys. 2004 Aug 01;121(5):2381-9. doi: 10.1063/1.1768513. PMID: 15260793.
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Improving the precision of the structure-function relationship by considering phylogenetic context.

PLoS computational biology

Shakhnovich BE.
PMID: 16103910
PLoS Comput Biol. 2005 Jun;1(1):e9. doi: 10.1371/journal.pcbi.0010009. Epub 2005 Jun 24.

Understanding the relationship between protein structure and function is one of the foremost challenges in post-genomic biology. Higher conservation of structure could, in principle, allow researchers to extend current limitations of annotation. However, despite significant research in the area,...

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Shakhnovich BE. Improving the precision of the structure-function relationship by considering phylogenetic context. PLoS Comput Biol. 2005;1(1):e9doi: 10.1371/journal.pcbi.0010009.
Shakhnovich, B. E. (2005). Improving the precision of the structure-function relationship by considering phylogenetic context. PLoS computational biology, 1(1), e9. https://doi.org/10.1371/journal.pcbi.0010009
Shakhnovich, Boris E. "Improving the precision of the structure-function relationship by considering phylogenetic context." PLoS computational biology vol. 1,1 (2005): e9. doi: https://doi.org/10.1371/journal.pcbi.0010009
Shakhnovich BE. Improving the precision of the structure-function relationship by considering phylogenetic context. PLoS Comput Biol. 2005 Jun;1(1):e9. doi: 10.1371/journal.pcbi.0010009. Epub 2005 Jun 24. PMID: 16103910; PMCID: PMC1183515.
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Frozen phases of random heteropolymers in disordered media.

Physical review letters

Bratko D, Chakraborty AK, Shakhnovich EI.
PMID: 10060535
Phys Rev Lett. 1996 Mar 11;76(11):1844-1847. doi: 10.1103/PhysRevLett.76.1844.

No abstract available.

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Bratko D, Chakraborty AK, Shakhnovich EI. Frozen phases of random heteropolymers in disordered media. Phys Rev Lett. 1996;76(11):1844-1847doi: 10.1103/PhysRevLett.76.1844.
Bratko, D., Chakraborty, A. K., & Shakhnovich, E. I. (1996). Frozen phases of random heteropolymers in disordered media. Physical review letters, 76(11), 1844-1847. https://doi.org/10.1103/PhysRevLett.76.1844
Bratko, et al. "Frozen phases of random heteropolymers in disordered media." Physical review letters vol. 76,11 (1996): 1844-1847. doi: https://doi.org/10.1103/PhysRevLett.76.1844
Bratko D, Chakraborty AK, Shakhnovich EI. Frozen phases of random heteropolymers in disordered media. Phys Rev Lett. 1996 Mar 11;76(11):1844-1847. doi: 10.1103/PhysRevLett.76.1844. PMID: 10060535.
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Precision Medicine for Relapsed Multiple Myeloma on the Basis of an Integrative Multiomics Approach.

JCO precision oncology

Laganà A, Beno I, Melnekoff D, Leshchenko V, Madduri D, Ramdas D, Sanchez L, Niglio S, Perumal D, Kidd BA, Miotto R, Shaknovich R, Chari A, Cho HJ, Barlogie B, Jagannath S, Dudley JT, Parekh S.
PMID: 30706044
JCO Precis Oncol. 2018;2018. doi: 10.1200/PO.18.00019. Epub 2018 Aug 08.

PURPOSE: Multiple myeloma (MM) is a malignancy of plasma cells, with a median survival of 6 years. Despite recent therapeutic advancements, relapse remains mostly inevitable, and the disease is fatal in the majority of patients. A major challenge in...

