OSCR

Dipolar Order Mapping Based on Spin-Lock Magnetic Resonance Imaging.

Code ↔ Paper

13 matches between paragraphs of the paper and lines of its authors' code, computed by the harvester (lexical-v1). Click a colored paragraph or line to see its counterpart.

The 13 matches · 2 of them tie a paragraph to a whole file, not to given lines: weak matches, whose lines are not tinted
  1. [1] § Method › Phantom and In Vivo Studies › Data Processing and Analysis ↔ tractseg/data/dataset_specific_utils.py, lines 13–74 · score 0.98 · ATR_left, ATR_right, AF_right, FPT_left, FPT_right, MLF_left
  2. [2] § Theory ↔ Function/BMP_solution_ihMT.m, the whole file · a weak match · score 0.91 · local dipolar field, longitudinal relaxation rate, equilibrium magnetizations, exchange rates, dipolar relaxation, frequency offset
  3. [3] § Theory ↔ Function/cal_RATIO_dosl_acquired.m, lines 40–147 · score 0.77 · absorption lineshape, super Lorentzian, frequency offset, transverse, spin lock, field
  4. [4] § Method › Simulation Studies › Simulation Study 1: Accuracy of Quantification › Accuracy of Quantification ↔ Simulation_study_1/Accuracry_of_T1D_quantification/Simulation_study1_2.m, lines 31–83 · score 0.72 · 200–800 Hz, ground truth, 2–7 kHz, spin lock, TSL, pulses
  5. [5] § Method › Acquisition Scheme ↔ Function/cal_RATIO_dosl_acquired.m, lines 40–147 · score 0.71 · ihMT, dual frequency, frequency offsets, spin lock, sequence, duration
  6. [6] § Results › Simulation Studies ↔ Simulation_study_1/Accuracry_of_T1D_quantification/Simulation_study1_2.m, lines 31–83 · score 0.71 · 200–800 Hz, ground truth, frequency offset, 2–7 kHz, spin lock, duration
  7. [7] § Method › Calculation of ↔ Simulation_stuty_2/Robustness_B1_B0/Simulation_Study2_2_B1_B0.m, lines 35–66 · score 0.70 · spin lock parameters, RF pulses, water pool, tissue parameters, simulated, model
  8. [8] § Method › Simulation Studies › Simulation Study 2: Robustness of the Proposed Method › Robustness in Presence of B1 and B0 Inhomogeneity ↔ Simulation_stuty_2/Robustness_B1_B0/Simulation_Study2_2_B1_B0.m, lines 35–66 · score 0.64 · 0.7–1.3, tissue parameters, spin lock, inhomogeneities, robustness, B0
  9. [9] § Method › Simulation Studies › Simulation Study 1: Accuracy of Quantification › Accuracy of Approximated ↔ Simulation_study_1/Accuracy_of_RATIOdosl/Simulation_study1_1a.m, lines 1–28 · score 0.60 · exact numerical solution, tissue parameters, accuracy, validate, sensitivity, analytical
  10. [10] § Method › Simulation Studies › Simulation Study 1: Accuracy of Quantification › Accuracy of Approximated ↔ Simulation_study_1/Accuracy_of_RATIOdosl/Simulation_study1_1b.m, lines 1–41 · score 0.60 · exact numerical solution, tissue parameters, accuracy, sensitivity, analytical
  11. [11] § Results › Simulation Studies ↔ Simulation_study_1/Accuracry_of_T1D_quantification/Simulation_study1_2_plot.m, lines 105–157 · score 0.54 · RF amplitude, ground truth, relative error, quantification, Simulation
  12. [12] § Theory ↔ Function/BMP_solution_ihMT.m, the whole file · a weak match · score 0.54 · ihMT, relaxation rate, exchange, field, dipolar
  13. [13] § Method › Simulation Studies › Simulation Study 2: Robustness of the Proposed Method › Robustness Against Noise ↔ Simulation_stuty_2/Robustness_noise/Simulation_stuty2_SNR.m, lines 1–32 · score 0.52 · noise ratio, SNR, signal, Simulated, Robustness

Paper

Loaded from Europe PMC by your browser, not stored by OSCR: doi.org · Europe PMC

The paper is loaded when this pane is shown.

