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Simon Olsson, Ph.D. - Publications

Affiliations: 
University of Copenhagen, København, Denmark 
Area:
Structural Bioinformatics
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31 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 Schimunek J, Seidl P, Elez K, Hempel T, Le T, Noé F, Olsson S, Raich L, Winter R, Gokcan H, Gusev F, Gutkin EM, Isayev O, Kurnikova MG, Narangoda CH, et al. A community effort in SARS-CoV-2 drug discovery. Molecular Informatics. PMID 37833243 DOI: 10.1002/minf.202300262  0.49
2022 Hempel T, Olsson S, Noé F. Markov field models: Scaling molecular kinetics approaches to large molecular machines. Current Opinion in Structural Biology. 77: 102458. PMID 36162297 DOI: 10.1016/j.sbi.2022.102458  0.651
2022 Chakrabarti KS, Olsson S, Pratihar S, Giller K, Overkamp K, Lee KO, Gapsys V, Ryu KS, de Groot BL, Noé F, Becker S, Lee D, Weikl TR, Griesinger C. A litmus test for classifying recognition mechanisms of transiently binding proteins. Nature Communications. 13: 3792. PMID 35778416 DOI: 10.1038/s41467-022-31374-5  0.562
2021 Wang J, Charron N, Husic B, Olsson S, Noé F, Clementi C. Multi-body effects in a coarse-grained protein force field. The Journal of Chemical Physics. 154: 164113. PMID 33940848 DOI: 10.1063/5.0041022  0.73
2021 Hoffmann M, Hofmann-Winkler H, Smith JC, Krüger N, Arora P, Sørensen LK, Søgaard OS, Hasselstrøm JB, Winkler M, Hempel T, Raich L, Olsson S, Danov O, Jonigk D, Yamazoe T, et al. Camostat mesylate inhibits SARS-CoV-2 activation by TMPRSS2-related proteases and its metabolite GBPA exerts antiviral activity. Ebiomedicine. 103255. PMID 33676899 DOI: 10.1016/j.ebiom.2021.103255  0.432
2021 Raich L, Meier K, Günther J, Christ CD, Noé F, Olsson S. Discovery of a hidden transient state in all bromodomain families. Proceedings of the National Academy of Sciences of the United States of America. 118. PMID 33468647 DOI: 10.1073/pnas.2017427118  0.582
2020 Hempel T, Raich L, Olsson S, Azouz NP, Klingler AM, Hoffmann M, Pöhlmann S, Rothenberg ME, Noé F. Molecular mechanism of inhibiting the SARS-CoV-2 cell entry facilitator TMPRSS2 with camostat and nafamostat. Chemical Science. 12: 983-992. PMID 35382133 DOI: 10.1039/d0sc05064d  0.562
2020 Husic BE, Charron NE, Lemm D, Wang J, Pérez A, Majewski M, Krämer A, Chen Y, Olsson S, de Fabritiis G, Noé F, Clementi C. Coarse graining molecular dynamics with graph neural networks. The Journal of Chemical Physics. 153: 194101. PMID 33218238 DOI: 10.1063/5.0026133  0.723
2020 Strotz D, Orts J, Kadavath H, Friedmann M, Ghosh D, Olsson S, Chi C, Pokharna A, Güntert P, Vögeli B, Riek R. Protein allostery at atomic resolution. Angewandte Chemie (International Ed. in English). PMID 32797659 DOI: 10.1002/Ange.202008734  0.567
2020 Hoffmann M, Hofmann-Winkler H, Smith JC, Krüger N, Sørensen LK, Søgaard OS, Hasselstrøm JB, Winkler M, Hempel T, Raich L, Olsson S, Yamazoe T, Yamatsuta K, Mizuno H, Ludwig S, et al. Camostat mesylate inhibits SARS-CoV-2 activation by TMPRSS2-related proteases and its metabolite GBPA exerts antiviral activity. Biorxiv : the Preprint Server For Biology. PMID 32793911 DOI: 10.1101/2020.08.05.237651  0.446
2019 Noé F, Olsson S, Köhler J, Wu H. Boltzmann generators: Sampling equilibrium states of many-body systems with deep learning. Science (New York, N.Y.). 365. PMID 31488660 DOI: 10.1126/Science.Aaw1147  0.647
2019 Olsson S, Noé F. Dynamic graphical models of molecular kinetics. Proceedings of the National Academy of Sciences of the United States of America. PMID 31285323 DOI: 10.1073/Pnas.1901692116  0.665
2019 Wang J, Olsson S, Wehmeyer C, Pérez A, Charron NE, de Fabritiis G, Noé F, Clementi C. Machine Learning of Coarse-Grained Molecular Dynamics Force Fields. Acs Central Science. 5: 755-767. PMID 31139712 DOI: 10.1021/Acscentsci.8B00913  0.642
2019 Wehmeyer C, Scherer MK, Hempel T, Husic BE, Olsson S, Noé F. Introduction to Markov state modeling with the PyEMMA software [Article v1.0] Living Journal of Computational Molecular Science. 1. DOI: 10.33011/livecoms.1.1.5965  0.682
