Kresten Lindorff‐Larsen

1. Improved side‐chain torsion potentials for the Amber ff99SB protein force field
   2010/03/10 by Kresten Lindorff‐Larsen, Stefano Piana, Kim Palmo +5 · 47 citations
   Biochemistry, Genetics and Molecular Biology · Chemistry · Materials Science · #Protein Structure and Dynamics #Advanced NMR Techniques and Applications #Enzyme Structure and Function
2. A structural biology community assessment of AlphaFold2 applications
   2022/11/01 by Mehmet Akdel, Douglas E. V. Pires, Eduard Porta‐Pardo +31 · 1 voice · 40 citations
   Biochemistry, Genetics and Molecular Biology · Computer Science · Materials Science · #Computational Drug Discovery Methods #Enzyme Structure and Function #Protein Structure and Dynamics
3. Experimental Parameterization of an Energy Function for the Simulation of Unfolded Proteins
   2007/09/07 by Anders B. Norgaard, Jesper Ferkinghoff‐Borg, Jesper Ferkinghoff-Borg +2 · 1 voice · 17 citations
   Biochemistry, Genetics and Molecular Biology · Materials Science · #Protein Structure and Dynamics #Enzyme Structure and Function #RNA and protein synthesis mechanisms
4. Simultaneous determination of protein structure and dynamics
   2005/01/13 by Kresten Lindorff-Larsen, Kresten Lindorff‐Larsen, Robert B. Best +3 · 1 voice · 16 citations
   Materials Science · Biochemistry, Genetics and Molecular Biology · #Enzyme Structure and Function #Protein Structure and Dynamics #Photosynthetic Processes and Mechanisms
5. Conformational ensembles of the human intrinsically disordered proteome
   2024/01/31 by Giulio Tesei, Anna Ida Trolle, Nicolas Jonsson +6 · 1 voice · 19 citations
   Biochemistry, Genetics and Molecular Biology · #Machine Learning in Bioinformatics #RNA and protein synthesis mechanisms #RNA modifications and cancer
6. Relation between native ensembles and experimental structures of proteins
   2006/07/07 by Robert B. Best, Kresten Lindorff‐Larsen, Mark A. DePristo +1 · 1 voice · 4 citations
   Biochemistry, Genetics and Molecular Biology · Chemistry · Physics and Astronomy · #Mass Spectrometry Techniques and Applications #Protein Structure and Dynamics #Spectroscopy and Quantum Chemical Studies
7. Mapping Long-Range Interactions in α-Synuclein using Spin-Label NMR and Ensemble Molecular Dynamics Simulations
   2004/12/21 by Matthew M. Dedmon, Kresten Lindorff‐Larsen, John Christodoulou +2 · 1 voice · 4 citations
   Medicine · Biochemistry, Genetics and Molecular Biology · #Parkinson's Disease Mechanisms and Treatments #Electron Spin Resonance Studies #Advanced MRI Techniques and Applications
8. Discovering functionally important sites in proteins
   2023/07/13 by Matteo Cagiada, Sandro Bottaro, Søren Lindemose +4 · 1 voice · 10 citations
   Biochemistry, Genetics and Molecular Biology · #Biochemical and Molecular Research #RNA modifications and cancer #Genomics and Rare Diseases
9. Accurate model of liquid–liquid phase behavior of intrinsically disordered proteins from optimization of single-chain properties
   2021/10/29 by Giulio Tesei, Thea K. Schulze, Ramón Crehuet +1 · 1 voice · 7 citations
   Biochemistry, Genetics and Molecular Biology · #Lipid metabolism and biosynthesis #Protein Structure and Dynamics #RNA Research and Splicing
10. A coarse‐grained model for disordered and multi‐domain proteins
    2024/10/16 by Fan Cao, Sören von Bülow, Giulio Tesei +1 · 1 voice · 15 citations
    Biochemistry, Genetics and Molecular Biology · #RNA Research and Splicing #Protein Structure and Dynamics #RNA modifications and cancer
11. Predicting the impact of Lynch syndrome-causing missense mutations from structural calculations
