Amelie Stein
Associate Professor
Computational and RNA Biology
Ole Maaløes Vej 5
2200 København N.
- Published
Lynch syndrome, molecular mechanisms and variant classification
Abildgaard, A. B., Nielsen, S., Bernstein, I., Stein, Amelie, Lindorff-Larsen, Kresten & Hartmann-Petersen, Rasmus, 2023, In: British Journal of Cancer. 128, 9 p.Research output: Contribution to journal › Review › Research › peer-review
- Published
Co-Chaperones in Targeting and Delivery of Misfolded Proteins to the 26S Proteasome
Abildgaard, A. B., Gersing, S. K., Larsen-Ledet, Sven, Nielsen, S. V., Stein, Amelie, Lindorff-Larsen, Kresten & Hartmann-Petersen, Rasmus, 2020, In: Biomolecules. 10, 8, 24 p., 1141.Research output: Contribution to journal › Review › Research › peer-review
- Published
Computational and cellular studies reveal structural destabilization and degradation of MLH1 variants in Lynch syndrome
Abildgaard, A. B., Stein, Amelie, Nielsen, S. V., Schultz-Knudsen, Katrine, Papaleo, E., Shrikhande, A., Hoffmann, Eva, Bernstein, I., Gerdes, Anne-Marie Axø, Takahashi, M., Ishioka, C., Lindorff-Larsen, Kresten & Hartmann-Petersen, Rasmus, 2019, In: eLife. 8, 28 p., e49138 .Research output: Contribution to journal › Journal article › Research › peer-review
- Published
HSP70-binding motifs function as protein quality control degrons
Abildgaard, A. B., Voutsinos, Vasileios, Petersen, S. D., Larsen, Fia Brunsgaard Valsted, Kampmeyer, Caroline, Johansson, Kristoffer Enøe, Stein, Amelie, Ravid, T., Andréasson, C., Jensen, M. K., Lindorff-Larsen, Kresten & Hartmann-Petersen, Rasmus, 2023, In: Cellular and Molecular Life Sciences. 80, 1, 17 p., 32.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A structural biology community assessment of AlphaFold2 applications
Akdel, M., Pires, D. E., Porta Pardo, E., Jänes, J., Zalevsky, A. O., Meszaros, B., Bryant, P., Good, L. L., Laskowski, R. A., Pozzati, G., Shenoy, A., Zhu, W., Kundrotas, P., Serra, V. R., Rodrigues, C. H. M., Dunham, A. S., Burke, D., Borkakoti, N., Velankar, S., Frost, A. & 14 others, , 2022, In: Nature Structural & Molecular Biology. 29, 11, 16 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Rapid protein stability prediction using deep learning representations
Blaabjerg, Lasse Møller, Kassem, M. M., Good, L. L., Jonsson, Nicolas, Cagiada, Matteo, Johansson, Kristoffer Enøe, Boomsma, Wouter, Stein, Amelie & Lindorff-Larsen, Kresten, 2023, In: eLife. 12, 19 p., e82593.Research output: Contribution to journal › Journal article › Research › peer-review
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Understanding the Origins of Loss of Protein Function by Analyzing the Effects of Thousands of Variants on Activity and Abundance
Cagiada, Matteo, Johansson, Kristoffer Enøe, Valanciute, A., Nielsen, S. V., Hartmann-Petersen, Rasmus, Yang, J. J., Fowler, D. M., Stein, Amelie & Lindorff-Larsen, Kresten, 2021, In: Molecular Biology and Evolution. 38, 8, p. 3235-3246Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Discovering functionally important sites in proteins
Cagiada, Matteo, Bottaro, S., Lindemose, Søren, Schenstrøm, S. M., Stein, Amelie, Hartmann-Petersen, Rasmus & Lindorff-Larsen, Kresten, 2023, In: Nature Communications. 14, 1, 13 p., 4175.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Folliculin variants linked to Birt-Hogg-Dubé syndrome are targeted for proteasomal degradation
Bjørnkjær, Lene, Stein, Amelie, Grønbæk-Thygesen, Martin, Nygaard, L., Søltoft, C. L., Nielsen, S. V., Lisby, Michael, Ravid, T., Lindorff-Larsen, Kresten & Hartmann-Petersen, Rasmus, 2020, In: PLOS Genetics. 16, 11, 28 p., e1009187.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A mutational atlas for Parkin proteostasis
Clausen, L., Voutsinos, Vasileios, Cagiada, Matteo, Johansson, Kristoffer Enøe, Grønbæk-Thygesen, Martin, Nariya, S., Powell, R. L., Have, M. K. N., Østergaard, Vibe Hallundbæk, Stein, Amelie, Fowler, D. M., Lindorff-Larsen, Kresten & Hartmann-Petersen, Rasmus, 2024, In: Nature Communications. 15, 1, 17 p., 1541.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Protein stability and degradation in health and disease
