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Erik Holmstrom - Publications

Affiliations: 
University of Kansas, Lawrence, KS, United States 
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22/50 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
2024 Akhter S, Tang Z, Wang J, Haboro M, Holmstrom ED, Wang J, Miao Y. Mechanism of Ligand Binding to Theophylline RNA Aptamer. Journal of Chemical Information and Modeling. PMID 38226603 DOI: 10.1021/acs.jcim.3c01454  0.302
2023 Nepal S, Holmstrom ED. Single-molecule-binding studies of antivirals targeting the hepatitis C virus core protein. Journal of Virology. e0089223. PMID 37772835 DOI: 10.1128/jvi.00892-23  0.382
2021 Gunawardhana SM, Holmstrom ED. Apolar chemical environments compact unfolded RNAs and can promote folding. Biophysical Reports. 1. PMID 35382036 DOI: 10.1016/j.bpr.2021.100004  0.335
2021 Tang Z, Akhter S, Ramprasad A, Wang X, Reibarkh M, Wang J, Aryal S, Thota SS, Zhao J, Douglas JT, Gao P, Holmstrom ED, Miao Y, Wang J. Recognition of single-stranded nucleic acids by small-molecule splicing modulators. Nucleic Acids Research. PMID 34283224 DOI: 10.1093/nar/gkab602  0.327
2021 Sanders JC, Holmstrom ED. Integrating single-molecule FRET and biomolecular simulations to study diverse interactions between nucleic acids and proteins. Essays in Biochemistry. PMID 33600559 DOI: 10.1042/EBC20200022  0.425
2020 Sharma R, Kk S, Holmstrom ED, Westerlund F. Real-time compaction of nanoconfined DNA by an intrinsically disordered macromolecular counterion. Biochemical and Biophysical Research Communications. PMID 32951838 DOI: 10.1016/j.bbrc.2020.06.051  0.36
2020 Schuler B, Borgia A, Borgia MB, Heidarsson PO, Holmstrom ED, Nettels D, Sottini A. Binding without folding - the biomolecular function of disordered polyelectrolyte complexes. Current Opinion in Structural Biology. 60: 66-76. PMID 31874413 DOI: 10.1016/J.Sbi.2019.12.006  0.573
2020 Nueesch MF, Holmstrom ED, Nettels D, Schuler B. Conformational Ensembles and Dynamics of Single-Stranded Nucleic Acids using High-Resolution Single-Molecule Fluorescence Spectroscopy Biophysical Journal. 118. DOI: 10.1016/J.Bpj.2019.11.1865  0.548
2019 Holmstrom ED, Liu Z, Nettels D, Best RB, Schuler B. Disordered RNA chaperones can enhance nucleic acid folding via local charge screening. Nature Communications. 10: 2453. PMID 31165735 DOI: 10.1038/S41467-019-10356-0  0.653
2019 Holmstrom ED, Liu Z, Nettels D, Best RB, Schuler B. Disordered RNA Chaperones Enhance Nucleic Acid Folding via Local Charge Screening Biophysical Journal. 116. DOI: 10.1016/J.Bpj.2018.11.2528  0.592
2018 Holmstrom ED, Holla A, Zheng W, Nettels D, Best RB, Schuler B. Accurate Transfer Efficiencies, Distance Distributions, and Ensembles of Unfolded and Intrinsically Disordered Proteins From Single-Molecule FRET. Methods in Enzymology. 611: 287-325. PMID 30471690 DOI: 10.1016/Bs.Mie.2018.09.030  0.563
2018 Sturzenegger F, Zosel F, Holmstrom ED, Buholzer KJ, Makarov DE, Nettels D, Schuler B. Transition path times of coupled folding and binding reveal the formation of an encounter complex. Nature Communications. 9: 4708. PMID 30413694 DOI: 10.1038/S41467-018-07043-X  0.569
