Based on our previous approach we seek to develop a robust algorithm for AC in PET/MR brain images and extend this atlas-based approach to whole body.
Given the access to a prototype PET/MR system at the University Hospital Tübingen we intend to validate and fine-tune our MR-based attenuation correction with patient data.
Attenuation correction (AC) is mandatory for quantitative Positron Emission Tomography (PET) imaging. Without attenuation correction activity concentrations on PET images are biased depending on the tissue density.
The lack of conventional X-ray transmission sources in PET/MR systems requires alternative approaches for attenuation correction as a pre-requisite for quantitative PET in combined PET/MR. MR image values do not correlate with attenuation coefficients of the tissue, and therefore can not be directly used for PET-AC.
We apply an approach based on a database of coregistered PET/CT and MRI datasets with pattern recognition methods to generate attenuation maps from MR data.
For a patient subject to MR-AC, atlas MR datasets are co-registered to the MR image volume of the PET/MR patient. The resulting transformations are applied to the corresponding CT datasets from the database. Subsequently, a pattern recognition approach is used to match the MR image of the patient with the appropriate CT information from that MR-CT datasets that best match the patient information. This voxel-based approach can merge partial sub-volumes from independent data sets into a single CT-volume that is used for MR-AC of the patients. The generated "Pseudo CT" is then converted to an attenuation map using a piecewise linear transformation.
Disselhorst, J. A., Krueger, M. A., Ud-Dean, S. M. M., Bezrukov, I., Jarboui, M. A., Trautwein, C., Traube, A., Spindler, C., Cotton, J. M., Leibfritz, D., Pichler, B. J.
Linking imaging to omics utilizing image-guided tissue extraction
Proceedings of the National Academy of Sciences, 115(13):E2980-E2987, 2018 (article)
Seith, F., Schmidt, H., Gatidis, S., Bezrukov, I., Schraml, C., Pfannenberg, C., la Fougère, C., Nikolaou, K., Schwenzer, N.
SUV-quantification of physiological lung tissue in an integrated PET/MR-system: Impact of lung density and bone tissue
PLOS ONE, 12(5):1-13, 2017 (article)
Seith, F., Gatidis, S., Schmidt, H., Bezrukov, I., la Fougère, C., Nikolaou, K., Pfannenberg, C., Schwenzer, N.
Comparison of Positron Emission Tomography Quantification Using Magnetic Resonance–and Computed Tomography–Based Attenuation Correction in Physiological Tissues and Lesions: A Whole-Body Positron Emission Tomography/Magnetic Resonance Study in 66 Patients
Investigative Radiology, 51(1):66-71, 2016 (article)
Brendle, C., Schmidt, H., Oergel, A., Bezrukov, I., Mueller, M., Schraml, C., Pfannenberg, C., la Fougère, C., Nikolaou, K., Schwenzer, N.
Segmentation-based attenuation correction in positron emission tomography/magnetic resonance: erroneous tissue identification and its impact on positron emission tomography interpretation
Investigative Radiology, 50(5):339-346, 2015 (article)
Wehrl, H. F., Bezrukov, I., Wiehr, S., Lehnhoff, M., Fuchs, K., Mannheim, J. G., Quintanilla-Martinez, L., Kneilling, M., Pichler, B. J., Sauter, A. W.
Assessment of murine brain tissue shrinkage caused by different histological fixatives using magnetic resonance and computed tomography imaging
Histology and Histopathology, 30(5):601-613, 2015 (article)
Bezrukov, I., Schmidt, H., Gatidis, S., Mantlik, F., Schäfer, J. F., Schwenzer, N., Pichler, B. J.
Quantitative evaluation of segmentation- and atlas- based attenuation correction for PET/MR on pediatric patients
Journal of Nuclear Medicine, 56(7):1067-1074, 2015 (article)
Schmidt, H., Schwenzer, N., Bezrukov, I., Mantlik, F., Kolb, A., Kupferschläger, J., Pichler, B.