The authors' code

MATLAB · 51 lines · 2.1 KB · MIT · 2 matches

  1. function M_t = BMP_solution_ihMT(t, M, R1a, R2a, dw, w1, w2, kab, kba, M0a, M0b, T2b, R1b, T1d, rfmt)
  2. % BMP_SOLUTION_IHMT Solves the Bloch-McConnell-Provotorov equations for ihMT.
  3. %
  4. % dM/dt = A * M + C
  5. %
  6. % Inputs:
  7. % t - Evolution time duration (s)
  8. % M - Initial magnetization state vector [Mxa; Mya; Mza; Mzb; Md]
  9. % R1a - Longitudinal relaxation rate of free pool (1/s)
  10. % R2a - Transverse relaxation rate of free pool (1/s)
  11. % dw - Frequency offset (rad/s)
  12. % w1 - RF amplitude x-component (rad/s)
  13. % w2 - RF amplitude y-component (rad/s)
  14. % kab - Exchange rate from pool A to B (1/s)
  15. % kba - Exchange rate from pool B to A (1/s)
  16. % M0a - Equilibrium magnetization of free pool
  17. % M0b - Equilibrium magnetization of bound pool
  18. % T2b - T2 of bound pool, the lineshape prameter
  19. % R1b - Longitudinal relaxation rate of bound pool (1/s)
  20. % T1d - Dipolar relaxation time (s)
  21. % rfmt - RF saturation rate for the bound pool (1/s)
  22. %
  23. % Output:
  24. % M_t - Magnetization vector at time t
  25. %% 1. Define Physical Constants
  26. % Local dipolar field strength (D)
  27. D = 1/sqrt(15)/T2b;
  28. % Initial state
  29. M_init = M;
  30. %% 2. System Matrix A
  31. % Represents relaxation, precession, exchange, and RF saturation interactions.
  32. % State vector: [Mxa, Mya, Mza, Mzb, beta]'
  33. A = [-R2a, dw, -w2, 0, 0; % Mxa
  34. -dw, -R2a, w1, 0, 0; % Mya
  35. w2, -w1, -(R1a + kab), kba, 0; % Mza
  36. 0, 0, kab, -(R1b + kba + rfmt), rfmt * dw; % Mzb
  37. 0, 0, 0, rfmt * dw / (D^2), -(1/T1d + rfmt * (dw / D)^2)]; % beta
  38. %% 3. Recovery Vector C
  39. % Drives the system towards thermal equilibrium.
  40. C = [0; 0; R1a * M0a; R1b * M0b; 0];
  41. %% 4. Analytical Solution
  42. % Solves the linear differential equation dM/dt = A*M + C
  43. % Solution: M(t) = exp(A*t) * (M_init - M_ss) + M_ss, where M_ss = -inv(A)*C
  44. M_t = expm(A * t) * (M_init + A \ C) - A \ C;
  45. end