2018 Grotz K, Nüesch M, Holmstrom E, Heinz M, Stelzl LS, Schuler B, Hummer G. Dispersion Correction Alleviates Dye Stacking of Single-Stranded DNA and RNA in Simulations of Single-Molecule Fluorescence Experiments. The Journal of Physical Chemistry. B. PMID 30285443 DOI: 10.1021/Acs.Jpcb.8B07537  0.557
2018 Dupuis NF, Holmstrom ED, Nesbitt DJ. Tests of Kramers' Theory at the Single-Molecule Level: Evidence for Folding of an Isolated RNA Tertiary Interaction at the Viscous Speed Limit. The Journal of Physical Chemistry. B. PMID 30078323 DOI: 10.1021/Acs.Jpcb.8B04014  0.316
2018 Liu Y, Holmstrom E, Yu P, Tan K, Zuo X, Nesbitt DJ, Sousa R, Stagno JR, Wang YX. Incorporation of isotopic, fluorescent, and heavy-atom-modified nucleotides into RNAs by position-selective labeling of RNA. Nature Protocols. 13: 987-1005. PMID 29651055 DOI: 10.1038/Nprot.2018.002  0.362
2018 Holmstrom ED, Nettels D, Schuler B. Conformational Plasticity of Hepatitis C Virus Core Protein Enables RNA-Induced Formation of Nucleocapsid-like Particles. Journal of Molecular Biology. 430: 2453-2467. PMID 29045818 DOI: 10.1016/J.Jmb.2017.10.010  0.593
2015 Holmstrom ED, Dupuis NF, Nesbitt DJ. Kinetic and thermodynamic origins of osmolyte-influenced nucleic acid folding. The Journal of Physical Chemistry. B. 119: 3687-96. PMID 25621404 DOI: 10.1021/Jp512491N  0.351
2014 Holmstrom ED, Polaski JT, Batey RT, Nesbitt DJ. Single-molecule conformational dynamics of a biologically functional hydroxocobalamin riboswitch. Journal of the American Chemical Society. 136: 16832-43. PMID 25325398 DOI: 10.1021/Ja5076184  0.341
2014 Dupuis NF, Holmstrom ED, Nesbitt DJ. Molecular-crowding effects on single-molecule RNA folding/unfolding thermodynamics and kinetics Proceedings of the National Academy of Sciences of the United States of America. 111: 8464-8469. PMID 24850865 DOI: 10.1073/Pnas.1316039111  0.358
2014 Holmstrom E, Nesbitt D. Folding in Human Telomerase RNA Pseudoknots: Kinetic and Thermodynamic Studies via Single-Molecule FRET Biophysical Journal. 106: 284a-285a. DOI: 10.1016/J.Bpj.2013.11.1664  0.307
2012 Fiore JL, Holmstrom ED, Fiegland LR, Hodak JH, Nesbitt DJ. The role of counterion valence and size in GAAA tetraloop-receptor docking/undocking kinetics Journal of Molecular Biology. 423: 198-216. PMID 22796627 DOI: 10.1016/J.Jmb.2012.07.006  0.323
2012 Holmstrom ED, Fiore JL, Nesbitt DJ. Thermodynamic origins of monovalent facilitated RNA folding Biochemistry. 51: 3732-3743. PMID 22448852 DOI: 10.1021/Bi201420A  0.305
Low-probability matches (unlikely to be authored by this person)
2015 Vieweger M, Holmstrom ED, Nesbitt DJ. Single-Molecule FRET Reveals Three Conformations for the TLS Domain of Brome Mosaic Virus Genome. Biophysical Journal. 109: 2625-36. PMID 26682819 DOI: 10.1016/J.Bpj.2015.10.006  0.291
2015 Liu Y, Holmstrom E, Zhang J, Yu P, Wang J, Dyba MA, Chen D, Ying J, Lockett S, Nesbitt DJ, Ferré-D'Amaré AR, Sousa R, Stagno JR, Wang YX. Synthesis and applications of RNAs with position-selective labelling and mosaic composition. Nature. 522: 368-72. PMID 25938715 DOI: 10.1038/Nature14352  0.29