On the Quantification Accuracy, Homogeneity, and Stability of Simultaneous Positron Emission Tomography/Magnetic Resonance Imaging Systems
Investigative Radiology, 49(6):373-381, 2014 (article)
Schäfer, J. F., Gatidis, S., Schmidt, H., Gückel, B., Bezrukov, I., Pfannenberg, C. A., Reimold, M., M., E., Fuchs, J., Claussen, C. D., Schwenzer, N. F.
Simultaneous Whole-Body PET/MR Imaging in Comparison to PET/CT in Pediatric Oncology: Initial Results
Radiology, 273(1):220-231, 2014 (article)
Disselhorst, J. A., Bezrukov, I., Kolb, A., Parl, C., Pichler, B. J.
Principles of PET/MR Imaging
Journal of Nuclear Medicine, 55(6, Supplement 2):2S-10S, 2014 (article)
Schmidt, H., Brendle, C., Schraml, C., Martirosian, P., Bezrukov, I., Hetzel, J., Müller, M., Sauter, A., Claussen, C., Pfannenberg, C., Schwenzer, N.
Correlation of Simultaneously Acquired Diffusion-Weighted Imaging and 2-Deoxy-[18F] fluoro-2-D-glucose Positron Emission Tomography of Pulmonary Lesions in a Dedicated Whole-Body Magnetic Resonance/Positron Emission Tomography System
Investigative Radiology, 48(5):247-255, May 2013 (article)
Bezrukov, I., Mantlik, F., Schmidt, H., Schölkopf, B., Pichler, B.
MR-based PET Attenuation Correction for PET/MR Imaging
Seminars in Nuclear Medicine, 43(1):45-59, 2013 (article)
Bezrukov, I., Schmidt, H., Mantlik, F., Schwenzer, N., Brendle, C., Schölkopf, B., Pichler, B.
MR-based Attenuation Correction Methods for Improved PET Quantification in Lesions within Bone and Susceptibility Artifact Regions
Journal of Nuclear Medicine, 54(10):1768-1774, 2013 (article)
Mantlik, F., Bezrukov, I., Hofmann, M., Schölkopf, B., Pichler, B.
MR-Based Attenuation Correction for Combined Brain PET/MR: Robustness of Atlas- and Pattern Recognition Method to Atlas Registration Failures
IEEE Nuclear Science Symposium and Medical Imaging Conference (IEEE MIC), 2013 (talk)
Wehrl, H., Hossain, M., Lankes, K., Liu, C., Bezrukov, I., Martirosian, P., Schick, F., Reischl, G., Pichler, B.
Simultaneous PET/MR reveals Brain Function in Activated and Resting State on Metabolic, Hemodynamic and Multiple Temporal Scales
Nature Medicine, 19, pages: 1184–1189, 2013 (article)
Wehrl, H., Lankes, K., Hossain, M., Bezrukov, I., Liu, C., Martirosian, P., Schick, F., Pichler, B.
Simultaneous small animal PET/MR in activated and resting state reveals multiple brain networks
20th Annual Meeting and Exhibition of the International Society for Magnetic Resonance in Medicine (ISMRM), May 2012 (talk)
Wehrl, H., Lankes, K., Hossain, M., Bezrukov, I., Liu, C., Martirosian, P., Reischl, G., Schick, F., Pichler, B.
A new PET insert for simultaneous PET/MR small animal imaging
20th Annual Meeting and Exhibition of the International Society for Magnetic Resonance in Medicine (ISMRM), May 2012 (talk)
Hossain, M., Wehrl, H., Lankes, K., Liu, C., Bezrukov, I., Reischl, G., Pichler, B.
Evaluation of a new, large field of view, small animal PET/MR system
50. Jahrestagung der Deutschen Gesellschaft fuer Nuklearmedizin (NuklearMedizin), April 2012 (talk)
Liu, C., Hossain, M., Lankes, K., Bezrukov, I., Wehrl, H., Kolb, A., Judenhofer, M., Pichler, B.