Bjørnkjær, Lene, Abildgaard, A. B., Gersing, S. K., Stein, Amelie, Lindorff-Larsen, Kresten & Hartmann-Petersen, Rasmus, 2019, Molecular Chaperones in Human Disorders. Donev, R. (ed.). Academic Press, p. 61-83 (Advances in Protein Chemistry and Structural Biology, Vol. 114).Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research › peer-review
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A comprehensive map of human glucokinase variant activity
Gersing, S., Cagiada, Matteo, Gebbia, M., Gjesing, A. P., Coté, A. G., Seesankar, G., Li, R., Tabet, D., Weile, J., Stein, Amelie, Gloyn, A. L., Hansen, Torben, Roth, F. P., Lindorff-Larsen, Kresten & Hartmann-Petersen, Rasmus, 2023, In: Genome Biology. 24, 1, 23 p., 97.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Characterizing glucokinase variant mechanisms using a multiplexed abundance assay
Gersing, S., Schulze, Thea Klarsø, Cagiada, Matteo, Stein, Amelie, Roth, F. P., Lindorff-Larsen, Kresten & Hartmann-Petersen, Rasmus, 2024, In: Genome Biology. 25, 1, 22 p., 98.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Mapping the degradation pathway of a disease-linked aspartoacylase variant
Gersing, S. K., Wang, Y., Grønbæk-Thygesen, Martin, Kampmeyer, Caroline, Bjørnkjær, Lene, Willemoës, Martin, Andréasson, C., Stein, Amelie, Lindorff-Larsen, Kresten & Hartmann-Petersen, Rasmus, 2021, In: PLOS Genetics. 17, 4, 28 p., e1009539.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Deep mutational scanning reveals a correlation between degradation and toxicity of thousands of aspartoacylase variants
Grønbæk-Thygesen, Martin, Voutsinos, Vasileios, Johansson, Kristoffer Enøe, Schulze, Thea Klarsø, Cagiada, Matteo, Pedersen, Line, Clausen, L., Nariya, S., Powell, R. L., Stein, Amelie, Fowler, D. M., Lindorff-Larsen, Kresten & Hartmann-Petersen, Rasmus, 2024, In: Nature Communications. 15, 1, 18 p., 4026.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Predicting and interpreting large-scale mutagenesis data using analyses of protein stability and conservation
Høie, M. H., Cagiada, Matteo, Frederiksen, A. H. B., Stein, Amelie & Lindorff-Larsen, Kresten, 2022, In: Cell Reports. 38, 2, 15 p., 110207.Research output: Contribution to journal › Journal article › Research › peer-review
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Classifying disease-associated variants using measures of protein activity and stability
Jepsen, M. M., Fowler, D. M., Hartmann-Petersen, Rasmus, Stein, Amelie & Lindorff-Larsen, Kresten, 2020, Protein Homeostasis Diseases: Mechanisms and Novel Therapies. Pey, A. L. (ed.). Elsevier, p. 91-107Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research › peer-review
- Published
Blocking protein quality control to counter hereditary cancers
Kampmeyer, Caroline, Nielsen, S. V., Bjørnkjær, Lene, Stein, Amelie, Gerdes, Anne-Marie Axø, Lindorff-Larsen, Kresten & Hartmann-Petersen, Rasmus, Dec 2017, In: Genes, Chromosomes & Cancer. 56, 12, p. 823-831 9 p.Research output: Contribution to journal › Review › Research › peer-review
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Disease-linked mutations cause exposure of a protein quality control degron
Kampmeyer, Caroline, Larsen-Ledet, Sven, Wagnkilde, M. R., Michelsen, M., Iversen, Henriette Kring Mangor, Nielsen, S. V., Lindemose, Søren, Caregnato, A., Ravid, T., Stein, Amelie, Teilum, Kaare, Lindorff-Larsen, Kresten & Hartmann-Petersen, Rasmus, 2022, In: Structure. 30, 9, p. 1245-1253.e5Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Novel HARS2 missense variants identified in individuals with sensorineural hearing impairment and Perrault syndrome