    2017/04/19 by Sofie V. Nielsen, Amelie Stein, Alexander B. Dinitzen +7 · 1 voice · 5 citations
    Biochemistry, Genetics and Molecular Biology · Medicine · #Cancer Genomics and Diagnostics #Genetic factors in colorectal cancer #Genomics and Rare Diseases
12. Rapid protein stability prediction using deep learning representations
    2023/05/15 by Lasse M. Blaabjerg, Maher M. Kassem, Lydia L. Good +6 · 1 voice · 11 citations
    Biochemistry, Genetics and Molecular Biology · Materials Science · #Enzyme Structure and Function #Machine Learning in Bioinformatics #Protein Structure and Dynamics
13. Software package for simulations using the coarse-grained CALVADOS model
    2025/04/14 by Sören von Bülow, von Bülow, Sören, Ikki Yasuda +17 · 3 voices · 4 citations
    Decision Sciences · #Simulation Techniques and Applications
14. Atomistic Description of the Folding of a Dimeric Protein
    2013/07/25 by Stefano Piana, Kresten Lindorff‐Larsen, David Shaw · 1 voice · 2 citations
    Biochemistry, Genetics and Molecular Biology · Materials Science · #Protein Structure and Dynamics #Enzyme Structure and Function #RNA and protein synthesis mechanisms
15. Current practices in the study of biomolecular condensates: a community comment
    2025/08/19 by Simon Alberti, Paolo Arosio, Robert B. Best +31 · 1 voice · 9 citations
    Biochemistry, Genetics and Molecular Biology · #RNA Research and Splicing #Protein Structure and Dynamics #Lipid Membrane Structure and Behavior
16. FRETpredict: a Python package for FRET efficiency predictions using rotamer libraries
    2024/03/09 by Daniele Montepietra, Giulio Tesei, João M. Martins +3 · 1 voice · 3 citations
    Biochemistry, Genetics and Molecular Biology · Chemistry · #Electron Spin Resonance Studies #Protein Structure and Dynamics #Mass Spectrometry Techniques and Applications
17. Computational design of intrinsically disordered proteins
    2025/09/15 by Giulio Tesei, Tesei, Giulio, Francesco Pesce +4 · 4 voices · 2 citations
    Biochemistry, Genetics and Molecular Biology · Materials Science · #Protein Structure and Dynamics #q-bio.BM
18. Machine learning methods to study sequence-ensemble-function relationships in disordered proteins
    2024/10/21 by Sören von Bülow, von Bülow, Sören, Giulio Tesei +4 · 1 voice · 4 citations
    Biochemistry, Genetics and Molecular Biology · #Protein Structure and Dynamics #Machine Learning in Bioinformatics
19. Transition states for protein folding have native topologies despite high structural variability
    2004/04/18 by Kresten Lindorff-Larsen, Kresten Lindorff‐Larsen, Michele Vendruscolo +3 · 1 voice · 2 citations
    Biochemistry, Genetics and Molecular Biology · Materials Science · #Enzyme Structure and Function #Protein Structure and Dynamics #RNA and protein synthesis mechanisms
20. A mutational atlas for Parkin proteostasis
    2024/02/20 by Lene Clausen, Vasileios Voutsinos, Matteo Cagiada +10 · 1 voice · 5 citations
    Biochemistry, Genetics and Molecular Biology · Medicine · #Autophagy in Disease and Therapy #Parkinson's Disease Mechanisms and Treatments #Ubiquitin and proteasome pathways
21. Disease-linked mutations cause exposure of a protein quality control degron
    2022/06/13 by Caroline Kampmeyer, Sven Larsen-Ledet, Morten Rose Wagnkilde +14 · 3 citations
    Biochemistry, Genetics and Molecular Biology · #Endoplasmic Reticulum Stress and Disease #Heat shock proteins research #Ubiquitin and proteasome pathways
22. SSEmb: A joint embedding of protein sequence and structure enables robust variant effect predictions
