Wang, J., Jensen, U. B., Jensen, G. V., Shipovskov, S., Balakrishnan, V. S., Otzen, D., Pedersen, J. S., Besenbacher, F. & Sutherland, D. S. (2011). Soft Interactions at Nanoparticles Alter Protein Function and Conformation in a Size Dependent Manner. Nano Letters, 11(11), 4985-4991. https://doi.org/10.1021/nl202940k

Behrens, M. A., Kjøniksen, A.-L., Zhu, K., Nyström, B. & Pedersen, J. S. (2012). Small-Angle X-ray Scattering Study of Charged Triblock Copolymers as a Function of Polymer Concentration, Temperature, and Charge Screening. Macromolecules, 45(1), 246-255. https://doi.org/10.1021/ma2016216

Lyngsø, J., Al-Manasir, N., Behrens, M. A., Zhu, K., Kjøniksen, A.-L., Nyström, B. & Pedersen, J. S. (2015). Small-Angle X-ray Scattering Studies of Thermoresponsive Poly(N-isopropylacrylamide) Star Polymers in Water: Macromolecules. Macromolecules, 48(7), 2235-2243. https://doi.org/10.1021/acs.macromol.5b00057

Carrotta, R., Arleth, L., Pedersen, J. S. & Bauer, R. (2003). Small-angle x-ray scattering studies of metastable intermediates of beta-lactoglobulin isolated after heat-induced aggregation. Biopolymers, 70, 377-390.

Lytje, K. & Pedersen, J. S. (2025). Small-angle X-ray scattering profile calculation for high-resolution models of biomacromolecules. Journal of Applied Crystallography, 58(Pt 4), 1332-1346. https://doi.org/10.1107/S160057672500562X

Kaspersen, J. D., Turunen, M. J., Mathavan, N., Lages, S., Pedersen, J. S., Olsson, U. & Isaksson, H. (2016). Small-Angle X-ray Scattering Demonstrates Similar Nanostructure in Cortical Bone from Young Adult Animals of Different Species. Calcified Tissue International, 99(1), 76-87. https://doi.org/10.1007/s00223-016-0120-z

Plazzotta, B., Diget, J. S., Zhu, K., Nyström, B. & Pedersen, J. S. (2016). Small-Angle X-Ray Scattering as a Useful Supplementary Technique to Determine Molecular Masses of Polyelectrolytes in Solution. Journal of Polymer Science. Part B, Polymer Physics, 54(19), 1913-1917. https://doi.org/10.1002/polb.24107

Jeffries, C. M., Ilavsky, J., Martel, A., Hindrichs, S., Meyer, A., Pedersen, J. S., Sokolova, A. V. & Svergun, D. I. (2021). Small-angle X-ray and neutron scattering. Nature Reviews Methods Primers, 1(1), Article 70. https://doi.org/10.1038/s43586-021-00064-9

Castelletto, V., Hamley, I. W. & Pedersen, J. S. (2004). Small-angle neutron scattering study of the structure of superswollen micelles formed by a highly asymmetric poly(oxybutylene)-poly(oxyethylene) diblock copolymer in aqueous solution. Langmuir, 20(7), 2992-2994.

Arleth, L., Bergstrom, M. & Pedersen, J. S. (2002). Small-angle neutron scattering study of the growth behavior, flexibility, and intermicellar interactions of wormlike SDS micelles in NaBr aqueous solutions. Langmuir, 18, 5343-5353.

Stieger, M., Richtering, W., Pedersen, J. S. & Lindner, P. (2004). Small-angle neutron scattering study of structural changes in temperature sensitive microgel colloids. Journal of Chemical Physics, 120(13), 6197-6206.

Calderon, R. G., Barquin, L. F., Kaul, L. F., Sal, J. C. G., Gorria, P., Pedersen, J. S. & Heenan, R. K. (2005). Small-angle neutron scattering study of a magnetically inhomogeneous amorphous alloy with reentrant behavior. Physical Review B, 71, 1-9.

Moscheni, D., Bertolotti, F., Piveteau, L., Protesescu, L., Dirin, D. N., Kovalenko, M. V., Cervellino, A., Pedersen, J. S., Masciocchi, N. & Guagliardi, A. (2018). Size-Dependent Fault-Driven Relaxation and Faceting in Zincblende CdSe Colloidal Quantum Dots. ACS Nano, 12(12), 12558-12570. https://doi.org/10.1021/acsnano.8b07092

Cannavacciuolo, L., Pedersen, J. S. & Schurtenberger, P. (2002). Single-coil properties and concentration effects for polyelectrolyte-like wormlike micelles: a Monte Carlo study. Journal of Physics: Condensed Matter, 14, 2283-2295.

