Lead-DBS v3.0: Mapping deep brain stimulation effects to local anatomy and global networks

Clemens Neudorfer; Konstantin Butenko; Simon Oxenford; Nanditha Rajamani; Johannes Achtzehn; Lukas Goede; Barbara Hollunder; Ana Sofía Ríos; Lauren Hart; Jordy Tasserie; Kavisha B Fernando; T A Khoa Nguyen; Bassam Al-Fatly; Matteo Vissani; Michael Fox; R Mark Richardson; Ursula van Rienen; Andrea A Kühn; Andreas D Husch; Enrico Opri; Till Dembek; Ningfei Li; Andreas Horn

doi:10.1016/j.neuroimage.2023.119862

Lead-DBS v3.0: Mapping deep brain stimulation effects to local anatomy and global networks

Neuroimage. 2023 Mar:268:119862. doi: 10.1016/j.neuroimage.2023.119862. Epub 2023 Jan 5.

Authors

Clemens Neudorfer¹, Konstantin Butenko², Simon Oxenford³, Nanditha Rajamani³, Johannes Achtzehn³, Lukas Goede⁴, Barbara Hollunder⁵, Ana Sofía Ríos³, Lauren Hart², Jordy Tasserie⁶, Kavisha B Fernando⁷, T A Khoa Nguyen⁸, Bassam Al-Fatly³, Matteo Vissani⁹, Michael Fox², R Mark Richardson¹⁰, Ursula van Rienen¹¹, Andrea A Kühn³, Andreas D Husch¹², Enrico Opri¹³, Till Dembek¹⁴, Ningfei Li¹⁵, Andreas Horn¹⁶

Affiliations

¹ Brain Modulation Lab, Department of Neurosurgery, Massachusetts General Hospital, Boston, MA, 02114, USA; Harvard Medical School, Boston, MA, 02114, USA; Center for Brain Circuit Therapeutics Department of Neurology Brigham & Women's Hospital, Harvard Medical School, Boston, MA, USA; Movement Disorder and Neuromodulation Unit, Department of Neurology, Charité -Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt-Universität zu Berlin, Berlin, Germany. Electronic address: clemens.neudorfer@gmail.com.
² Center for Brain Circuit Therapeutics Department of Neurology Brigham & Women's Hospital, Harvard Medical School, Boston, MA, USA.
³ Movement Disorder and Neuromodulation Unit, Department of Neurology, Charité -Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt-Universität zu Berlin, Berlin, Germany.
⁴ Movement Disorder and Neuromodulation Unit, Department of Neurology, Charité -Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt-Universität zu Berlin, Berlin, Germany; Berlin Institute of Health at Charité - Universitätsmedizin Berlin, BIH Biomedical Innovation Academy, BIH Charité Junior Clinician Scientist Program, Berlin, Germany.
⁵ Movement Disorder and Neuromodulation Unit, Department of Neurology, Charité -Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt-Universität zu Berlin, Berlin, Germany; Einstein Center for Neurosciences Berlin, Charité - Universitätsmedizin Berlin, Berlin, Germany; Berlin School of Mind and Brain, Humboldt-Universität zu Berlin, Berlin, Germany.
⁶ Division of Neurosurgery, Toronto Western Hospital, University Health Network, University of Toronto, Toronto, ON M5T 2S8, Canada.
⁷ Melbourne Neuropsychiatry Centre, Department of Psychiatry, The University of Melbourne & Melbourne Health, Melbourne, Australia.
⁸ Department of Neurosurgery, Inselspital, Bern University Hospital, University of Bern, Bern, Switzerland; ARTORG Center for Biomedical Engineering Research, University of Bern, Bern, Switzerland.
⁹ Brain Modulation Lab, Department of Neurosurgery, Massachusetts General Hospital, Boston, MA, 02114, USA; Harvard Medical School, Boston, MA, 02114, USA.
¹⁰ Brain Modulation Lab, Department of Neurosurgery, Massachusetts General Hospital, Boston, MA, 02114, USA; Harvard Medical School, Boston, MA, 02114, USA; Department of Neurosurgery, Massachusetts General Hospital, Harvard Medical School, Boston, United States.
¹¹ Institute of General Electrical Engineering, University of Rostock, Rostock, Germany; Department Life, Light & Matter, University of Rostock, Rostock, Germany; Department Ageing of Individuals and Society, University of Rostock, Rostock, Germany.
¹² University of Luxembourg, Luxembourg Centre for Systems Biomedicine, 4362, Esch-sur-Alzette, Luxembourg.
¹³ Department of Biomedical Engineering, University of Michigan, Ann Arbor, MI, USA.
¹⁴ Department of Neurology, Faculty of Medicine and University Hospital Cologne, University of Cologne, Cologne, Germany.
¹⁵ Movement Disorder and Neuromodulation Unit, Department of Neurology, Charité -Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt-Universität zu Berlin, Berlin, Germany. Electronic address: ningfei.li@charite.de.
¹⁶ Harvard Medical School, Boston, MA, 02114, USA; Center for Brain Circuit Therapeutics Department of Neurology Brigham & Women's Hospital, Harvard Medical School, Boston, MA, USA; Movement Disorder and Neuromodulation Unit, Department of Neurology, Charité -Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt-Universität zu Berlin, Berlin, Germany. Electronic address: ahorn1@bwh.harvard.edu.

Abstract

Following its introduction in 2014 and with support of a broad international community, the open-source toolbox Lead-DBS has evolved into a comprehensive neuroimaging platform dedicated to localizing, reconstructing, and visualizing electrodes implanted in the human brain, in the context of deep brain stimulation (DBS) and epilepsy monitoring. Expanding clinical indications for DBS, increasing availability of related research tools, and a growing community of clinician-scientist researchers, however, have led to an ongoing need to maintain, update, and standardize the codebase of Lead-DBS. Major development efforts of the platform in recent years have now yielded an end-to-end solution for DBS-based neuroimaging analysis allowing comprehensive image preprocessing, lead localization, stimulation volume modeling, and statistical analysis within a single tool. The aim of the present manuscript is to introduce fundamental additions to the Lead-DBS pipeline including a deformation warpfield editor and novel algorithms for electrode localization. Furthermore, we introduce a total of three comprehensive tools to map DBS effects to local, tract- and brain network-levels. These updates are demonstrated using a single patient example (for subject-level analysis), as well as a retrospective cohort of 51 Parkinson's disease patients who underwent DBS of the subthalamic nucleus (for group-level analysis). Their applicability is further demonstrated by comparing the various methodological choices and the amount of explained variance in clinical outcomes across analysis streams. Finally, based on an increasing need to standardize folder and file naming specifications across research groups in neuroscience, we introduce the brain imaging data structure (BIDS) derivative standard for Lead-DBS. Thus, this multi-institutional collaborative effort represents an important stage in the evolution of a comprehensive, open-source pipeline for DBS imaging and connectomics.

Keywords: Deep brain stimulation; Functional connectivity; Group-level; Imaging; Structural connectivity.

Publication types

Research Support, Non-U.S. Gov't
Research Support, N.I.H., Extramural

MeSH terms

Brain / diagnostic imaging
Deep Brain Stimulation* / methods
Humans
Magnetic Resonance Imaging / methods
Parkinson Disease* / therapy
Retrospective Studies
Subthalamic Nucleus*

Abstract

Publication types

MeSH terms

Grants and funding