BMP_solution_ihMT.m at commit 37033dc, under MIT · at the source

Overview

Authors: Zijian Gao1, Qianxue Shan1, Ziqin Zhou1,2, Ziqiang Yu1, Weitian Chen1
ORCID iDs: Weitian Chen
  1. Department of Imaging and Interventional Radiology, The Chinese University of Hong Kong, Hong Kong
  2. MR Research Collaboration, Siemens Healthineers Ltd. Hong Kong
Institutions: Chinese University of Hong Kong (Hong Kong SAR China)
Journal: NMR in biomedicine, volume 39, issue 7, article e70331
Dates: received 5 March 2026; accepted 26 May 2026; published online 17 June 2026; in print July 2026
Type: Research article · Language: English
License: CC BY
Identifiers: DOI 10.1002/nbm.70331 · PMID 42309541 · PMCID PMC13275185 · OpenAlex W4415981657
Open access: hybrid, a free copy (OpenAlex)
Status: code verified
Categories: structural MRI / diffusion (modality), human (organism)
Methods: Connectivity, fMRI & imaging
Keywords: dipolar order, inhomogeneous magnetization transfer, spin‐lock
MeSH: Magnetic Resonance Imaging*, Spin Labels*, Algorithms, Brain, Humans, Phantoms, Imaging (* major topic)
Topic: Advanced MRI Techniques and Applications (Radiology, Nuclear Medicine and Imaging, Medicine), according to OpenAlex
Funding: Research Grants Council of the Hong Kong SAR (GRF 14213322)
Citations: not cited yet (Europe PMC); 48 references in the paper

Abstract

Inhomogeneous magnetization transfer (ihMT) is sensitive to dipolar order associated with motion‐restricted macromolecules and can be characterized by the dipolar relaxation time T1D. In this study, we propose a spin‐lock MRI framework for T1D quantification. Specifically, we introduce a T1D‐sensitive metric, RATIOdosl, derived from the distinct relaxation rate Rdosl, defined as the difference between dual‐frequency and single‐frequency R1ρ measurements. To enable dual‐frequency spin‐lock acquisition, we developed a dedicated rotary‐echo spin‐lock sequence. Based on this framework, we further estimated T1D and the macromolecular proton fraction (MPF) within a unified acquisition. The proposed method was evaluated using numerical simulations, phantom experiments, and in vivo imaging in the healthy human brain. Simulations demonstrated high sensitivity of RATIOdosl to T1D and supported the robustness of the proposed approach under the investigated conditions. Phantom experiments showed measurable ihMT contrast and supported the feasibility of T1D estimation using RATIOdosl. In vivo experiments demonstrated simultaneous T1D and MPF mapping using only three spin‐lock‐prepared images. Across 10 healthy volunteers, mean white matter T1D values ranged from approximately 3.70 to 4.80 ms. By requiring only three contrast‐prepared images, the proposed technique provides a rapid framework for simultaneous T1D and MPF mapping and may facilitate further investigation of dipolar‐order‐sensitive microstructural imaging in vivo.

Reproduced under the paper's license (CC BY), from the paper cited above.

Repositories

Its files are read in the Code ↔ Paper reader above, with 13 matches between paragraphs and lines of code.

zjgao-spin/Dipolar-order-mapping

License: MIT
State: the link answers, verified on 27 September 2026
Evidence: files inventoried
Commit: 37033dc67cf77fd9c83797cdc1386149fdd08c7f, 27 June 2026
Languages: MATLAB (15)
Size: 19 files, 15 scripts
Software Heritage: not archived
Found in: the text, “Simulation Studies”
Holds: README, license file
Not found: CITATION.cff, environment file, tests, continuous integration, documentation
Tools: Optimization Toolbox (1 file)
Availability: 1 check, the latest on 27 September 2026: the link answers
  • 27 September 2026: the link answers
17 files

MIC-DKFZ/TractSeg

License: Apache-2.0
State: the link answers, verified on 27 September 2026
Evidence: files inventoried
Commit: bff94975b0950385b4880050b8c9a095c7257adb, 23 February 2026
Languages: Python (102), Shell (3), Jupyter (1)
Size: 519 files, 106 scripts
Software Heritage: not archived
Found in: the text, “Data Processing and Analysis”
Holds: README, license file, environment (setup.py), tests, continuous integration
Not found: CITATION.cff, documentation
Tools: NumPy (41 files), NiBabel (17 files), DIPY (10 files), PyTorch (10 files), SciPy (10 files), Matplotlib (3 files), MRtrix3 (3 files), scikit-learn (3 files), seaborn (3 files), FSL (2 files), pandas (1 file)
Availability: 1 check, the latest on 27 September 2026: the link answers
  • 27 September 2026: the link answers
108 files

Tracing map

Proposed by the machine: these links were found in the paper and verified at the source, without human review. The map will receive a Zenodo DOI once one of the paper's authors has validated it with their ORCID.