Oteri, F., Falconi, M., Chillemi, G., Andersen, F. F., Oliveira, C. L. P., Pedersen, J. S., Knudsen, B. R. & Desideri, A. (2011). Simulative Analysis of a Truncated Octahedral DNA Nano-Cage Family Indicates the Single-Stranded Thymidine Linkers as the Major Player for the Conformational Variability. Journal of Physical Chemistry Part C: Nanomaterials and Interfaces, 115(34), 16819-16827.

Madenci, D., Salonen, A., Schurtenberger, P., Pedersen, J. S. & Egelhaaf, S. U. (2011). Simple model for the growth behaviour of mixed lecithin–bile salt micelles. Physical Chemistry Chemical Physics, 13(8), 3171–3178. https://doi.org/10.1039/c0cp01700k

Nordström, J., Sundblom, A., Jensen, G. V., Pedersen, J. S., Palmqvist, A. & Matic, A. (2013). Silica/alkali ratio dependence of the microscopic structure of sodium silicate solutions. Journal of Colloid and Interface Science, 397, 9-17. https://doi.org/10.1016/j.jcis.2013.01.048

Krogsgaard, M., Behrens, M. A., Pedersen, J. S. & Birkedal, H. (2013). Self-Healing Mussel-Inspired Multi-pH-Responsive Hydrogels. Biomacromolecules, 14(2), 297-301. https://doi.org/10.1021/bm301844u

Andersen, E. S., Dong, M., Nielsen, M. M., Jahn, K., Subramani, R., Mamdouh, W., Golas, M. M., Sander, B., Stark, H., Oliveira, C. L. P., Pedersen, J. S., Birkedal, V., Besenbacher, F., Gothelf, K. V. & Kjems, J. (2009). Self-assembly of a nanoscale DNA box with a controllable lid. Nature, 459(7243), 73-6. https://doi.org/10.1038/nature07971

Hamley, I. W., Castelletto, V., Moulton, C., Myatt, D., Siligardi, G., Oliveira, C. L. P., Pedersen, J. S., Abutbul, I. & Danino, D. (2010). Self-assembly of a modified amyloid peptide fragment: pH-responsiveness and nematic phase formation. Macromolecular Bioscience, 10(1), 40-8. https://doi.org/10.1002/mabi.200900217

Efthymiou, C., Bergström, L. M., Pedersen, J. N., Pedersen, J. S. & Hansson, P. (2021). Self-assembling properties of ionisable amphiphilic drugs in aqueous solution. Journal of Colloid and Interface Science, 600, 701-710. https://doi.org/10.1016/j.jcis.2021.05.049

Giehm, L., Oliveira, C. L. P. D., Christiansen, G., Pedersen, J. S. & Otzen, D. (2010). SDS-Induced Fibrillation of α-Synuclein: An Alternative Fibrillation Pathway. Journal of Molecular Biology, 401, 115-133. https://doi.org/10.1016/j.jmb.2010.05.060

Giehm, L., Oliveira, C. L. P., Christiansen, G. & Pedersen, J. S. (2010). SDS-induced fibrillation of alpha-synuclein: an alternative fibrillation pathway. Asia Pacific Journal of Molecular Biology & Biotechnology, 401(1), 115-33. https://doi.org/10.1016/j.jmb.2010.05.060

Pedersen, J. S. & Schurtenberger, P. (2004). Scattering functions of semidilute solutions of polymers in a good solvent. Journal of Polymer Science. Part B, Polymer Physics, 42, 3081-3094.

Pedersen, J. S., Cannavaccioulo, L. & Schurtenberger, P. (2007). Scattering from Wormlike Micelles. Surfactant Science Series, 140, 179-222.

Garamus, V. M., Pedersen, J. S., Maeda, H. & Schurtenberger, P. (2003). Scattering from short stiff cylindrical micelles formed by fully ionized TDAO in NaCl/water solutions. Langmuir, 19, 3656-3665.

Pedersen, J. S. & Svaneborg, C. (2002). Scattering from block copolymer micelles. Current Opinion in Colloid & Interface Science, 7, 158-166.