Karstensen, H. G., Rendtorff, N. D., Hindbæk, L. S., Colombo, R., Stein, Amelie, Birkebæk, N. H., Hartmann-Petersen, Rasmus, Lindorff-Larsen, Kresten, Højland, A. T., Petersen, M. B. & Tranebjærg, Lisbeth, 2020, In: European Journal of Medical Genetics. 63, 3, 6 p., 103733.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Ensuring scientific reproducibility in bio-macromolecular modeling via extensive, automated benchmarks
Koehler Leman, J., Lyskov, S., Lewis, S. M., Adolf-Bryfogle, J., Alford, R. F., Barlow, K., Ben-Aharon, Z., Farrell, D., Fell, J., Hansen, W. A., Harmalkar, A., Jeliazkov, J., Kuenze, G., Krys, J. D., Ljubetič, A., Loshbaugh, A. L., Maguire, J., Moretti, R., Mulligan, V. K., Nance, M. L. & 30 others, , 2021, In: Nature Communications. 12, 15 p., 6947.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Co-evolution of drug resistance and broadened substrate recognition in HIV protease variants isolated from an Escherichia coli genetic selection system
Koivisto, J. M., Poulsen, N. R., Larsen, B. S., Weibull, M. G. M., Stein, Amelie, Doro, F., Winther, Jakob R., Lindorff-Larsen, Kresten & Willemoës, Martin, 2022, In: The Biochemical journal. 479, 4, p. 479-501Research output: Contribution to journal › Journal article › Research › peer-review
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Rare Catechol-O-methyltransferase Missense Variants Are Structurally Unstable Proteasome Targets
Larsen, Fia Brunsgaard Valsted, Cagiada, Matteo, Dideriksen, J., Stein, Amelie, Lindorff-Larsen, Kresten & Hartmann-Petersen, Rasmus, 2023, In: Biochemistry. 62, 8, 12 p.Research output: Contribution to journal › Journal article › Research › peer-review
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24 Messages on a Sustainable Career in Research at UCPH
Larsen, K. R. (ed.), Wegener, H. C., Stein, A., Bach, A., Williams, A. R., Gall, C., Gravert, C., Gloriam, D. E., Lorenzen, E., Yvanez, E., Cappellini, E., Poulsen, F., Mortensen, J., Bentzen, J. S., Shik, J. Z., Miskowiak, K. W., Elgaard, K. K. E., Jønsson, K. A., Won, K. J., Nørgaard, L. C. & 9 others, , 2020, University of Copenhagen. 31 p.Research output: Book/Report › Report › Communication
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Mind the gap
Larsen-Ledet, Sven & Stein, Amelie, 2023, In: Structure. 31, 6, p. 641-643 3 p.Research output: Contribution to journal › Comment/debate › Research › peer-review
3did: a catalog of domain-based interactions of known three-dimensional structure
Mosca, R., Céol, A., Stein, Amelie, Olivella, R. & Aloy, P., 2014, In: Nucleic Acids Research. 42, D1, p. D374-D379Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Predicting the impact of Lynch syndrome-causing missense mutations from structural calculations
Nielsen, S. V., Stein, Amelie, Dinitzen, A. B., Papaleo, E., Tatham, M. H., Poulsen, E. G., Kassem, M. M., Rasmussen, Lene Juel, Lindorff-Larsen, Kresten & Hartmann-Petersen, Rasmus, 19 Apr 2017, In: PLoS Genetics. 13, 4, 26 p., e1006739.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Multiplexed assays reveal effects of missense variants in MSH2 and cancer predisposition
Nielsen, S. V., Hartmann-Petersen, Rasmus, Stein, Amelie & Lindorff-Larsen, Kresten, 2021, In: PLOS Genetics. 17, 4, 6 p., e1009496.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Protein destabilization and degradation as a mechanism for hereditary disease
Nielsen, S. V., Schenstrøm, S. M., Christensen, Caspar Elo, Stein, Amelie, Lindorff-Larsen, Kresten & Hartmann-Petersen, Rasmus, 2020, Protein Homeostasis Diseases: Mechanisms and Novel Therapies. Pey, A. L. (ed.). Elsevier, p. 111-125Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research › peer-review
Combined covalent-electrostatic model of hydrogen bonding improves structure prediction with Rosetta
O'Meara, M. J., Leaver-Fay, A., Tyka, M. D., Stein, Amelie, Houlihan, K., DiMaio, F., Bradley, P., Kortemme, T., Baker, D., Snoeyink, J. & Kuhlman, B., 2015, In: Journal of Chemical Theory and Computation. 11, 2, p. 609-622 14 p.Research output: Contribution to journal › Journal article › Research › peer-review