What the map holds:

  • 2 repositories of the authors' code, each at its verified commit, with its license and how the link was found in the paper;
  • 121 scripts, each with its path and the digest of its content;
  • 13 matches between paragraphs of the paper and lines of the code (method lexical-v1);
  • neither the text of the paper nor the code itself.

Its JSON (tracing-map.json) is deposited on Zenodo with its DOI once the map is validated.

Data

No dataset and no data link were found in the paper.

Data Availability Statement

The data that support the findings of this study are available on request from the corresponding author. The data are not publicly available due to privacy or ethical restrictions.

Reproduced under the paper's license (CC BY), from the paper cited above.

Versions

The history of this record: each version stored by the harvester or made by a correction of its authors or of the maintainers of its code, and what changed in its facts. The texts of the paper (its abstract, its availability statements) are not part of it; versions that changed only those are not listed.

Version 2, 28 September 2026

  • Publisher: — → Wiley

Version 1, 27 September 2026: the first record

Recorded: type, language, journal, volume, issue, pages, dates, 5 authors, 3 keywords, 6 MeSH terms, 1 funder, 45 references.

Cite

This paper

Gao, Z., Shan, Q., Zhou, Z., Yu, Z., & Chen, W. (2026). Dipolar Order Mapping Based on Spin-Lock Magnetic Resonance Imaging. NMR in biomedicine, 39(7), e70331. https://doi.org/10.1002/nbm.70331

BibTeX

@article{gao2026dipolar,
author = {Gao, Zijian and Shan, Qianxue and Zhou, Ziqin and Yu, Ziqiang and Chen, Weitian},
title = {{Dipolar Order Mapping Based on Spin-Lock Magnetic Resonance Imaging}},
journal = {NMR in biomedicine},
year = {2026},
month = jul,
volume = {39},
number = {7},
pages = {e70331},
publisher = {Wiley},
issn = {0952-3480},
doi = {10.1002/nbm.70331},
url = {https://doi.org/10.1002/nbm.70331},
pmid = {42309541},
pmcid = {PMC13275185}
}

RIS

TY - JOUR
AU - Gao, Zijian
AU - Shan, Qianxue
AU - Zhou, Ziqin
AU - Yu, Ziqiang
AU - Chen, Weitian
TI - Dipolar Order Mapping Based on Spin-Lock Magnetic Resonance Imaging
T2 - NMR in biomedicine
J2 - NMR Biomed
PY - 2026
DA - 2026/07/01
VL - 39
IS - 7
SP - e70331
SN - 0952-3480
PB - Wiley
DO - 10.1002/nbm.70331
UR - https://doi.org/10.1002/nbm.70331
LA - en
ER -

CSL-JSON

{
"id": "10.1002/nbm.70331",
"type": "article-journal",
"title": "Dipolar Order Mapping Based on Spin-Lock Magnetic Resonance Imaging",
"container-title": "NMR in biomedicine",
"author": [
{
"family": "Gao",
"given": "Zijian"
},
{
"family": "Shan",
"given": "Qianxue"
},
{
"family": "Zhou",
"given": "Ziqin"
},
{
"family": "Yu",
"given": "Ziqiang"
},
{
"family": "Chen",
"given": "Weitian"
}
],
"container-title-short": "NMR Biomed",
"volume": "39",
"issue": "7",
"page": "e70331",
"DOI": "10.1002/nbm.70331",
"PMID": "42309541",
"PMCID": "PMC13275185",
"ISSN": "0952-3480",
"publisher": "Wiley",
"URL": "https://doi.org/10.1002/nbm.70331",
"language": "en",
"issued": {
"date-parts": [
[
2026,
7,
1
]
]
}
}

The tracing map gets a citation of its own once an author has validated it and it has a DOI.