2014 Holmstrom ED, Nesbitt DJ. Single-molecule fluorescence resonance energy transfer studies of the human telomerase RNA pseudoknot: temperature-/urea-dependent folding kinetics and thermodynamics. The Journal of Physical Chemistry. B. 118: 3853-63. PMID 24617561 DOI: 10.1021/Jp501893C  0.284
2014 Holmstrom ED, Nesbitt DJ. Single-molecule fluorescence resonance energy transfer studies of the human telomerase RNA pseudoknot: Temperature-/urea-dependent folding kinetics and thermodynamics Journal of Physical Chemistry B. 118: 3853-3863. DOI: 10.1021/jp501893c  0.282
2020 Sharma R, KK S, Holmstrom ED, Westerlund F. Real-Time Condensation of Nanoconfined DNA by an Intrinsically Disordered Polycationic Protein Biophysical Journal. 118: 218a. DOI: 10.1016/j.bpj.2019.11.1296  0.28
2016 Holmstrom ED, Nesbitt DJ. Biophysical Insights from Temperature-Dependent Single-Molecule Förster Resonance Energy Transfer. Annual Review of Physical Chemistry. 67: 441-65. PMID 27215819 DOI: 10.1146/Annurev-Physchem-040215-112544  0.278
2012 Fiore JL, Holmstrom ED, Nesbitt DJ. Entropic origin of Mg2+-facilitated RNA folding. Proceedings of the National Academy of Sciences of the United States of America. 109: 2902-7. PMID 22308376 DOI: 10.1073/Pnas.1114859109  0.27
2014 Holmstrom ED, Nesbitt DJ. Correction to “Single-Molecule Fluorescence Resonance Energy Transfer Studies of the Human Telomerase RNA Pseudoknot: Temperature-/Urea-Dependent Folding Kinetics and Thermodynamics” The Journal of Physical Chemistry B. 118: 6048-6048. DOI: 10.1021/jp504558u  0.266
2010 Holmstrom ED, Fiore JL, Nesbitt D. Single Molecule FRET Studies of RNA Tertiary Folding: Elucidating the Thermodynamic and Kinetic Role of Na+ Cations Biophysical Journal. 98: 471a. DOI: 10.1016/J.Bpj.2009.12.2565  0.245
2016 Polaski JT, Holmstrom ED, Nesbitt DJ, Batey RT. Mechanistic Insights into Cofactor-Dependent Coupling of RNA Folding and mRNA Transcription/Translation by a Cobalamin Riboswitch. Cell Reports. PMID 27117410 DOI: 10.1016/J.Celrep.2016.03.087  0.236
2014 Holmstrom ED, Dupuis NF, Nesbitt DJ. Pulsed IR heating studies of single-molecule DNA duplex dissociation kinetics and thermodynamics Biophysical Journal. 106: 220-231. PMID 24411254 DOI: 10.1016/J.Bpj.2013.11.008  0.231
2020 Alhammad YMO, Kashipathy MM, Roy A, Gagné JP, McDonald P, Gao P, Nonfoux L, Battaile KP, Johnson DK, Holmstrom ED, Poirier GG, Lovell S, Fehr AR. The SARS-CoV-2 conserved macrodomain is a mono-ADP-ribosylhydrolase. Journal of Virology. PMID 33158944 DOI: 10.1128/JVI.01969-20  0.226
2015 Holmstrom ED, Dupuis NF, Nesbitt DJ. Kinetic and thermodynamic origins of osmolyte-influenced nucleic acid folding Journal of Physical Chemistry B. 119: 3687-3696. DOI: 10.1021/jp512491n  0.214
2012 Fiore JL, Holmstrom ED, Nesbitt DJ. Entropic origin of Mg 2+-facilitated RNA folding Proceedings of the National Academy of Sciences of the United States of America. 109: 2902-2907. DOI: 10.1073/pnas.1114859109  0.192
2014 Araujo CM, Nagar S, Ramzan M, Shukla R, Jayakumar OD, Tyagi AK, Liu YS, Chen JL, Glans PA, Chang C, Blomqvist A, Lizárraga R, Holmström E, Belova L, Guo J, et al. Disorder-induced room temperature ferromagnetism in glassy chromites. Scientific Reports. 4: 4686. PMID 24732685 DOI: 10.1038/Srep04686  0.185