Oliveira, C. L. P. D., Behrens, M. A., Pedersen, J. S., Erlacher, K., Otzen, D. & Pedersen, J. S. (2009). SAXS Study of Glucagon Fibrillation: From Monomers to Fibers. Journal of Molecular Biology, 387, 147-161.

Basaiawmoit, R. V., Oliveira, C. L. P., Runager, K., Sørensen, C. S., Behrens, M. A., Jonsson, B.-H., Kristensen, T., Klintworth, G. K., Enghild, J. J., Pedersen, J. S. & Otzen, D. E. (2011). SAXS models of TGFBIp reveal a trimeric structure and show that the overall shape is not affected by the Arg124His mutation. Journal of Molecular Biology, 408(3), 503-513. https://doi.org/10.1016/j.jmb.2011.02.052

Angelov, B., Angelova, A., Mutafchieva, R., Lesieur, S., Vainio, U., Garamus, V. M., Jensen, G. V. & Pedersen, J. S. (2011). SAXS investigation of a cubic to a sponge (L₃) phase transition in self-assembled lipid nanocarriers. Physical Chemistry Chemical Physics, 13(8), 3073-3081. https://doi.org/10.1039/C0CP01029D

Larsen, A. H., Jacobsen, J. B., Graewert, M. A., Grøndahl, L. B., Svaneborg, C., Sebastiani, F., Kikhney, A. G., Tyler, A. I. I., Kihara, S., Lytje, K., Pedersen, J. S., Moslehi, N., Voets, I., Fehér, B., Holm-Janas, V., Bruun, J., Pedersen, M. C. & Kirkensgaard, J. J. K. (2025). SAStutorials.org - online tutorials on small-angle scattering data analysis. Journal of Applied Crystallography, 58(Part 2), 603-608. https://doi.org/10.1107/S1600576725001062

Nedergaard Pedersen, J., Wilhelmus Johannes Maria Frederix, P., Skov Pedersen, J., Marrink, S. J. & Otzen, D. (2018). Role of charge and hydrophobicity in liprotide formation: a molecular dynamics study with experimental constraints. ChemBioChem, 19(3), 263–271. https://doi.org/10.1002/cbic.201700496

Castelletto, V., Hamley, I. W., Xue, W., Sommer, C., Pedersen, J. S. & Olmsted, P. D. (2004). Rheological and structural characterization of hydrophobically modified polyacrylamide solutions in the semidilute regime. Macromolecules, 37(4), 1492-1501.

Mortensen, S. A., Sander, B., Jensen, R. K., Pedersen, J. S., Golas, M., Jensenius, J. C., Hansen, A. G., Thiel, S. & Andersen, G. R. (2017). Reply to Arlaud et al. Structure of the C1 complex and the unbound C1r2s2 tetramer. Proceedings of the National Academy of Sciences (PNAS), 114(29), E5768-E5770. https://doi.org/10.1073/pnas.1704353114

Dai, J., Alaei, Z., Plazzotta, B., Pedersen, J. S. & Furó, I. (2017). Release of Solubilizate from Micelle upon Core Freezing. Journal of Physical Chemistry B, 121(45), 10353-10363. https://doi.org/10.1021/acs.jpcb.7b08912

Kaspersen, J. D., Søndergaard, A., Madsen, D. J., Otzen, D. E. & Pedersen, J. S. (2017). Refolding of SDS-Unfolded Proteins by Nonionic Surfactants. Biophysical Journal, 112(8), 1609-1620. https://doi.org/10.1016/j.bpj.2017.03.013

Ramírez-Rodríguez, G. B., Miguel-Rojas, C., Montanha, G. S., Carmona, F. J., Dal Sasso, G., Sillero, J. C., Pedersen, J. S., Masciocchi, N., Guagliardi, A., Pérez-De-luque, A. & Delgado-López, J. M. (2020). Reducing nitrogen dosage in triticum durum plants with urea-doped nanofertilizers. Nanomaterials, 10(6), Article 1043. https://doi.org/10.3390/nano10061043

