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Cortical Surface Co-Registration based on MRI Images and Photos [article]

Benjamin Berkels, Ivan Cabrilo, Sven Haller, Martin Rumpf, Carlo Schaller
2013 arXiv   pre-print
The tools are a robust classification of sulci on MRI extracted cortical surfaces, guided user marking of most prominent sulci on a microscope image, and the actual variational registration method with  ...  We present an approach to co-register intra-operative microscope images with pre-operative MRI to adapt and optimize intra-operative neuronavigation.  ...  the 2D image projected on the cortical surface overlaying the cortical surface itself, and the final registration result.  ... 
arXiv:1303.5691v1 fatcat:gjhxcjpdnbbopmtn6caq74to74

Co-registration of intra-operative brain surface photographs and pre-operative MR images

Benjamin Berkels, Ivan Cabrilo, Sven Haller, Martin Rumpf, Karl Schaller
2014 International Journal of Computer Assisted Radiology and Surgery  
A method to co-register the cortical surface from intra-operative microscope images with pre-operative MRI segmented data was developed and tested.  ...  Methods: Automated classification of sulci on MRI extracted cortical surfaces was tested by comparison with user guided marking of prominent sulci on an intraoperative photography.  ...  at the Institute of Mathematics and Image Computing, University of Lübeck, Germany.  ... 
doi:10.1007/s11548-014-0979-y pmid:24477486 fatcat:lg6qfvri6bdw3genvfzhw6jgju

Localizing ECoG electrodes on the cortical anatomy without post-implantation imaging

Disha Gupta, N. Jeremy Hill, Matthew A. Adamo, Anthony Ritaccio, Gerwin Schalk
2014 NeuroImage: Clinical  
We compared the electrode coordinates obtained by our fiducial-based method to those obtained using existing methods, which are based on co-registering pre-and post-grid implantation images.  ...  Methods: We developed a method to co-register ECoG electrodes to the underlying cortical anatomy using only a pre-operative MRI, a clinical neuronavigation device (such as BrainLab VectorVision), and fiducial  ...  Walter and Dr. Amilyn Taplin, for their cooperation and technical support. We would also like to thank Phil Schrom from PMT and Dr.  ... 
doi:10.1016/j.nicl.2014.07.015 pmid:25379417 pmcid:PMC4215521 fatcat:d6ode5kljnhyncqppkpym3m4ia

Individualized cortical function mapping using high gamma activity

Tianyi Qian, Huaying Song, Weixuan Chen, Enhao Gong, Shangkai Gao, Bo Hong
2010 2010 3rd International Conference on Biomedical Engineering and Informatics  
In this study, a cortical function mapping method with 3Dvisualization was implemented by analyzing and projecting the power change of high gamma (HG) oscillation in ECoG on patient's own MRI brain model  ...  Clinically used electrical cortical stimulation (ECS) method shows limits on accuracy, efficiency and reliability.  ...  The author would like to thank the surgical team in the second affiliated hospital of Tsinghua University for patient cares and image data collection.  ... 
doi:10.1109/bmei.2010.5639500 fatcat:t2fvwvmovjckfjkrvharruf5wm

Photogrammetry-based stereoscopic optode registration method for functional near-infrared spectroscopy

Xiao-Su Hu, Neelima Wagley, Akemi Tsutsumi Rioboo, Alexandre F. DaSilva, Ioulia Kovelman
2020 Journal of Biomedical Optics  
Therefore, the photo-based registration method can offer an accessible and reliable approach to neuroanatomical registration of fNIRS as well as other surface-based neuroimaging and neuromodulation methods  ...  This reconstruction process uses a linear-time incremental structure from motion (LTI-SfM) algorithm, based on 100 to 150 digital photos.  ...  The authors would like to acknowledge Ranran Wang, Rennie Pasquinelli, Zachary Karas, and Nan Zhang for their valuable input in data collection, analysis, and manuscript proofreading.  ... 
doi:10.1117/1.jbo.25.9.095001 pmid:32880124 pmcid:PMC7463164 fatcat:ycbebzdswzb2xnpy5x2ogoo3xa

Electrode localization for planning surgical resection of the epileptogenic zone in pediatric epilepsy