2018 Gerber S, Olsson S, Noé F, Horenko I. A scalable approach to the computation of invariant measures for high-dimensional Markovian systems. Scientific Reports. 8: 1796. PMID 29379123 DOI: 10.1038/S41598-018-19863-4  0.623
2017 Olsson S, Wu H, Paul F, Clementi C, Noé F. Combining experimental and simulation data of molecular processes via augmented Markov models. Proceedings of the National Academy of Sciences of the United States of America. PMID 28716931 DOI: 10.1073/Pnas.1704803114  0.667
2017 Nichols PJ, Born A, Henen MA, Strotz D, Orts J, Olsson S, Güntert P, Chi CN, Vögeli B. The Exact Nuclear Overhauser Enhancement: Recent Advances. Molecules (Basel, Switzerland). 22. PMID 28708092 DOI: 10.3390/Molecules22071176  0.444
2016 Olsson S, Noé F. Mechanistic models of chemical exchange induced relaxation in protein NMR. Journal of the American Chemical Society. PMID 27958728 DOI: 10.1021/Jacs.6B09460  0.697
2016 Olsson S, Strotz D, Vögeli B, Riek R, Cavalli A. The Dynamic Basis for Signal Propagation in Human Pin1-WW. Structure (London, England : 1993). PMID 27499442 DOI: 10.1016/J.Str.2016.06.013  0.618
2016 Vögeli B, Olsson S, Güntert P, Riek R. The Exact NOE as an Alternative in Ensemble Structure Determination. Biophysical Journal. 110: 113-126. PMID 26745415 DOI: 10.1016/J.Bpj.2015.11.031  0.643
2015 Olsson S, Cavalli A. Quantification of Entropy-Loss in Replica-Averaged Modeling. Journal of Chemical Theory and Computation. 11: 3973-7. PMID 26575893 DOI: 10.1021/Acs.Jctc.5B00579  0.342
2015 Antonov LD, Olsson S, Boomsma W, Hamelryck T. Bayesian inference of protein ensembles from SAXS data. Physical Chemistry Chemical Physics : Pccp. PMID 26548662 DOI: 10.1039/C5Cp04886A  0.713
2015 Vögeli B, Olsson S, Riek R, Güntert P. Compiled data set of exact NOE distance limits, residual dipolar couplings and scalar couplings for the protein GB3. Data in Brief. 5: 99-106. PMID 26504890 DOI: 10.1016/J.Dib.2015.08.020  0.604
2015 Sgrignani J, Olsson S, Ekonomiuk D, Genini D, Krause R, Catapano CV, Cavalli A. Molecular Determinants for Unphosphorylated STAT3 Dimerization Determined by Integrative Modeling. Biochemistry. 54: 5489-501. PMID 26283080 DOI: 10.1021/Bi501529X  0.416
2015 Vögeli B, Olsson S, Riek R, Güntert P. Complementarity and congruence between exact NOEs and traditional NMR probes for spatial decoding of protein dynamics. Journal of Structural Biology. 191: 306-17. PMID 26206511 DOI: 10.1016/J.Jsb.2015.07.008  0.615
2015 Olsson S, Ekonomiuk D, Sgrignani J, Cavalli A. Molecular Dynamics of Biomolecules through Direct Analysis of Dipolar Couplings. Journal of the American Chemical Society. 137: 6270-8. PMID 25895902 DOI: 10.1021/Jacs.5B01289  0.425
2014 Olsson S, Vögeli BR, Cavalli A, Boomsma W, Ferkinghoff-Borg J, Lindorff-Larsen K, Hamelryck T. Probabilistic Determination of Native State Ensembles of Proteins. Journal of Chemical Theory and Computation. 10: 3484-91. PMID 26588313 DOI: 10.1021/Ct5001236  0.703
2013 Olsson S, Frellsen J, Boomsma W, Mardia KV, Hamelryck T. Inference of structure ensembles of flexible biomolecules from sparse, averaged data. Plos One. 8: e79439. PMID 24244505 DOI: 10.1371/Journal.Pone.0079439  0.686
2013 Boomsma W, Frellsen J, Harder T, Bottaro S, Johansson KE, Tian P, Stovgaard K, Andreetta C, Olsson S, Valentin JB, Antonov LD, Christensen AS, Borg M, Jensen JH, Lindorff-Larsen K, et al. PHAISTOS: a framework for Markov chain Monte Carlo simulation and inference of protein structure. Journal of Computational Chemistry. 34: 1697-705. PMID 23619610 DOI: 10.1002/Jcc.23292  0.704
2012 Harder T, Borg M, Bottaro S, Boomsma W, Olsson S, Ferkinghoff-Borg J, Hamelryck T. An efficient null model for conformational fluctuations in proteins. Structure (London, England : 1993). 20: 1028-39. PMID 22578545 DOI: 10.1016/J.Str.2012.03.020  0.717
2011 Olsson S, Boomsma W, Frellsen J, Bottaro S, Harder T, Ferkinghoff-Borg J, Hamelryck T. Generative probabilistic models extend the scope of inferential structure determination. Journal of Magnetic Resonance (San Diego, Calif. : 1997). 213: 182-6. PMID 21993764 DOI: 10.1016/J.Jmr.2011.08.039  0.703
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