    2024/11/07 by Lasse M. Blaabjerg, Nicolas Jonsson, Wouter Boomsma +2 · 1 voice · 4 citations
    Biochemistry, Genetics and Molecular Biology · #Genomics and Phylogenetic Studies #Genomics and Rare Diseases #Machine Learning in Bioinformatics
23. Design of intrinsically disordered protein variants with diverse structural properties
    2024/08/28 by Francesco Pesce, Anne Bremer, Giulio Tesei +4 · 1 voice · 4 citations
    Biochemistry, Genetics and Molecular Biology · #Protein Structure and Dynamics #RNA Research and Splicing #RNA and protein synthesis mechanisms
24. The mechanism of amyloid fibril growth from Φ-value analysis
    2025/01/16 by Jacob Aunstrup Larsen, Abigail Barclay, Nicola Vettore +7 · 1 voice · 2 citations
    Medicine · Biochemistry, Genetics and Molecular Biology · Materials Science · #Alzheimer's disease research and treatments #Protein Structure and Dynamics #Enzyme Structure and Function
25. Tag with Caution — How protein tagging influences the formation of condensates
    2024/10/05 by Kerstin Dörner, Michelle Gut, Daan Overwijn +7 · 2 voices · 2 citations
    Materials Science · Biochemistry, Genetics and Molecular Biology · #Enzyme Structure and Function #Protein Structure and Dynamics
26. Machine learning methods to study sequence–ensemble–function relationships in disordered proteins
    2025/03/12 by Sören von Bülow, Giulio Tesei, Kresten Lindorff‐Larsen · 1 voice · 4 citations
    Biochemistry, Genetics and Molecular Biology · Materials Science · #Protein Structure and Dynamics #RNA and protein synthesis mechanisms #Machine Learning in Materials Science
27. On the Potential of Machine Learning to Examine the Relationship Between Sequence, Structure, Dynamics and Function of Intrinsically Disordered Proteins
    2021/08/11 by Kresten Lindorff‐Larsen, Birthe B. Kragelund · 1 voice · 1 citation
    Biochemistry, Genetics and Molecular Biology · #RNA Research and Splicing #Protein Structure and Dynamics #Bioinformatics and Genomic Networks
28. Computational Redesign of Thioredoxin Is Hypersensitive toward Minor Conformational Changes in the Backbone Template
    2016/09/20 by Kristoffer E. Johansson, Nicolai Tidemand Johansen, Signe Christensen +10 · 1 voice · 1 citation
    Biochemistry, Genetics and Molecular Biology · Materials Science · #Enzyme Structure and Function #Protein Structure and Dynamics #RNA and protein synthesis mechanisms
29. Conformational Changes and Free Energies in a Proline Isomerase
    2014/08/20 by Elena Papaleo, Ludovico Sutto, Francesco Luigi Gervasio +1 · 1 voice · 1 citation
    Biochemistry, Genetics and Molecular Biology · Immunology and Microbiology · #Signaling Pathways in Disease #Protein Structure and Dynamics #Toxin Mechanisms and Immunotoxins
30. AF-CALVADOS: AlphaFold-guided simulations of multi-domain proteins at the proteome level
    2025/10/19 by Sören von Bülow, Kristoffer E. Johansson, Kresten Lindorff‐Larsen · 1 voice · 5 citations
    Chemistry · #Advanced Proteomics Techniques and Applications
31. Comprehensive degron mapping in human transcription factors
    2025/05/17 by Fia B. Larsen, Vasileios Voutsinos, Nicolas Jonsson +4 · 1 voice · 3 citations
    Biochemistry, Genetics and Molecular Biology · #Protein Degradation and Inhibitors
32. Coarse-Grained Model of Disordered RNA for Simulations of Biomolecular Condensates
    2025/02/26 by Ikki Yasuda, Sören von Bülow, Giulio Tesei +3 · 1 voice · 4 citations
    Biochemistry, Genetics and Molecular Biology · #RNA Research and Splicing #RNA modifications and cancer #RNA and protein synthesis mechanisms
33. The future of integrated structural biology