2013 Dupuis NF, Holmstrom ED, Nesbitt DJ. Single-molecule kinetics reveal cation-promoted DNA duplex formation through ordering of single-stranded helices Biophysical Journal. 105: 756-766. PMID 23931323 DOI: 10.1016/J.Bpj.2013.05.061  0.182
2012 Holmstrom ED, Nesbitt DJ. Localized Heating of Single Oligonucleotides using Infrared Light Biophysical Journal. 102: 180a. DOI: 10.1016/J.Bpj.2011.11.977  0.18
2020 Sen S, Ungawel Durayalage S, Holmstrom ED. Using Single-Molecule Spectroscopy to Dissect the Hepatitis C Virus Nucleocapsid Assembly Pathway Biophysical Journal. 118: 467a. DOI: 10.1016/j.bpj.2019.11.2594  0.18
2010 Holmstrom ED, Nesbitt DJ. Real-Time Infrared Overtone Laser Control of Temperature in Picoliter H(2)O Samples: "Nanobathtubs" for Single Molecule Microscopy. The Journal of Physical Chemistry Letters. 1: 2264-2268. PMID 21814589 DOI: 10.1021/Jz100663E  0.161
2009 Niklasson AM, Steneteg P, Odell A, Bock N, Challacombe M, Tymczak CJ, Holmström E, Zheng G, Weber V. Extended Lagrangian Born-Oppenheimer molecular dynamics with dissipation. The Journal of Chemical Physics. 130: 214109. PMID 19508058 DOI: 10.1063/1.3148075  0.129
2010 Zhan Y, Holmström E, Lizárraga R, Eriksson O, Liu X, Li F, Carlegrim E, Stafström S, Fahlman M. Efficient spin injection through exchange coupling at organic semiconductor/ferromagnet heterojunctions. Advanced Materials (Deerfield Beach, Fla.). 22: 1626-30. PMID 20496393 DOI: 10.1002/Adma.200903556  0.117
2010 Holmstrom ED, Nesbitt DJ. Real-time infrared overtone laser control of temperature in picoliter H2O samples: "Nanobathtubs" for single molecule microscopy Journal of Physical Chemistry Letters. 1: 2264-2268. DOI: 10.1021/jz100663e  0.116
2010 Bock N, Holmström E, Peery TB, Lizárraga R, Chisolm ED, De Lorenzi-Venneri G, Wallace DC. Liquid-state properties from first-principles density functional theory calculations: Static properties Physical Review B - Condensed Matter and Materials Physics. 82. DOI: 10.1103/PhysRevB.82.144101  0.074
2017 Lizárraga R, Pan F, Bergqvist L, Holmström E, Gercsi Z, Vitos L. First Principles Theory of the hcp-fcc Phase Transition in Cobalt. Scientific Reports. 7: 3778. PMID 28630476 DOI: 10.1038/s41598-017-03877-5  0.069
2018 Huang S, Huang H, Li W, Kim D, Lu S, Li X, Holmström E, Kwon SK, Vitos L. Twinning in metastable high-entropy alloys. Nature Communications. 9: 2381. PMID 29915174 DOI: 10.1038/s41467-018-04780-x  0.069
2018 Huang S, Li W, Holmström E, Vitos L. Phase-transition assisted mechanical behavior of TiZrHfTa high-entropy alloys. Scientific Reports. 8: 12576. PMID 30135487 DOI: 10.1038/s41598-018-30892-x  0.068
2008 Rubensson EH, Bock N, Holmström E, Niklasson AM. Recursive inverse factorization. The Journal of Chemical Physics. 128: 104105. PMID 18345875 DOI: 10.1063/1.2884921  0.066
2007 Pärnaste M, Marcellini M, Holmström E, Bock N, Fransson J, Eriksson O, Hjörvarsson B. Dimensionality crossover in the induced magnetization of Pd layers. Journal of Physics. Condensed Matter : An Institute of Physics Journal. 19: 246213. PMID 21694056 DOI: 10.1088/0953-8984/19/24/246213  0.034
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