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Interdisciplinary Nanoscience Center

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Laboratory for catalytic nucleic acids and the onset of evolution

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Kretsch, R. C., Albrecht, R., Andersen, E. S., Chen, H.-A., Chiu, W., Das, R., Gezelle, J. G., Hartmann, M. D., Höbartner, C., Hu, Y., Jadhav, S., Johnson, P. E., Jones, C. P., Koirala, D., Kristoffersen, E. L., Largy, E., Lewicka, A., Mackereth, C. D., Marcia, M. ... Kryshtafovych, A. (2025). Functional relevance of CASP16 nucleic acid predictions as evaluated by structure providers. bioRxiv. https://doi.org/10.1101/2025.04.15.649049

Kristoffersen, E. L., McRae, E. K. S., Sørensen, N. R., Holliger, P. & Andersen, E. S. (2025). Roles of dimeric intermediates in RNA-catalyzed rolling circle synthesis. Nucleic Acids Research, 53(11), Article gkaf057. https://doi.org/10.1093/nar/gkaf057

McRae, E. K. S., Wan, C. J. K., Kristoffersen, E. L., Hansen, K., Gianni, E., Gallego, I., Curran, J. F., Attwater, J., Holliger, P. & Andersen, E. S. (2024). Cryo-EM structure and functional landscape of an RNA polymerase ribozyme. Proceedings of the National Academy of Sciences (PNAS), 121(3), e2313332121. Article e2313332121. https://doi.org/10.1073/pnas.2313332121

Kristoffersen, E. L., Coletta, A., Lund, L. M., Schiøtt, B. & Birkedal, V. (2023). Inhibited complete folding of consecutive human telomeric G-quadruplexes. Nucleic Acids Research, 51(4), 1571-1582. https://doi.org/10.1093/nar/gkad004

Kristoffersen, E. L., Burman, M., Noy, A. & Holliger, P. (2022). Rolling Circle RNA Synthesis Catalysed by RNA. eLife, 11, Article e75186. https://doi.org/10.7554/ELIFE.75186

Uhd, J., Miotke, L., Ji, H. P., Dunaeva, M., Pruijn, G. J. M., Jørgensen, C. D., Kristoffersen, E. L., Birkedal, V., Yde, C. W., Nielsen, F. C., Hansen, J. & Astakhova, K. (2020). Ultra-fast detection and quantification of nucleic acids by amplification-free fluorescence assay. Analyst, 145(17), 5836-5844. https://doi.org/10.1039/d0an00676a

Kristoffersen, E. L. & Birkedal, V. (2019). Stable Off-Path Structures in the Folding Dynamics of Two Consecutive Telomeric DNG G-Quadruplexes. 138A-138A. https://doi.org/10.1016/j.bpj.2018.11.764

Tesauro, C., Simonsen, A. K., Andersen, M. B., Petersen, K. W., Kristoffersen, E. L., Algreen, L., Hansen, N. Y., Andersen, A. B., Jakobsen, A. K., Stougaard, M., Gromov, P., Knudsen, B. R. & Gromova, I. (2019). Topoisomerase I activity and sensitivity to camptothecin in breast cancer-derived cells: a comparative study. BMC Cancer, 19(1), Article 1158. https://doi.org/10.1186/s12885-019-6371-0

Kristoffersen, E. L., Aznauryan, M. & Birkedal, V. (2018). Single-Molecule FRET Investigations of Tandem Human Telomeric G-Quadruplex Structures. Biophysical Journal, 114(3 ), 597a. https://doi.org/10.1016/j.bpj.2017.11.3261

Andersen, M., Tesauro, C., Gonzalez, M., Kristoffersen, E. L., Alonso, C., Rubiales, G., Coletta, A., Hougaard, R. F., Stougaard, M., Ho, M. Y.-P., Palacios, F. & Knudsen, B. R. (2017). Advantages of an optical nanosensor system for the mechanistic analysis of a novel topoisomerase I targeting drug: a case study. Nanoscale, 9(5), 1886-1895. https://doi.org/10.1039/C6NR06848K

Kristoffersen, E. L., Jørgensen, A. G., Jørgensen, L. A., Jensen, P. W., W Byl, J. A., Osheroff, N., Andersen, A. H., Stougaard, M., Ho, Y.-P. & Knudsen, B. R. (2017). Interlinked DNA nano-circles for measuring topoisomerase II activity at the level of single decatenation events. Nucleic Acids Research, 45(13), 7855-7869. https://doi.org/10.1093/nar/gkx480

Kristoffersen, E. L. (2016). A Study of Designed DNA Nanostructures and their use in Enzyme Activity Detection.