Vahid Taimouri, Alireza Akhondi-Asl, Xavier Tomas-Fernandez, Jurriaan M. Peters, Sanjay P. Prabhu, Annapurna Poduri, Masanori Takeoka, Tobias Loddenkemper, Ann Marie R. Bergin, Chellamani Harini, Joseph R. Madsen, Simon K. Warfield
2013 International Journal of Computer Assisted Radiology and Surgery  
Specifically, we created a patient-specific 3D geometric model of the cortical surface from automatic segmentation of a pre-operative MRI, automatically segmented electrodes from post-operative CT, and  ...  A precise understanding of the location of subdural strip and grid electrodes on the brain surface, and of depth electrodes in the brain in relationship to eloquent areas is expected to facilitate pre-surgical  ...  Ethical Standards Statement All procedures followed were in accordance with the ethical standards of the responsible committee on human experimentation (institutional and national) and with the Helsinki  ... 
doi:10.1007/s11548-013-0915-6 pmid:23793723 pmcid:PMC3955988 fatcat:fjlf3gazlray5d3qvjqxezyp4u

Integrated image- and function-guided surgery in eloquent cortex: a technique report

James P. O'Shea, Stephen Whalen, Daniel M. Branco, Nicole M. Petrovich, Kyle E. Knierim, Alexandra J. Golby
2006 International Journal of Medical Robotics and Computer Assisted Surgery  
Advances in these techniques have the potential to limit the size and duration of craniotomies as well as the strain placed on the patient, but more research accurately demonstrating their efficacy is  ...  In addition, the intraoperative three-dimensional display of fMRI findings co-registered to structural imaging data maximizes the utility of the preoperative mapping for the surgeon.  ...  We acknowledge GE Healthcare Navigation (Lawrence, MA) for the development and technical support of Image Fusion and Surgical Navigation products.  ... 
doi:10.1002/rcs.82 pmid:17520616 fatcat:2bwg353xwzfmnahymdrle2bfbq

Importance of Veins for Neurosurgery as Landmarks Against Brain Shifting Phenomenon: An Anatomical and 3D-MPRAGE MR Reconstruction of Superficial Cortical Veins

Santino Ottavio Tomasi, Giuseppe Emmanuele Umana, Gianluca Scalia, Roberto Luis Rubio-Rodriguez, Pier Francesco Cappai, Crescenzo Capone, Giuseppe Raudino, Bipin Chaurasia, Maurizio Salvati, Nicolas Jorden, Peter A Winkler
2020 Frontiers in Neuroanatomy  
sequence to visualize the venous vessels on the cortical surface after the administration of a paramagnetic contrast agent.  ...  Modern neurosurgery uses preoperative imaging daily.  ...  Overlay, Co-registration, and Processing of Records The MRI data were transferred to a VoxelQ workstation (Picker International, Cleveland, OH, USA) for further processing.  ... 
doi:10.3389/fnana.2020.596167 pmid:33384587 pmcid:PMC7771049 fatcat:mnppq2cbdzdphe73i2hqizwrwe

Fusion and visualization of intraoperative cortical images with preoperative models for epilepsy surgical planning and guidance

A. Wang, S. M. Mirsattari, A. G. Parrent, T. M. Peters
2011 Journal of Computer-Aided Surgery  
Multimodality Image Fusion and Visualization Skull stripping was employed for the MRI image to extract the brain tissue from the skull and the extracted brain mesh was saved as a cortical surface model  ...  Figure 3 . 3 10(b) shows the intraoperative photographic image of the cortical surface with tags of language sites on it.  ... 
doi:10.3109/10929088.2011.585805 pmid:21668293 fatcat:67hxqvfj5ncafdgp43xnoqkrla

Fabrication and validation of reference structures for the localization of subdural standard- and micro-electrodes in MRI

Johannes B Erhardt, Thomas Lottner, Cristian Pasluosta, Isabel Gessner, Sanjay Mathur, Martin Schuettler, Michael Bock, Thomas Stieglitz
2020 Journal of Neural Engineering  
co-registration itself, as well as brain shift and implant movement.  ...  Post-implantation electrode localization using MRI may be advantageous compared to the common alternative of CT-MRI image co-registration, as it avoids systematic localization errors associated with the  ...  Acknowledgments We dedicate this paper to our dear friend and colleague Julia Koch, whose enthusiasm and ideas inspired this project and many others.  ... 
doi:10.1088/1741-2552/abad7a pmid:32764195 fatcat:cz2el6j6ivdsngh2bwvt56ax6m

A multimodal computational pipeline for 3D histology of the human brain [article]