PET Performance Measurements of a Next Generation Dedicated Small Animal PET/MR Scanner
Nuclear Science Symposium and Medical Imaging Conference (NSS-MIC), 2012 (talk)
Wehrl, H., Hossain, M., Lankes, K., Liu, C., Bezrukov, I., Martirosian, P., Reischl, G., Schick, F., Pichler, B.
Simultaneous small animal PET/MR reveals different brain networks during stimulation and rest
World Molecular Imaging Congress (WMIC), 2012 (talk)
Bezrukov, I., Schmidt, H., Mantlik, F., Schwenzer, N., Brendle, C., Pichler, B.
Influence of MR-based attenuation correction on lesions within bone and susceptibility artifact regions
Molekulare Bildgebung (MoBi), 2012 (talk)
Lois, C., Bezrukov, I., Schmidt, H., Schwenzer, N., Werner, M., Kupferschläger, J., Beyer, T.
Effect of MR contrast agents on quantitative accuracy of PET in combined whole-body PET/MR imaging
European Journal of Nuclear Medicine and Molecular Imaging, 39(11):1756-1766, 2012 (article)
Bezrukov, I., Mantlik, F., Schmidt, H., Schwenzer, N., Brendle, C., Schölkopf, B., Pichler, B.
Evaluation of Whole-Body MR-Based Attenuation Correction in Bone and Soft Tissue Lesions
Nuclear Science Symposium and Medical Imaging Conference (NSS-MIC), 2012 (poster)
Liu, C., Hossain, M., Bezrukov, I., Wehrl, H., Kolb, A., Judenhofer, M., Pichler, B.
The PET Performance Measurements of A Next Generation Dedicated Small Animal PET/MR Scanner
World Molecular Imaging Congress (WMIC), 2012 (poster)
Lois, C., Kupferschläger, J., Bezrukov, I., Schmidt, H., Werner, M., Mannheim, J., Pichler, B., Schwenzer, N., Beyer, T.
Combined whole-body PET/MR imaging: MR contrast agents do not affect the quantitative accuracy of PET following attenuation correction
(SST15-05 ), 97th Scientific Assemble and Annual Meeting of the Radiological Society of North America (RSNA), December 2011 (talk)
Lois, C., Bezrukov, I., Schmidt, H., Schwenzer, N., Werner, M., Pichler, B., Kupferschläger, J., Beyer, T.
Effect of MR Contrast Agents on Quantitative Accuracy of PET in Combined Whole-Body PET/MR Imaging
2011(MIC3-3), 2011 IEEE Nuclear Science Symposium, Medical Imaging Conference (NSS-MIC), October 2011 (talk)
Schmidt, H., Schwenzer, N., Bezrukov, I., Kolb, A., Mantlik, F., Kupferschläger, J., Lois, C., Sauter, A., Brendle, C., Pfannenberg, C., Pichler, B.
First Results on Patients and Phantoms of a Fully Integrated Clinical Whole-Body PET/MRI
2011(J2-8), 2011 IEEE Nuclear Science Symposium, Medical Imaging Conference (NSS-MIC), October 2011 (talk)
Mantlik, F., Hofmann, M., Bezrukov, I., Schmidt, H., Kolb, A., Beyer, T., Reimold, M., Schölkopf, B., Pichler, B.
Evaluation and Optimization of MR-Based Attenuation Correction Methods in Combined Brain PET/MR
2011(MIC18.M-96), 2011 IEEE Nuclear Science Symposium, Medical Imaging Conference (NSS-MIC), October 2011 (poster)
Bezrukov, I., Schmidt, H., Mantlik, F., Schwenzer, N., Hofmann, M., Schölkopf, B., Pichler, B.