Kristoffersen, E. L., Jepsen, M. L., Knudsen, B. R. & Ho, Y.-P. (2016). Microfluidics-based Single Cell Analytical Platforms for Characterization of Cancer. In A. K. Howard, T. Vorup-Jensen & D. Peer (Eds.), Nanomedicine (pp. 77-95). Springer. https://doi.org/10.1007/978-1-4939-3634-2_5

Jørgensen, A. G., Kristoffersen, E. L., Petersen, K. V., Ho, Y.-P., Stougaard, M. & Knudsen, B. R. (2016). Optimized Detection of Plasmodium falciparum Topoisomerase I Enzyme Activity in a Complex Biological Sample by the Use of Molecular Beacons. Sensors, 16(11), Article 1916. https://doi.org/10.3390/s16111916

Kristoffersen, E. L., Gonzales, M., Stougaard, M. & Tesauro, C. (2015). Molecular Beacon Enables Combination of Highly Processive and Highly Sensitive Rolling Circle Amplification Readouts for Detection of DNA-Modifying Enzymes. Nano Life, 05(02). https://doi.org/10.1142/S1793984415410020

Kristoffersen, E. L., Jørgensen, L. A., Franch, O., Etzerodt, M., Frøhlich, R., Bjergbæk, L., Stougaard, M., Ho, Y.-P. & Knudsen, B. R. (2015). Real-time investigation of human topoisomerase I reaction kinetics using an optical sensor: a fast method for drug screening and determination of active enzyme concentrations. Nanoscale, 7(21), 9825-9834. https://doi.org/10.1039/c5nr01474c

Marcussen, L. B., Jepsen, M. L., Kristoffersen, E. L., Franch, O., Proszek, J., Ho, Y.-P., Stougaard, M. & Knudsen, B. R. (2013). DNA-Based Sensor for Real-Time Measurement of the Enzymatic Activity of Human Topoisomerase I. Sensors, 13(4), 4017-4028. https://doi.org/10.3390/s130404017

Jensen, P. W., Falconi, M., Kristoffersen, E. L., Simonsen, A. T., Cifuentes, J. B., Marcussen, L., Hougaard, R. F., Vagner, J., Harmsen, C., Jensen, S. J., Ho, Y.-P., Withers, M. A., Lupski, J. R., Koch, J. E., Desideri, A., Knudsen, B. R. & Stougaard, M. (2013). Real-time detection of TDP1 activity using a fluorophore-quencher coupled DNA-biosensor. Biosensors and Bioelectronics, Volume 48, 230–237. https://doi.org/10.1016/j.bios.2013.04.019

Juul, S., Iacovelli, F., Falconi, M., Kragh, S. L., Christensen, B. S., Hougaard, R. F., Franch, O., Kristoffersen, E. L., Stougaard, M., Leong, K. W., Ho, Y.-P., Sørensen, E. S., Birkedal, V., Desideri, A. & Knudsen, B. R. (2013). Temperature-Controlled Encapsulation and Release of an Active Enzyme in the Cavity of a Self-Assembled DNA Nanocage. ACS Nano, 7(11), 9724-9734. https://doi.org/10.1021/nn4030543

Juul, S., Nielsen, C. J. F., Labouriau, R., Roy, A., Tesauro, C., Jensen, P. W., Harmsen, C., Kristoffersen, E. L., Chiu, Y.-L., Hougaard, R. F., Fiorani, P., Cox-Singh, J., Tordrup, D. P., Koch, J. E., Bienvenu, A.-L., Desideri, A., Picot, S., Petersen, E., Leong, K. W. ... Knudsen, B. R. (2012). Droplet Microfluidics Platform for Highly Sensitive and Quantitative Detection of Malaria-Causing Plasmodium Parasites Based on Enzyme Activity Measurement. A C S Nano, 6(12), 10676-10683. https://doi.org/10.1021/nn3038594

Revised 13.03.2025

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Lise Refstrup Linnebjerg Pedersen