Matteo Mancini, Adrià Casamitjana, Loic Peter, Eleanor Robinson, Shauna Crampsie, David L Thomas, Janice L Holton, Zane Jaunmuktane, Juan Eugenio Iglesias
2020 biorxiv/medrxiv   pre-print
The pipeline relies on a volumetric MRI scan that serves as undistorted reference, and on an intermediate imaging modality (blockface photography) that bridges the gap between MRI and histology.  ...  Ex vivo imaging enables analysis of the human brain at a level of detail that is not possible in vivo with MRI.  ...  pial surfaces 64 ; and (vi) cortical parcellation 65 .  ... 
doi:10.1101/2020.02.10.941948 fatcat:mcd5vmr5xbez3dwlprsmh47mw4

Quantitative brain surface mapping of an electrophysiologic/metabolic mismatch in human neocortical epilepsy

Bálint Alkonyi, Csaba Juhász, Otto Muzik, Eishi Asano, Anita Saporta, Aashit Shah, Harry T. Chugani
2009 Epilepsy Research  
The severity and location of hypometabolic areas vs. ictal intracranial EEG abnormalities were compared on the 3D brain surface.  ...  The 3D brain surface was parcellated into finite cortical elements (FCEs), and hypometabolism was defined using lobe-and side-specific asymmetry indices derived from normal adult controls.  ...  , Carole Klapko, CNMT and Mei-Li Lee, MS, for their expert technical assistance in performing the PET studies.  ... 
doi:10.1016/j.eplepsyres.2009.08.002 pmid:19734012 pmcid:PMC3684207 fatcat:fhuenqqztjbedee3fatx3c4qby

7 Tesla MRI Followed by Histological 3D Reconstructions in Whole-Brain Specimens

Anneke Alkemade, Kerrin Pine, Evgeniya Kirilina, Max C. Keuken, Martijn J. Mulder, Rawien Balesar, Josephine M. Groot, Ronald L. A. W. Bleys, Robert Trampel, Nikolaus Weiskopf, Andreas Herrler, Harald E. Möller (+2 others)
2020 Frontiers in Neuroanatomy  
Post mortem magnetic resonance imaging (MRI) studies on the human brain are of great interest for the validation of in vivo MRI.  ...  Fixation artifacts and tissue deformation of extracted brains, as well as co registration of 2D histology to 3D MRI volumes complicate direct comparison between modalities.  ...  ACKNOWLEDGMENTS We are grateful to Toralf Mildner for his expert input on MRI scanning, and Domenica Wilfling and Suzanne Verlinde for excellent technical assistance.  ... 
doi:10.3389/fnana.2020.536838 pmid:33117133 pmcid:PMC7574789 fatcat:i7cjntg2mzhujjxa3ux7ji57zy

An Intracranial Electroencephalography (iEEG) Brain Function Mapping Tool with an Application to Epilepsy Surgery Evaluation

Yinghua Wang, Jiaqing Yan, Jianbin Wen, Tao Yu, Xiaoli Li
2016 Frontiers in Neuroinformatics  
2007; Kubanek and Schalk, 2015) ; (2) by performing high-resolution CT scan and co-registrating brain model of CT images and previous MRI images (Hermes et al., 2010; Wang et al., 2013) .  ...  The co-registration of electrodes and the brain structure images, such as those obtained from structural magnetic resonance imaging (MRI), is still a hard problem during application.  ...  The use, distribution and reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with  ... 
doi:10.3389/fninf.2016.00015 pmid:27199729 pmcid:PMC4842770 fatcat:3clxjbxkgrhunld4mv5h7kpl6a

Blockface histology with optical coherence tomography: A comparison with Nissl staining

Caroline Magnain, Jean C. Augustinack, Martin Reuter, Christian Wachinger, Matthew P. Frosch, Timothy Ragan, Taner Akkin, Van J. Wedeen, David A. Boas, Bruce Fischl
2014 NeuroImage  
Spectral domain optical coherence tomography (SD-OCT) is a high resolution imaging technique that generates excellent contrast based on intrinsic optical properties of the tissue, such as neurons and fibers  ...  Two independent observers manually labeled cortical laminae (e.g. III, IV and V) in SD-OCT images and Nissl stained sections.  ...  Cortical surface-based analysis: II: inflation, 703 flattening, and a surface-based coordinate system.  ... 
doi:10.1016/j.neuroimage.2013.08.072 pmid:24041872 pmcid:PMC4315235 fatcat:5iki4vpolvce3n7b5yoixvrsha
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