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Laganà A, Beno I, Melnekoff D, et al. Precision Medicine for Relapsed Multiple Myeloma on the Basis of an Integrative Multiomics Approach. JCO Precis Oncol. 2018;2018doi: 10.1200/PO.18.00019.
Laganà, A., Beno, I., Melnekoff, D., Leshchenko, V., Madduri, D., Ramdas, D., Sanchez, L., Niglio, S., Perumal, D., Kidd, B. A., Miotto, R., Shaknovich, R., Chari, A., Cho, H. J., Barlogie, B., Jagannath, S., Dudley, J. T., & Parekh, S. (2018). Precision Medicine for Relapsed Multiple Myeloma on the Basis of an Integrative Multiomics Approach. JCO precision oncology, 2018. https://doi.org/10.1200/PO.18.00019
Laganà, Alessandro, et al. "Precision Medicine for Relapsed Multiple Myeloma on the Basis of an Integrative Multiomics Approach." JCO precision oncology vol. 2018 (2018). doi: https://doi.org/10.1200/PO.18.00019
Laganà A, Beno I, Melnekoff D, Leshchenko V, Madduri D, Ramdas D, Sanchez L, Niglio S, Perumal D, Kidd BA, Miotto R, Shaknovich R, Chari A, Cho HJ, Barlogie B, Jagannath S, Dudley JT, Parekh S. Precision Medicine for Relapsed Multiple Myeloma on the Basis of an Integrative Multiomics Approach. JCO Precis Oncol. 2018;2018. doi: 10.1200/PO.18.00019. Epub 2018 Aug 08. PMID: 30706044; PMCID: PMC6350920.
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Gene Dosage Experiments in Enterobacteriaceae Using Arabinose-regulated Promoters.

Bio-protocol

Bhattacharyya S, Bershtein S, Shakhnovich EI.
PMID: 29170750
Bio Protoc. 2014 Jul 20;7(14). doi: 10.21769/BioProtoc.2396.

This protocol is used to assay the effect of protein over-expression on fitness of

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Bhattacharyya S, Bershtein S, Shakhnovich EI. Gene Dosage Experiments in Enterobacteriaceae Using Arabinose-regulated Promoters. Bio Protoc. 2014;7(14)doi: 10.21769/BioProtoc.2396.
Bhattacharyya, S., Bershtein, S., & Shakhnovich, E. I. (2014). Gene Dosage Experiments in Enterobacteriaceae Using Arabinose-regulated Promoters. Bio-protocol, 7(14), . https://doi.org/10.21769/BioProtoc.2396
Bhattacharyya, Sanchari, et al. "Gene Dosage Experiments in Enterobacteriaceae Using Arabinose-regulated Promoters." Bio-protocol vol. 7,14 (2014). doi: https://doi.org/10.21769/BioProtoc.2396
Bhattacharyya S, Bershtein S, Shakhnovich EI. Gene Dosage Experiments in Enterobacteriaceae Using Arabinose-regulated Promoters. Bio Protoc. 2014 Jul 20;7(14). doi: 10.21769/BioProtoc.2396. PMID: 29170750; PMCID: PMC5697766.
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Optimization of lag phase shapes the evolution of a bacterial enzyme.

Nature ecology & evolution

Adkar BV, Manhart M, Bhattacharyya S, Tian J, Musharbash M, Shakhnovich EI.
PMID: 28812634
Nat Ecol Evol. 2017 Apr 28;1(6):149. doi: 10.1038/s41559-017-0149.

Mutations provide the variation that drives evolution, yet their effects on fitness remain poorly understood. Here we explore how mutations in the essential enzyme adenylate kinase (Adk) of Escherichia coli affect multiple phases of population growth. We introduce a...

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Adkar BV, Manhart M, Bhattacharyya S, et al. Optimization of lag phase shapes the evolution of a bacterial enzyme. Nat Ecol Evol. 2017;1(6):149doi: 10.1038/s41559-017-0149.
Adkar, B. V., Manhart, M., Bhattacharyya, S., Tian, J., Musharbash, M., & Shakhnovich, E. I. (2017). Optimization of lag phase shapes the evolution of a bacterial enzyme. Nature ecology & evolution, 1(6), 149. https://doi.org/10.1038/s41559-017-0149
Adkar, Bharat V, et al. "Optimization of lag phase shapes the evolution of a bacterial enzyme." Nature ecology & evolution vol. 1,6 (2017): 149. doi: https://doi.org/10.1038/s41559-017-0149
Adkar BV, Manhart M, Bhattacharyya S, Tian J, Musharbash M, Shakhnovich EI. Optimization of lag phase shapes the evolution of a bacterial enzyme. Nat Ecol Evol. 2017 Apr 28;1(6):149. doi: 10.1038/s41559-017-0149. PMID: 28812634; PMCID: PMC5640271.
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ProteomeVis: a web app for exploration of protein properties from structure to sequence evolution across organisms' proteomes.

Bioinformatics (Oxford, England)

Razban RM, Gilson AI, Durfee N, Strobelt H, Dinkla K, Choi JM, Pfister H, Shakhnovich EI.
PMID: 30010795
Bioinformatics. 2018 Dec 01;34(23):4140. doi: 10.1093/bioinformatics/bty516.

No abstract available.

