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Kelly Marie Thayer - Publications

Affiliations: 
2004 Wesleyan University, Middletown, CT, United States 
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26 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
2023 Jayaraj A, Thayer KM, Beveridge DL, Hingorani MM. Molecular Dynamics of Mismatch Detection - How MutS Uses Indirect Readout to Find Errors in DNA. Biophysical Journal. PMID 37329136 DOI: 10.1016/j.bpj.2023.06.006  0.604
2023 Cowan BS, Beveridge DL, Thayer KM. Allosteric Signaling in PDZ Energetic Networks: Embedding Error Analysis. The Journal of Physical Chemistry. B. PMID 36626697 DOI: 10.1021/acs.jpcb.2c06546  0.655
2022 Fabry JD, Thayer KM. Network Analysis of Molecular Dynamics Sectors in the p53 Protein. Acs Omega. 8: 571-587. PMID 36643471 DOI: 10.1021/acsomega.2c05635  0.347
2022 Armour-Garb I, Han ISM, Cowan BS, Thayer KM. Variable Regions of p53 Isoforms Allosterically Hard Code DNA Interaction. The Journal of Physical Chemistry. B. PMID 36245142 DOI: 10.1021/acs.jpcb.2c06229  0.707
2022 Du A, Lombardo Z, Thayer KM, Mukerji I. Exploring the Role of Msh2-Msh6 in Processing Holliday Junction DNA. Faseb Journal : Official Publication of the Federation of American Societies For Experimental Biology. PMID 35556520 DOI: 10.1096/fasebj.2022.36.S1.0R406  0.392
2022 Han ISM, Abramson D, Thayer KM. Insights into Rational Design of a New Class of Allosteric Effectors with Molecular Dynamics Markov State Models and Network Theory. Acs Omega. 7: 2831-2841. PMID 35097279 DOI: 10.1021/acsomega.1c05624  0.335
2021 Jasuja R, Spencer D, Jayaraj A, Peng L, Krishna M, Lawney B, Patel P, Jayaram B, Thayer KM, Beveridge DL, Bhasin S. Estradiol induces allosteric coupling and partitioning of sex-hormone-binding globulin monomers among conformational states. Iscience. 24: 102414. PMID 34041454 DOI: 10.1016/j.isci.2021.102414  0.617
2020 Barr WA, Sheth RB, Kwon J, Cho J, Glickman JW, Hart F, Chatterji OK, Scopino K, Voelkel-Meiman K, Krizanc D, Thayer KM, Weir MP. GCN sensitive protein translation in yeast. Plos One. 15: e0233197. PMID 32946445 DOI: 10.1371/Journal.Pone.0233197  0.349
2019 Lakhani B, Thayer KM, Black E, Beveridge DL. Spectral analysis of molecular dynamics simulations on PDZ: MD sectors. Journal of Biomolecular Structure & Dynamics. 1-10. PMID 31262238 DOI: 10.1080/07391102.2019.1588169  0.631
2018 Mishra A, Siwach P, Misra P, Jayaram B, Bansal M, Olson WK, Thayer KM, Beveridge DL. Toward a Universal Structural and Energetic Model for Prokaryotic Promoters. Biophysical Journal. PMID 30172386 DOI: 10.1016/J.Bpj.2018.08.002  0.659
2018 Thayer KM, Je L. p53 tumor suppressor protein mutants R175H, G245S, R249S and R282W: structural prediction and analysis of full length proteins Moj Proteomics & Bioinformatics. 7. DOI: 10.15406/Mojpb.2018.07.00217  0.32
2017 Thayer KM, Galganov JC, Stein AJ. Dependence of prevalence of contiguous pathways in proteins on structural complexity. Plos One. 12: e0188616. PMID 29232711 DOI: 10.1371/Journal.Pone.0188616  0.421
2017 Thayer KM, Lakhani B, Beveridge DL. A Molecular Dynamics-Markov State Model of Protein Ligand Binding and Allostery in CRIB-PDZ: Conformational Selection and Induced Fit. The Journal of Physical Chemistry. B. PMID 28489401 DOI: 10.1021/Acs.Jpcb.7B02083  0.601
2017 Thayer KM, Han IS. Chemical principles additive model aligns low consensus DNA targets of p53 tumor suppressor protein. Computational Biology and Chemistry. 68: 186-193. PMID 28363149 DOI: 10.1016/J.Compbiolchem.2017.03.003  0.487
