eprintid: 10106006 rev_number: 24 eprint_status: archive userid: 608 dir: disk0/10/10/60/06 datestamp: 2020-07-23 13:23:16 lastmod: 2021-09-17 22:27:22 status_changed: 2020-07-23 13:23:16 type: article metadata_visibility: show creators_name: Ning, L creators_name: Bonet-Carne, E creators_name: Grussu, F creators_name: Sepehrband, F creators_name: Kaden, E creators_name: Veraart, J creators_name: Blumberg, SB creators_name: Khoo, CS creators_name: Palombo, M creators_name: Kokkinos, I creators_name: Alexander, DC creators_name: Coll-Font, J creators_name: Scherrer, B creators_name: Warfield, SK creators_name: Karayumak, SC creators_name: Rathi, Y creators_name: Koppers, S creators_name: Weninger, L creators_name: Ebert, J creators_name: Merhof, D creators_name: Moyer, D creators_name: Pietsch, M creators_name: Christiaens, D creators_name: Gomes Teixeira, RA creators_name: Tournier, J-D creators_name: Schilling, KG creators_name: Huo, Y creators_name: Nath, V creators_name: Hansen, C creators_name: Blaber, J creators_name: Landman, BA creators_name: Zhylka, A creators_name: Pluim, J creators_name: Parker, G creators_name: Rudrapatna, U creators_name: Evans, J creators_name: Charron, C creators_name: Jones, DK creators_name: Tax, CMW title: Cross-scanner and cross-protocol multi-shell diffusion MRI data harmonization: algorithms and results ispublished: pub divisions: UCL divisions: B02 divisions: C07 divisions: D07 divisions: F87 divisions: B04 divisions: C05 divisions: F48 keywords: Deep learning, Harmonization, Multi-shell Diffusion MRI, Regression, Spherical harmonics note: This work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ abstract: Cross-scanner and cross-protocol variability of diffusion magnetic resonance imaging (dMRI) data are known to be major obstacles in multi-site clinical studies since they limit the ability to aggregate dMRI data and derived measures. Computational algorithms that harmonize the data and minimize such variability are critical to reliably combine datasets acquired from different scanners and/or protocols, thus improving the statistical power and sensitivity of multi-site studies. Different computational approaches have been proposed to harmonize diffusion MRI data or remove scanner-specific differences. To date, these methods have mostly been developed for or evaluated on single b-value diffusion MRI data. In this work, we present the evaluation results of 19 algorithms that are developed to harmonize the cross-scanner and cross-protocol variability of multi-shell diffusion MRI using a benchmark database. The proposed algorithms rely on various signal representation approaches and computational tools, such as rotational invariant spherical harmonics, deep neural networks and hybrid biophysical and statistical approaches. The benchmark database consists of data acquired from the same subjects on two scanners with different maximum gradient strength (80 and 300 mT/m) and with two protocols. We evaluated the performance of these algorithms for mapping multi-shell diffusion MRI data across scanners and across protocols using several state-of-the-art imaging measures. The results show that data harmonization algorithms can reduce the cross-scanner and cross-protocol variabilities to a similar level as scan-rescan variability using the same scanner and protocol. In particular, the LinearRISH algorithm based on adaptive linear mapping of rotational invariant spherical harmonics features yields the lowest variability for our data in predicting the fractional anisotropy (FA), mean diffusivity (MD), mean kurtosis (MK) and the rotationally invariant spherical harmonic (RISH) features. But other algorithms, such as DIAMOND, SHResNet, DIQT, CMResNet show further improvement in harmonizing the return-to-origin probability (RTOP). The performance of different approaches provides useful guidelines on data harmonization in future multi-site studies. date: 2020-07-13 date_type: published official_url: https://doi.org/10.1016/j.neuroimage.2020.117128 oa_status: green full_text_type: pub language: eng primo: open primo_central: open_green verified: verified_manual elements_id: 1798587 doi: 10.1016/j.neuroimage.2020.117128 pii: S1053-8119(20)30614-5 lyricists_name: Alexander, Daniel lyricists_name: Blumberg, Stefano lyricists_name: Bonet-Carne, Elisenda lyricists_name: Grussu, Francesco lyricists_name: Kaden, Enrico lyricists_name: Kokkinos, Iason lyricists_name: Palombo, Marco lyricists_id: DALEX06 lyricists_id: SBBLU25 lyricists_id: EBONE62 lyricists_id: FGRUS85 lyricists_id: EKADE72 lyricists_id: IKOKK25 lyricists_id: MPALO05 actors_name: Flynn, Bernadette actors_id: BFFLY94 actors_role: owner full_text_status: public publication: NeuroImage volume: 221 article_number: 117128 event_location: United States citation: Ning, L; Bonet-Carne, E; Grussu, F; Sepehrband, F; Kaden, E; Veraart, J; Blumberg, SB; ... Tax, CMW; + view all <#> Ning, L; Bonet-Carne, E; Grussu, F; Sepehrband, F; Kaden, E; Veraart, J; Blumberg, SB; Khoo, CS; Palombo, M; Kokkinos, I; Alexander, DC; Coll-Font, J; Scherrer, B; Warfield, SK; Karayumak, SC; Rathi, Y; Koppers, S; Weninger, L; Ebert, J; Merhof, D; Moyer, D; Pietsch, M; Christiaens, D; Gomes Teixeira, RA; Tournier, J-D; Schilling, KG; Huo, Y; Nath, V; Hansen, C; Blaber, J; Landman, BA; Zhylka, A; Pluim, J; Parker, G; Rudrapatna, U; Evans, J; Charron, C; Jones, DK; Tax, CMW; - view fewer <#> (2020) Cross-scanner and cross-protocol multi-shell diffusion MRI data harmonization: algorithms and results. NeuroImage , 221 , Article 117128. 10.1016/j.neuroimage.2020.117128 <https://doi.org/10.1016/j.neuroimage.2020.117128>. Green open access document_url: https://discovery.ucl.ac.uk/id/eprint/10106006/1/1-s2.0-S1053811920306145-main.pdf