Category Archives: Uncategorized

Co-Clinical Imaging

Our group contributed to these new papers from the co-clinical imaging research program (CIRP) :

1.Moore, S.M.; Quirk, J.D.; Lassiter, A.W.; Laforest, R.; Ayers, G.D.; Badea, C.T.; Fedorov, A.Y.; Kinahan, P.E.; Holbrook, M.; Larson, P.E.Z.; Sriram, R.; Chenevert, T.L.; Malyarenko, D.; Kurhanewicz, J.; Houghton, A.M.; Ross, B.D.; Pickup, S.; Gee, J.C.; Zhou, R.; Gammon, S.T.; Manning, H.C.; Roudi, R.; Daldrup-Link, H.E.; Lewis, M.T.; Rubin, D.L.; Yankeelov, T.E.; Shoghi, K.I. Co-Clinical Imaging Metadata Information (CIMI) for Cancer Research to Promote Open Science, Standardization, and Reproducibility in Preclinical ImagingTomography 20239, 995-1009. https://doi.org/10.3390/tomography9030081

2.Gammon, S.T.; Cohen, A.S.; Lehnert, A.L.; Sullivan, D.C.; Malyarenko, D.; Manning, H.C.; Hormuth, D.A.; Daldrup-Link, H.E.; An, H.; Quirk, J.D.; Shoghi, K.; Pagel, M.D.; Kinahan, P.E.; Miyaoka, R.S.; Houghton, A.M.; Lewis, M.T.; Larson, P.; Sriram, R.; Blocker, S.J.; Pickup, S.; Badea, A.; Badea, C.T.; Yankeelov, T.E.; Chenevert, T.L. An Online Repository for Pre-Clinical Imaging Protocols (PIPs)Tomography 20239, 750-758. https://doi.org/10.3390/tomography9020060

 

QIAL papers at SPIE Medical Imaging 2023

1)  A Allphin, R Nadkarni, D Clark, C T Badea. Ex vivo high-resolution hybrid micro-CT imaging using photon counting and energy integrating detectors. Proc. of SPIE Vol 12468, 124680V-1, 2023

2) DP Clark, FR Schwartz, A Euler, V Mergen, H Alkadhi, D Marin, CT Badea  Unsupervised learning of robust models for cardiac and photon-counting x-ray CT denoising, SPIE Medical Imaging 2023: Physics of Medical Imaging 12463, 329-337

3) AJ Allphin, DP Clark, T Thuering, P Bhandari, KB Ghaghada, CT Badea Spectral micro-CT imaging of multiple K-edge elements using GaAs and CdTe photon counting detectors, SPIE Medical Imaging 2023: Physics of Medical Imaging 12463, 153-159

Spectral CT imaging using GaAs and CdTe photon counting detectors

In this study, we compared the performance of PC micro-CT imaging when using two types of PCDs. We have also demonstrated the ability of PCDs to separate a wide range of K-edge materials.

Alex Jeffrey Allphin, Darin P Clark, Thomas Thüring, Prajwal Bhandari, Ketan B Ghaghada, Cristian T Badea. Micro-CT imaging of multiple K-edge elements using GaAs and CdTe photon counting detectors. Physics in Medicine & Biology, 2023, DOI 10.1088/1361-6560/acc77e

Group Photo

QIAL members and the Bass Connections team, March 2023

Artist and T-shirts Designer: Nariman (Ali) Mahzarnia

 

Animal Models and Their Role in Imaging-Assisted Co-Clinical Trials

This overview paper describes the ten co-clinical trials of investigators from eleven institutions who are supported by the CIRP initiative and are members of the Animal Models and Co-clinical Trials (AMCT) Working Group.

Examples of MRI and micro-CT images in the p53/MCA model and the schematics of the preclinical arm of the clinical trial organized at Duke.

Peehl, D.M.; Badea, C.T.; Chenevert, T.L.; Daldrup-Link, H.E.; Ding, L.; Dobrolecki, L.E.; Houghton, A.M.; Kinahan, P.E.; Kurhanewicz, J.; Lewis, M.T.; Li, S.; Luker, G.D.; Ma, C.X.; Manning, H.C.; Mowery, Y.M.; O’Dwyer, P.J.; Pautler, R.G.; Rosen, M.A.; Roudi, R.; Ross, B.D.; Shoghi, K.I.; Sriram, R.; Talpaz, M.; Wahl, R.L.; Zhou, R. Animal Models and Their Role in Imaging-Assisted Co-Clinical TrialsTomography 20239, 657-680. https://doi.org/10.3390/tomography9020053

