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1. Karakuzu, A., Biswas, L., Cohen-Adad, J. and Stikov, N., 2022. Vendor-neutral sequences and fully transparent workflows improve inter-vendor reproducibility of quantitative MRI. Magnetic Resonance in Medicine, 88(3), pp.1212-1228. doi: 10.1002/mrm.29292. [doi]
2. Karakuzu A, Boudreau M, Stikov N., 2024. Reproducible Research Practices in Magnetic Resonance Neuroimaging: A Review Informed by Advanced Language Models. Magn Reson Med Sci.; 23(3):252-267. doi: 10.2463/mrms.rev.2023-0174. [doi]
3. Warrington S, Ntata A, Mougin O, Campbell J, Torchi A, Craig M, Alfaro-Almagro F, Miller KL, Morgan PS, Jenkinson M, Sotiropoulos SN., 2023. A resource for development and comparison of multimodal brain 3 T MRI harmonisation approaches. Imaging Neurosci (Camb).; 1:imag-1-00042. doi: 10.1162/imag_a_00042. [doi]
4. Nielsen JF, Egan MK, Chen Q, Shafiekhani M, Soldate JS, Lisinksi J, LaConte SM, Sutton BP, Waggoner RA, Fessler JA, Noll DC, Zaitsev M, Peltier SJ., 2025. A vendor-neutral functional MRI acquisition protocol for multi-site studies. medRxiv. doi: 10.1101/2025.08.27.25334579. [doi]
5. Layton, K.J., Kroboth, S., Jia, F., Littin, S., Yu, H., Leupold, J., Nielsen, J.F., Stöcker, T. and Zaitsev, M., 2017. Pulseq: a rapid and hardware-independent pulse sequence prototyping framework. Magnetic resonance in medicine, 77(4), pp.1544-1552.
6. Cordes, C., Konstandin, S., Porter, D. and Günther, M., 2020. Portable and platform-independent MR pulse sequence programs. Magnetic resonance in medicine, 83(4), pp.1277-1290.
7. Open file format for MR sequences: https://pulseq.github.io/specification.pdf
8. Kluge, T. and Forman, C., 2025. Sequence Description Language: Enabling Real-Time Applications in the Remote Sequence Interface for Open Innovation. Proceedings of ISMRM, #5207.
9. Shafiekhani, M., Kluge, T., Wilhelm-Feldbusch, B., Hucker, P., Forman, C., Schneider, R., Zaitsev, M., 2025. Python-based Pulseq Client to the Remote Sequence Streaming Interface. Proceedings of ISMRM, #3193.
10. Ravi, K.S., Geethanath, S. and Vaughan, J.T., 2019. PyPulseq: A python package for MRI pulse sequence design. Journal of Open Source Software, 4(42), p.1725.