Ferrer-Tasies, L., Santana, H., Cabrera-Puig, I., González-Mira, E., Ballell-Hosa, L., Castellar-Álvarez, C., Córdoba, A., Merlo-Mas, J., Gerónimo, H., Chinea, G., Falcón, V., Moreno-Calvo, E., Pedersen, J. S., Romero, J., Navarro-Requena, C., Valdés, C., Limonta, M., Berlanga, J., Sala, S. ... Ventosa, N. (2021). Recombinant Human Epidermal Growth Factor/Quatsome Nanoconjugates: A Robust Topical Delivery System for Complex Wound Healing. Advanced Therapeutics, 4(6), Article 2000260. https://doi.org/10.1002/adtp.202000260

Fogang, L. T., Solling, T. I., Pedersen, J. S., Kamal, M. S. & Sultan, A. S. (2020). Real-time monitoring of oil-induced micellar transitions in viscoelastic surfactants by small-angle X-ray scattering. Journal of Colloid and Interface Science, 580, 399-406. https://doi.org/10.1016/j.jcis.2020.07.042

Nowak, J. S., Kruuse, N., Rasmussen, H. Ø., Tian, P., Astono, J., Schultz-Nielsen, S., Thøgersen, M. S., Stougaard, P., Pedersen, J. S. & Otzen, D. E. (2025). Quaternary stabilization of a GH2 β-galactosidase from the psychrophile A. ikkensis, a flexible and unstable dimeric enzyme. Protein Science, 34(5), Article e70141. https://doi.org/10.1002/pro.70141

López Hernández, M., Pedersen, J. S. & Otzen, D. E. (2023). Proteins and biosurfactants: Structures, functions, and recent applications. Current Opinion in Colloid and Interface Science, 68, Article 101746. https://doi.org/10.1016/j.cocis.2023.101746

Broomell, C. C., Birkedal, H., Oliveira, C. L. P. D., Pedersen, J. S., Gertenbach, J.-A., Young, M. & Douglas, T. (2010). Protein cage nanoparticles as secondary building units for the synthesis of 3-dimensional coordination polymers. Soft Matter, 6, 3167-3171.

Dupont, D. M., Thuesen, C. K., Bøtkjær, K. A., Behrens, M. A., Dam, K., Sørensen, H. P., Pedersen, J. S., Ploug, M., Jensen, J. K. & Andreasen, P. A. (2015). Protein-binding RNA aptamers affect molecular interactions distantly from their binding sites. PLoS One, 10(3), 1-20. Article e0119207. https://doi.org/10.1371/journal.pone.0119207

Cannavacciuolo, L. & Pedersen, J. S. (2002). Properties of polyelectrolyte chains from analysis of angular correlation functions. Journal of Chemical Physics, 117, 8973-8982.

Madsen, J., Sørensen, T. R., Kaspersen, J. D., Silow, M. B., Vind, J., Pedersen, J. S., Svendsen, A. & Otzen, D. E. (2015). Promoting protein self-association in non-glycosylated Thermomyces lanuginosus lipase based on crystal lattice contacts. Biochimica et Biophysica Acta - Proteins and Proteomics, 154(12), 1914-1921. https://doi.org/10.1016/j.bbapap.2015.09.007

Jørgensen, J. M., Erlacher, K., Pedersen, J. S. & Gothelf, K. V. (2005). Preparation Temperature Dependence of Size and Polydispersity of Alkylthiol Monolayer Protected Gold Clusters. Langmuir, 21, 10320-10323.

Nagaraj, M., Ahmed, M., Lyngsø, J., Vad, B. S., Bøggild, A., Fillipsen, A., Pedersen, J. S., Otzen, D. E. & Akbey, Ü. (2020). Predicted Loop Regions Promote Aggregation: A Study of Amyloidogenic Domains in the Functional Amyloid FapC. Journal of Molecular Biology, 432(7), 2232-2252. https://doi.org/10.1016/j.jmb.2020.01.044

Kurnik, M., Sahin, C., Andersen, C. B., Lorenzen, N., Giehm, L., Mohammad-Beigi, H., Jessen, C. M., Pedersen, J. S., Christiansen, G., Petersen, S. V., Staal, R., Krishnamurthy, G., Pitts, K., Reinhart, P. H., Mulder, F. A. A., Mente, S., Hirst, W. D. & Otzen, D. E. (2018). Potent α-Synuclein Aggregation Inhibitors, Identified by High-Throughput Screening, Mainly Target the Monomeric State. Cell Chemical Biology, 25(11), 1389-1402. https://doi.org/10.1016/j.chembiol.2018.08.005