- E-pub ahead of print
MutationExplorer: a webserver for mutation of proteins and 3D visualization of energetic impacts
Philipp, M., Moth, C. W., Ristic, N., Tiemann, Johanna Katarina Sofie, Seufert, F., Panfilova, Aleksandra, Meiler, J., Hildebrand, P. W., Stein, Amelie, Wiegreffe, D. & Staritzbichler, R., 2024, (E-pub ahead of print) In: Nucleic Acids Research. gkae301.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Random mutagenesis analysis of the Influenza A M2 proton channel reveals novel resistance mutants
Santner, P., Martins, J. M. D. S., Kampmeyer, Caroline, Hartmann-Petersen, Rasmus, Laursen, J. S., Stein, Amelie, Olsen, Christian Adam, Arkin, I. T., Winther, Jakob R., Willemoës, Martin & Lindorff-Larsen, Kresten, 2018, In: Biochemistry. 57, 41, p. 5957-5968Research output: Contribution to journal › Journal article › Research › peer-review
Uncovering new substrates for Aurora A kinase
Sardon, T., Pache, R. A., Stein, Amelie, Molina, H., Vernos, I. & Aloy, P., 2010, In: EMBO Reports. 11, 12, p. 977-984 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Toward mechanistic models for genotype-phenotype correlations in phenylketonuria using protein stability calculations
Scheller, R., Stein, Amelie, Nielsen, S. V., Marin, F. I., Gerdes, Anne-Marie Axø, Di Marco, M., Papaleo, E., Lindorff-Larsen, Kresten & Hartmann-Petersen, Rasmus, 2019, In: Human Mutation. 40, 4, p. 444-457Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Disorder in a two-domain neuronal Ca2+-binding protein regulates domain stability and dynamics using ligand mimicry
Staby, L., Kemplen, K. R., Stein, Amelie, Ploug, Michael, Clarke, J., Skriver, Karen, Heidarsson, P. O. & Kragelund, Birthe Brandt, 2021, In: Cellular and molecular life sciences : CMLS. 78, p. 2263-2278 16 p.Research output: Contribution to journal › Journal article › Research › peer-review
Improvements to robotics-inspired conformational sampling in Rosetta
Stein, Amelie & Kortemme, T., 2013, In: PLoS ONE. 8, 5, p. 1-13 e63090.Research output: Contribution to journal › Journal article › Research › peer-review
Novel peptide-mediated interactions derived from high-resolution 3-dimensional structures
Stein, Amelie & Aloy, P., 20 May 2010, In: PLOS Computational Biology. 6, 5, p. e1000789Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Biophysical and Mechanistic Models for Disease-Causing Protein Variants
Stein, Amelie, Fowler, D. M., Hartmann-Petersen, Rasmus & Lindorff-Larsen, Kresten, 2019, In: Trends in Biochemical Sciences. 44, 7, p. 575-588Research output: Contribution to journal › Review › Research › peer-review
- Published
Interpreting the molecular mechanisms of disease variants in human transmembrane proteins
Tiemann, Johanna Katarina Sofie, Zschach, Henrike, Lindorff-Larsen, Kresten & Stein, Amelie, 2023, In: Biophysical Journal. 122, 11, 16 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Accurate protein stability predictions from homology models
Valanciute, A., Nygaard, L., Zschach, Henrike, Maglegaard Jepsen, M., Lindorff-Larsen, Kresten & Stein, Amelie, 2023, In: Computational and Structural Biotechnology Journal. 21, p. 66-73 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
ID: 144764550
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296
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Predicting the impact of Lynch syndrome-causing missense mutations from structural calculations
Research output: Contribution to journal › Journal article › Research › peer-review
Published -
165
downloads
Computational and cellular studies reveal structural destabilization and degradation of MLH1 variants in Lynch syndrome
Research output: Contribution to journal › Journal article › Research › peer-review
Published -
98
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Co-Chaperones in Targeting and Delivery of Misfolded Proteins to the 26S Proteasome
Research output: Contribution to journal › Review › Research › peer-review
Published