    2024/09/17 by Harald Schwalbe, Pauline Audergon, Natalie Haley +25 · 2 voices · 1 citation
    Biochemistry, Genetics and Molecular Biology · Materials Science · #Microbial Metabolic Engineering and Bioproduction #RNA and protein synthesis mechanisms #Enzyme Structure and Function
34. How to Use Quantum Computers for Biomolecular Free Energies
    2025/06/25 by Jakob Günther, Thomas Weymuth, Günther, Jakob +44 · 2 voices · 2 citations
    Computer Science · #Quantum Computing Algorithms and Architecture
35. Guidelines for releasing a variant effect predictor
    2025/04/15 by Benjamin Livesey, Mihaly Badonyi, Mafalda Dias +15 · 1 voice · 2 citations
    Biochemistry, Genetics and Molecular Biology · #Genomics and Rare Diseases #Gene expression and cancer classification #Cancer Genomics and Diagnostics
36. Decoding molecular mechanisms for loss-of-function variants in the human proteome
    2024/05/22 by Matteo Cagiada, Nicolas Jonsson, Kresten Lindorff‐Larsen · 1 voice · 1 citation
    Biochemistry, Genetics and Molecular Biology · Chemistry · #Ubiquitin and proteasome pathways #Advanced Proteomics Techniques and Applications #Machine Learning in Bioinformatics
37. A coarse-grained model for simulations of phosphorylated disordered proteins
    2025/03/20 by Arriën Symon Rauh, Gustav Stausbøll Hedemark, Giulio Tesei +1 · 1 voice · 2 citations
    Mathematics · #Stochastic processes and statistical mechanics
38. Prediction of phase separation propensities of disordered proteins from sequence
    2024/06/03 by Sören von Bülow, Giulio Tesei, Kresten Lindorff‐Larsen · 1 voice · 1 citation
    Biochemistry, Genetics and Molecular Biology · #Protein Structure and Dynamics #RNA Research and Splicing #RNA modifications and cancer
39. Towards a Unified Framework for Determining Conformational Ensembles of Disordered Proteins
    2025/04/04 by Hamidreza Ghafouri, Pavel Kadeřávek, Ghafouri, Hamidreza +58 · 2 voices · 1 citation
    Biochemistry, Genetics and Molecular Biology · Computer Science · #Bioinformatics and Genomic Networks #Computational Drug Discovery Methods #Protein Structure and Dynamics #q-bio.BM #q-bio.QM
40. Structure-Based Experimental Datasets for Benchmarking Protein Simulation Force Fields [Article v1.0]
    2025/10/10 by Chapin E. Cavender, David A. Case, Julian C.‐H. Chen +11 · 1 voice · 1 citation
    Biochemistry, Genetics and Molecular Biology · Chemistry · Materials Science · #Advanced Proteomics Techniques and Applications #Enzyme Structure and Function #Protein Structure and Dynamics
41. Predicting absolute protein folding stability using generative models
    2024/03/15 by Matteo Cagiada, Sergey Ovchinnikov, Kresten Lindorff‐Larsen · 1 voice · 1 citation
    Biochemistry, Genetics and Molecular Biology · Materials Science · #Protein Structure and Dynamics #Enzyme Structure and Function #Microbial Metabolic Engineering and Bioproduction
42. Increasing protein stability by inferring substitution effects from high-throughput experiments
    2022/11/01 by Rasmus K. Norrild, Kristoffer E. Johansson, Charlotte O’Shea +3 · 1 voice · 3 citations
    Biochemistry, Genetics and Molecular Biology · Environmental Science · #RNA and protein synthesis mechanisms #CRISPR and Genetic Engineering #Bacteriophages and microbial interactions
43. Predicting absolute protein folding stability using generative models
    2024/12/14 by Matteo Cagiada, Sergey Ovchinnikov, Kresten Lindorff‐Larsen · 1 voice · 1 citation
    Biochemistry, Genetics and Molecular Biology · Materials Science · #Protein Structure and Dynamics #Enzyme Structure and Function #Microbial Metabolic Engineering and Bioproduction