QIAL papers @ CT Meeting 2022

1. C. Badea, D. Clark, A. Alphin, J. C. Ramirez-Giraldo, P. Bhandari, Y. Mowery, K. Ghaghada. Co-clinical photon counting CT research for multi-contrast imaging. Proceedings Volume 12304, 7th International Conference on Image Formation in X-Ray Computed Tomography; 123040G (2022)  https://doi.org/10.1117/12.2646399
2. Darin P. Clark, Alex J. Allphin, Yvonne M. Mowery, Cristian T. Badea. Photon-counting x-ray CT perfusion imaging in animal models of cancer . Proceedings Volume 7th International Conference on Image Formation in X-Ray Computed Tomography, 123041B (2022) https://doi.org/10.1117/12.2646403
3. Rohan Nadkarni, Alex Allphin, Darin Clark, Cristian Badea. Material decomposition from photon-counting CT using a convolutional neural network and energy-integrating CT training labels.  Proceedings Volume 12304, 7th International Conference on Image Formation in X-Ray Computed Tomography; 123041K (2022)) https://doi.org/10.1117/12.2646405

Preclinical implementation of a clinical trial

This study aimed to investigate whether adding neoadjuvant radiotherapy (RT), anti-programmed cell death protein-1 (PD-1) antibody (anti-PD-1), or RT + anti-PD-1 to surgical resection improves disease-free survival for mice with soft tissue sarcomas (STS). The paper has been included in the highlights.

https://doi.org/10.1158/1535-7163.MCT-21-0991 

Deep learning based multimodal segmentation of acute ischemic stroke lesions in the human brain

Hae Sol Moon, Lindsay Heffron, Ali Mahzarnia, Barnabas Obeng-Gyasi, Matthew Holbrook, Cristian T. Badea, Wuwei Feng, Alexandra Badea,
Automated multimodal segmentation of acute ischemic stroke lesions on clinical MR images,
Magnetic Resonance Imaging,
2022, ISSN 0730-725X,
https://doi.org/10.1016/j.mri.2022.06.001.

Imaging Biomarkers for Alzheimer’s Disease Using Magnetic Resonance Microscopy

Book Chapter: Alexandra Badea, Jacques A Stout, Robert J Anderson, Gary P Cofer. Imaging Biomarkers for Alzheimer’s Disease Using Magnetic Resonance Microscopy

in Magnetic Resonance Microscopy: Instrumentation and Applications in Engineering, Life Science, and Energy Research.

Sabina Haber-Pohlmeier (Editor), Bernhard Blumich (Editor), Luisa Ciobanu (Editor), 2022

ISBN: 978-3-527-34760-5 April 2022 464 Pages

 

 

Our QIAL contributions at SPIE Medical Imaging 2022

  1. A. J. Allphin, D. P. ClarkA. Badea, and C. T. Badea “Anatomical and functional cardiac PCCT imaging pipeline for characterization of Apolipoprotein E mouse models“, Proc. SPIE 12036, Medical Imaging 2022: Biomedical Applications in Molecular, Structural, and Functional Imaging, 120360Z (4 April 2022); https://doi.org/10.1117/12.2611806
  2. A. J. Allphin, Y. Mowery, K. J. Lafata, D. P. Clark, A. Basil, Rico Castillo, M. D. Holbrook, K. B. Ghaghada, and C. T. Badea “Spectral micro-CT and radiomic analysis for classification of tumors based on lymphocytic burden in cancer therapy studies“, Proc. SPIE 12036, Medical Imaging 2022: Biomedical Applications in Molecular, Structural, and Functional Imaging, 120361H (4 April 2022); https://doi.org/10.1117/12.2611519
  3. Darin P. Clark and Cristian T. Badea “Volumetric, dual-domain x-ray CT reconstruction with deep learning“, Proc. SPIE 12031, Medical Imaging 2022: Physics of Medical Imaging, 1203135 (4 April 2022); https://doi.org/10.1117/12.2611771
  4. Darin P. Clark, Ehsan Abadi, Nicholas Felice, W. Paul Segars, Ehsan Samei, and Cristian T. Badea “Cardiac CT reconstruction for vendor-neutral virtual imaging trials“, Proc. SPIE 12031, Medical Imaging 2022: Physics of Medical Imaging, 1203110 (4 April 2022); https://doi.org/10.1117/12.2612950
  5. C. T. Badea, D. P. Clark, A. Allphin, K. B. Ghaghada, and Y. M. Mowery “Photon counting micro-CT for imaging Cisplatin“, Proc. SPIE 12036, Medical Imaging 2022: Biomedical Applications in Molecular, Structural, and Functional Imaging, 120361I (4 April 2022); https://doi.org/10.1117/12.2612574