Similar papers

The papers with a page that share the most with this one: the tools found in their code, their categories, datasets, cited references and authors, the rarest counting most.

[1] doi:10.1093/cercor/bhag132 [code]
Spatiotemporal white-matter development across early childhood.
Journal: Cerebral cortex (New York, N.Y. : 1991)
In common: DIPY, MRtrix3, FSL, 5 other tools, structural MRI / diffusion, 3 references
[2] doi:10.1016/j.isci.2026.116671 [code]
A high-resolution functional network-organized atlas of human superficial white matter from ultra-high-field diffusion MRI.
Journal: iScience
In common: DIPY, MRtrix3, FSL, 7 other tools, structural MRI / diffusion
[3] doi:10.1038/s41467-026-71719-y [code]
Brain functional-structural gradient coupling reflects development, behavior and genetic influences.
Journal: Nature communications
In common: DIPY, MRtrix3, FSL, 7 other tools
[4] doi:10.1038/s41467-026-73366-9 [code]
Cortical and white matter myelination proceed in concert during early infancy.
Journal: Nature communications
In common: DIPY, MRtrix3, NiBabel, 6 other tools, 1 reference
[5] doi:10.1038/s41467-026-71151-2 [code]
Common and distinct neural correlates of social interaction processing and theory of mind in narratives.
Journal: Nature communications
In common: MRtrix3, Optimization Toolbox, FSL, 7 other tools
[6] doi:10.1038/s41598-026-51531-w [code]
Multimodal age-dependent diffusion-MRI analysis of the neocortex in a rat model of cortical dysplasia.
Journal: Scientific reports
In common: DIPY, MRtrix3, FSL, 6 other tools, structural MRI / diffusion
[7] doi:10.1162/imag.a.1341 [code]
Massively parallelized brain tractography using compute clusters, supercomputers, and graphics processing units.
Journal: Imaging neuroscience (Cambridge, Mass.)
In common: DIPY, Optimization Toolbox, FSL, 5 other tools, structural MRI / diffusion, 1 reference
[8] doi:10.1038/s41467-026-73668-y [code]
Convergent and divergent brain-cognition development in early adolescence.
Journal: Nature communications
In common: MRtrix3, FSL, NiBabel, 7 other tools
[9] doi:10.1371/journal.pone.0346132 [code]
Analysis of cortical dysplasias using b-tensor encoding diffusion MRI in an animal model.
Journal: PloS one
In common: DIPY, MRtrix3, FSL, 5 other tools, structural MRI / diffusion
[10] doi:10.1162/imag.a.1276 [code]
High-resolution whole-brain magnetic resonance spectroscopic imaging in youth at risk for psychosis.
Journal: Imaging neuroscience (Cambridge, Mass.)
In common: DIPY, FSL, NiBabel, 6 other tools

Contribute

The authors of this paper can claim it, correct its record and validate its tracing map, and the maintainers of its code (its owner, or a public member of its organization) correct what it says of their repository; anyone signed in can ask for its removal. Every request goes to OSCR's own machine, which answers it; your account page follows them.

Sign in with ORCID to claim this paper as one of its authors, correct its record or validate its tracing map: when the paper's metadata lists your ORCID iD, you are recognized at once. Maintainers of its code: sign in with GitHub, then claim the repository on your account page.

Request its removal

To ask OSCR to remove this record, the copies of its authors' scripts or its tracing map, use the removal request page: signed in, you say who you are, what to remove and why, then review and confirm the request. Published rules decide every request (how).

Discussion, reproductions, activity

Discussion: questions and error reports about this paper and its code, from signed-in readers and its authors. It opens with sign-in.

Reproductions: reports from readers who ran the authors' code: what they reproduced, with which environment, commit and data. It opens with sign-in.

Activity: what happens around this paper: new versions of its record, its map's validation, discussions and reproductions. It opens with sign-in.