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Focused ultrasound blood-brain barrier opening reveals a paradoxical remote metabolic response in the primate brain.

Code ↔ Paper

3 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 3 matches
  1. [1] § MATERIALS AND METHODS › Statistical analysis ↔ 3-Combined_Monkeys_OEF_Bayesian_template.ipynb, lines 641–699 · score 0.77 · random intercept, PyMC, ROI side, Student, likelihood, hierarchical
  2. [2] § MATERIALS AND METHODS › Quantitative BOLD modeling ↔ 1-Monkey_qBOLD_BBBO_template.ipynb, lines 96–102 · score 0.62 · PyTorch, model parameters, OEF map, fitting
  3. [3] § MATERIALS AND METHODS › LIFU BBBO ↔ 3-Combined_Monkeys_OEF_Bayesian_template.ipynb, lines 18–100 · score 0.55 · right caudate, left caudate, M2, M1, M3, M4

Paper

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

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The authors' code

Jupyter notebook · 951 lines · 1.1 MB · apgl-v3 · 2 matches

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Overview

Authors: Soroosh Sanatkhani1, Dong Liu1, Fabian Munoz1, Jack Grinband2,3, Elisa E Konofagou3,4, Vincent P Ferrera1,2,5
  1. Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY, USA
  2. Department of Psychiatry, Columbia University, New York, NY, USA
  3. Department of Radiology, Columbia University, New York, NY, USA
  4. Department of Biomedical Engineering, Columbia University, New York, NY, USA
  5. Department of Neuroscience, Columbia University, New York, NY, USA
Institutions: Mortimer B. Zuckerman Mind Brain Behavior Institute (United States); Columbia University (United States)
Journal: Science advances, volume 12, issue 29, article eaed4944
Dates: received 29 October 2025; accepted 2 June 2026; published online 17 July 2026; in print July 2026
Type: Research article · Language: English
License: CC BY
Identifiers: DOI 10.1126/sciadv.aed4944 · PMID 42467769 · PMCID PMC13378551 · OpenAlex W7169524987
Open access: gold, a free copy (OpenAlex)
Status: code verified
Categories: structural MRI / diffusion (modality), other (modality), non-human primate (organism), clinical / translational (subfield)
Methods: Statistics, fMRI & imaging
MeSH: Blood-Brain Barrier*, Brain*, Ultrasonic Waves*, Animals, Macaca mulatta, Magnetic Resonance Imaging, Male, Oxygen, Ultrasonography (* major topic)
Topic: Ultrasound and Hyperthermia Applications (Biomedical Engineering, Engineering), according to OpenAlex
Funding: NIMH NIH HHS (R01 MH133020)
Citations: not cited yet (Europe PMC); 66 references in the paper

Abstract

Low-intensity focused ultrasound (LIFU) is a promising technique for opening the blood-brain barrier (BBB) for drug delivery, but its physiological consequences in remote brain regions remain a major blind spot for clinical safety and efficacy. To address this gap, we performed the quantitative mapping of brain metabolism following a focal LIFU-induced BBB opening in a nonhuman primate model, using quantitative BOLD MRI to measure the oxygen extraction fraction (OEF). We report a paradoxical response: While the targeted striatum showed no significant metabolic changes, we observed a profound and spatially specific increase in OEF in the homologous contralateral striatum, an effect predominantly driven by the putamen. These findings demonstrate that focal BBB opening is not merely a localized vascular event but a potent neuromodulatory intervention that induces metabolic stress in distant, untreated brain regions, a discovery with critical implications for the safe and effective clinical translation of all focal brain therapies.

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

Repository

Its files are read in the Code ↔ Paper reader above, with 3 matches between paragraphs and lines of code.

Zenodo 19188809

License: apgl-v3
State: the link answers, verified on 27 September 2026
Evidence: files inventoried
Languages: Jupyter (4)
Size: 4 files, 4 scripts
Software Heritage: not checked
Found in: “Data, code, and materials availability:”
Holds: 4 notebooks
Not found: README, license file, CITATION.cff, environment file, tests, continuous integration, documentation
Tools: Matplotlib (4 files), NumPy (4 files), NiBabel (3 files), pandas (3 files), seaborn (3 files), ArviZ (2 files), PyMC (2 files), SciPy (2 files), statsmodels (2 files), AFNI (1 file), CuPy (1 file), JAX (1 file), Numba (1 file), PyTorch (1 file), scikit-image (1 file), TensorFlow (1 file)
Availability: 1 check, the latest on 27 September 2026: the link answers (HTTP 200)
  • 27 September 2026: the link answers (HTTP 200)
4 files, not copied: shown from their source

OSCR keeps no copy of these files: the license of this repository (apgl-v3) is not one it has verified to allow it. The reader above shows each one from its source, fetched by your browser at record 19188809, when its fingerprint is the one OSCR verified. How this works.

The paper's code and data availability statement is in the Data section.

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:

  • 1 repository of the authors' code, each at its verified commit, with its license and how the link was found in the paper;
  • 4 scripts, each with its path and the digest of its content;
  • 3 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

Datasets cited

Data, code, and materials availability

All data and code needed to evaluate and reproduce the results in the paper are present in the paper and/or the Supplementary Materials. The raw MRI datasets supporting the qBOLD analysis have been deposited in a permanent, independent repository and can be accessed at https://doi.org/10.5281/zenodo.19186774. The computational pipeline, consisting of the Jupyter notebooks required to generate the OEF maps and reproduce the statistical analyses, is archived and is available at https://doi.org/10.5281/zenodo.19188809.

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 1, 27 September 2026: the first record

Recorded: type, language, journal, volume, issue, pages, dates, 6 authors, 9 MeSH terms, 1 funder, 63 references.

Cite

This paper

Sanatkhani, S., Liu, D., Munoz, F., Grinband, J., Konofagou, E. E., & Ferrera, V. P. (2026). Focused ultrasound blood-brain barrier opening reveals a paradoxical remote metabolic response in the primate brain. Science advances, 12(29), eaed4944. https://doi.org/10.1126/sciadv.aed4944

BibTeX

@article{sanatkhani2026focused,
author = {Sanatkhani, Soroosh and Liu, Dong and Munoz, Fabian and Grinband, Jack and Konofagou, Elisa E and Ferrera, Vincent P},
title = {{Focused ultrasound blood-brain barrier opening reveals a paradoxical remote metabolic response in the primate brain}},
journal = {Science advances},
year = {2026},
month = jul,
volume = {12},
number = {29},
pages = {eaed4944},
publisher = {American Association for the Advancement of Science},
issn = {2375-2548},
doi = {10.1126/sciadv.aed4944},
url = {https://doi.org/10.1126/sciadv.aed4944},
pmid = {42467769},
pmcid = {PMC13378551}
}

RIS

TY - JOUR
AU - Sanatkhani, Soroosh
AU - Liu, Dong
AU - Munoz, Fabian
AU - Grinband, Jack
AU - Konofagou, Elisa E
AU - Ferrera, Vincent P
TI - Focused ultrasound blood-brain barrier opening reveals a paradoxical remote metabolic response in the primate brain
T2 - Science advances
J2 - Sci Adv
PY - 2026
DA - 2026/07/17
VL - 12
IS - 29
SP - eaed4944
SN - 2375-2548
PB - American Association for the Advancement of Science
DO - 10.1126/sciadv.aed4944
UR - https://doi.org/10.1126/sciadv.aed4944
LA - en
ER -

CSL-JSON

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