Atlas- and Pattern Recognition Based Attenuation Correction on Simultaneous Whole-Body PET/MR
2011(MIC18.M-116), 2011 IEEE Nuclear Science Symposium, Medical Imaging Conference (NSS-MIC), October 2011 (poster)
Lois, C., Kupferschläger, J., Bezrukov, I., Schmidt, H., Werner, M., Mannheim, J., Pichler, B., Schwenzer, N., Beyer, T.
Effect of MR contrast agents on quantitative accuracy of PET in combined whole-body PET/MR imaging
(OP314), Annual Congress of the European Association of Nuclear Medicine (EANM), October 2011 (talk)
Brendle, C., Sauter, A., Schmidt, H., Schraml, C., Bezrukov, I., Martirosian, P., Hetzel, J., Müller, M., Claussen, C., Schwenzer, N., Pfannenberg, C.
Simultaneous multimodal imaging of patients with bronchial carcinoma in a whole body MR/PET system
Magnetic Resonance Materials in Physics, Biology and Medicine, 24(Supplement 1):141, 28th annual scientific meeting of the European Society for Magnetic Resonance in Medicine and Biology (ESMRB), October 2011 (poster)
Hofmann, M., Bezrukov, I., Mantlik, F., Aschoff, P., Steinke, F., Beyer, T., Pichler, B., Schölkopf, B.
MRI-Based Attenuation Correction for Whole-Body PET/MRI: Quantitative Evaluation of Segmentation- and Atlas-Based Methods
Journal of Nuclear Medicine, 52(9):1392-1399, September 2011 (article)
Sauter, A., Schmidt, H., Gueckel, B., Brendle, C., Bezrukov, I., Mantlik, F., Kolb, A., Mueller, M., Reimold, M., Federmann, B., Hetzel, J., Claussen, C., Pfannenberg, C., Horger, M., Pichler, B., Schwenzer, N.
Multi-parametric Tumor Characterization and Therapy Monitoring using Simultaneous PET/MRI: initial results for Lung Cancer and GvHD
(T110), 2011 World Molecular Imaging Congress (WMIC), September 2011 (talk)
Bezrukov, I., Hofmann, M., Aschoff, P., Beyer, T., Mantlik, F., Pichler, B., Schölkopf, B.
Attenuation Correction for Whole Body PET/MR: Quantitative Evaluation and Lung Attenuation Estimation with Consistency Information
2010(M13-122), 2010 Nuclear Science Symposium and Medical Imaging Conference (NSS-MIC), November 2010 (poster)
Mantlik, F., Hofmann, M., Bezrukov, I., Kolb, A., Beyer, T., Reimold, M., Pichler, B., Schölkopf, B.
Comparative Quantitative Evaluation of MR-Based Attenuation Correction Methods in Combined Brain PET/MR
2010(M08-4), 2010 Nuclear Science Symposium and Medical Imaging Conference (NSS-MIC), November 2010 (talk)
Charpiat, G., Bezrukov, I., Hofmann, M., Altun, Y., Schölkopf, B.
Machine Learning Methods for Automatic Image Colorization
In Computational Photography: Methods and Applications, pages: 395-418, Digital Imaging and Computer Vision, (Editors: Lukac, R.), CRC Press, Boca Raton, FL, USA, 2010 (inbook)
Hofmann, M., Schölkopf, B., Bezrukov, I., Cahill, N.
Incorporating Prior Knowledge on Class Probabilities into Local Similarity Measures for Intermodality Image Registration
In Proceedings of the MICCAI 2009 Workshop on Probabilistic Models for Medical Image Analysis , pages: 220-231, (Editors: W Wells and S Joshi and K Pohl), PMMIA, September 2009 (inproceedings)
Hofmann, M., Steinke, F., Bezrukov, I., Kolb, A., Aschoff, P., Lichy, M., Erb, M., Nägele, T., Brady, M., Schölkopf, B., Pichler, B.
MR-Based Attenuation Correction for PET/MR
17(260), 17th Annual Meeting of the International Society for Magnetic Resonance in Medicine (ISMRM), April 2009 (poster)