2017 Lakhani B, Thayer KM, Hingorani MM, Beveridge DL. Evolutionary Covariance Combined with Molecular Dynamics Predicts a Framework for Allostery in the MutS DNA Mismatch Repair Protein. The Journal of Physical Chemistry. B. PMID 28135092 DOI: 10.1021/Acs.Jpcb.6B11976  0.663
2016 Prachanronarong KL, Özen A, Thayer KM, Yilmaz LS, Zeldovich KB, Bolon DN, Kowalik TF, Jensen JD, Finberg RW, Wang JP, Kurt-Yilmaz N, Schiffer CA. Molecular Basis for Differential Patterns of Drug Resistance in Influenza N1 and N2 Neuraminidase. Journal of Chemical Theory and Computation. 12: 6098-6108. PMID 27951676 DOI: 10.1021/Acs.Jctc.6B00703  0.48
2016 Thayer KM, Beyer GA. Energetic Landscape of MDM2-p53 Interactions by Computational Mutagenesis of the MDM2-p53 Interaction. Plos One. 11: e0147806. PMID 26992014 DOI: 10.1371/Journal.Pone.0147806  0.349
2016 Thayer KM. Computational Construction of A P53 Tetrameric Structure Moj Proteomics & Bioinformatics. 3. DOI: 10.15406/Mojpb.2016.03.00071  0.435
2013 Aragam NR, Thayer KM, Nge N, Hoffman I, Martinson F, Kamwendo D, Lin FC, Sutherland C, Bailey JA, Juliano JJ. Diversity of T cell epitopes in Plasmodium falciparum circumsporozoite protein likely due to protein-protein interactions. Plos One. 8: e62427. PMID 23667476 DOI: 10.1371/Journal.Pone.0062427  0.328
2010 Ali A, Bandaranayake RM, Cai Y, King NM, Kolli M, Mittal S, Murzycki JF, Nalam MN, Nalivaika EA, Ozen A, Prabu-Jeyabalan MM, Thayer K, Schiffer CA. Molecular Basis for Drug Resistance in HIV-1 Protease. Viruses. 2: 2509-35. PMID 21994628 DOI: 10.3390/V2112509  0.471
2010 Leonard E, Ajikumar PK, Thayer K, Xiao WH, Mo JD, Tidor B, Stephanopoulos G, Prather KLJ. Combining metabolic and protein engineering of a terpenoid biosynthetic pathway for overproduction and selectivity control Proceedings of the National Academy of Sciences of the United States of America. 107: 13654-13659. PMID 20643967 DOI: 10.1073/Pnas.1006138107  0.507
2005 Dixit SB, Beveridge DL, Case DA, Cheatham TE, Giudice E, Lankas F, Lavery R, Maddocks JH, Osman R, Sklenar H, Thayer KM, Varnai P. Molecular dynamics simulations of the 136 unique tetranucleotide sequences of DNA oligonucleotides. II: sequence context effects on the dynamical structures of the 10 unique dinucleotide steps. Biophysical Journal. 89: 3721-40. PMID 16169978 DOI: 10.1529/Biophysj.105.067397  0.652
2004 Ponomarev SY, Thayer KM, Beveridge DL. Ion motions in molecular dynamics simulations on DNA. Proceedings of the National Academy of Sciences of the United States of America. 101: 14771-5. PMID 15465909 DOI: 10.1073/Pnas.0406435101  0.715
2004 Beveridge DL, Barreiro G, Byun KS, Case DA, Cheatham TE, Dixit SB, Giudice E, Lankas F, Lavery R, Maddocks JH, Osman R, Seibert E, Sklenar H, Stoll G, Thayer KM, et al. Molecular dynamics simulations of the 136 unique tetranucleotide sequences of DNA oligonucleotides. I. Research design and results on d(CpG) steps. Biophysical Journal. 87: 3799-813. PMID 15326025 DOI: 10.1529/Biophysj.104.045252  0.623
2004 Beveridge DL, Dixit SB, Barreiro G, Thayer KM. Molecular dynamics simulations of DNA curvature and flexibility: helix phasing and premelting. Biopolymers. 73: 380-403. PMID 14755574 DOI: 10.1002/Bip.20019  0.623
2002 Thayer KM, Beveridge DL. Hidden Markov models from molecular dynamics simulations on DNA. Proceedings of the National Academy of Sciences of the United States of America. 99: 8642-7. PMID 12072566 DOI: 10.1073/Pnas.132148699  0.663
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