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Razban RM, Gilson AI, Durfee N, et al. ProteomeVis: a web app for exploration of protein properties from structure to sequence evolution across organisms' proteomes. Bioinformatics. 2018;34(23):4140doi: 10.1093/bioinformatics/bty516.
Razban, R. M., Gilson, A. I., Durfee, N., Strobelt, H., Dinkla, K., Choi, J. M., Pfister, H., & Shakhnovich, E. I. (2018). ProteomeVis: a web app for exploration of protein properties from structure to sequence evolution across organisms' proteomes. Bioinformatics (Oxford, England), 34(23), 4140. https://doi.org/10.1093/bioinformatics/bty516
Razban, Rostam M, et al. "ProteomeVis: a web app for exploration of protein properties from structure to sequence evolution across organisms' proteomes." Bioinformatics (Oxford, England) vol. 34,23 (2018): 4140. doi: https://doi.org/10.1093/bioinformatics/bty516
Razban RM, Gilson AI, Durfee N, Strobelt H, Dinkla K, Choi JM, Pfister H, Shakhnovich EI. ProteomeVis: a web app for exploration of protein properties from structure to sequence evolution across organisms' proteomes. Bioinformatics. 2018 Dec 01;34(23):4140. doi: 10.1093/bioinformatics/bty516. PMID: 30010795; PMCID: PMC6247928.
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Phase diagram of random copolymers.

Physical review. E, Statistical physics, plasmas, fluids, and related interdisciplinary topics

Gutin AM, Sfatos CD, Shakhnovich EI.
PMID: 9960609
Phys Rev E Stat Phys Plasmas Fluids Relat Interdiscip Topics. 1993 Jul;48(1):465-475. doi: 10.1103/physreve.48.465.

No abstract available.

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Gutin AM, Sfatos CD, Shakhnovich EI. Phase diagram of random copolymers. Phys Rev E Stat Phys Plasmas Fluids Relat Interdiscip Topics. 1993;48(1):465-475doi: 10.1103/physreve.48.465.
Gutin, A. M., Sfatos, C. D., & Shakhnovich, E. I. (1993). Phase diagram of random copolymers. Physical review. E, Statistical physics, plasmas, fluids, and related interdisciplinary topics, 48(1), 465-475. https://doi.org/10.1103/physreve.48.465
Gutin, et al. "Phase diagram of random copolymers." Physical review. E, Statistical physics, plasmas, fluids, and related interdisciplinary topics vol. 48,1 (1993): 465-475. doi: https://doi.org/10.1103/physreve.48.465
Gutin AM, Sfatos CD, Shakhnovich EI. Phase diagram of random copolymers. Phys Rev E Stat Phys Plasmas Fluids Relat Interdiscip Topics. 1993 Jul;48(1):465-475. doi: 10.1103/physreve.48.465. PMID: 9960609.
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Phase transitions in a "many-letter" random heteropolymer.

Physical review. E, Statistical physics, plasmas, fluids, and related interdisciplinary topics

Gutin AM, Sfatos CD, Shakhnovich EI.
PMID: 9962332
Phys Rev E Stat Phys Plasmas Fluids Relat Interdiscip Topics. 1994 Oct;50(4):2898-2905. doi: 10.1103/physreve.50.2898.

No abstract available.

Cite
Gutin AM, Sfatos CD, Shakhnovich EI. Phase transitions in a "many-letter" random heteropolymer. Phys Rev E Stat Phys Plasmas Fluids Relat Interdiscip Topics. 1994;50(4):2898-2905doi: 10.1103/physreve.50.2898.
Gutin, A. M., Sfatos, C. D., & Shakhnovich, E. I. (1994). Phase transitions in a "many-letter" random heteropolymer. Physical review. E, Statistical physics, plasmas, fluids, and related interdisciplinary topics, 50(4), 2898-2905. https://doi.org/10.1103/physreve.50.2898
Gutin, et al. "Phase transitions in a "many-letter" random heteropolymer." Physical review. E, Statistical physics, plasmas, fluids, and related interdisciplinary topics vol. 50,4 (1994): 2898-2905. doi: https://doi.org/10.1103/physreve.50.2898
Gutin AM, Sfatos CD, Shakhnovich EI. Phase transitions in a "many-letter" random heteropolymer. Phys Rev E Stat Phys Plasmas Fluids Relat Interdiscip Topics. 1994 Oct;50(4):2898-2905. doi: 10.1103/physreve.50.2898. PMID: 9962332.
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Showing 1 to 12 of 50 entries