1
|
Morita D, Mazen S, Tsujiko S, Otake Y, Sato Y, Numajiri T. Deep-learning-based automatic facial bone segmentation using a two-dimensional U-Net. Int J Oral Maxillofac Surg 2023; 52:787-792. [PMID: 36328865 DOI: 10.1016/j.ijom.2022.10.015] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2022] [Revised: 08/16/2022] [Accepted: 10/24/2022] [Indexed: 06/04/2023]
Abstract
The use of deep learning (DL) in medical imaging is becoming increasingly widespread. Although DL has been used previously for the segmentation of facial bones in computed tomography (CT) images, there are few reports of segmentation involving multiple areas. In this study, a U-Net was used to investigate the automatic segmentation of facial bones into eight areas, with the aim of facilitating virtual surgical planning (VSP) and computer-aided design and manufacturing (CAD/CAM) in maxillofacial surgery. CT data from 50 patients were prepared and used for training, and five-fold cross-validation was performed. The output results generated by the DL model were validated by Dice coefficient and average symmetric surface distance (ASSD). The automatic segmentation was successful in all cases, with a mean± standard deviation Dice coefficient of 0.897 ± 0.077 and ASSD of 1.168 ± 1.962 mm. The accuracy was very high for the mandible (Dice coefficient 0.984, ASSD 0.324 mm) and zygomatic bones (Dice coefficient 0.931, ASSD 0.487 mm), and these could be introduced for VSP and CAD/CAM without any modification. The results for other areas, particularly the teeth, were slightly inferior, with possible reasons being the effects of defects, bonded maxillary and mandibular teeth, and metal artefacts. A limitation of this study is that the data were from a single institution. Hence further research is required to improve the accuracy for some facial areas and to validate the results in larger and more diverse populations.
Collapse
Affiliation(s)
- D Morita
- Department of Plastic and Reconstructive Surgery, Kyoto Prefectural University of Medicine, Kyoto, Japan.
| | - S Mazen
- Division of Information Science, Nara Institute of Science and Technology, Nara, Japan
| | - S Tsujiko
- Department of Plastic and Reconstructive Surgery, Saiseikai Shigaken Hospital, Shiga, Japan
| | - Y Otake
- Division of Information Science, Nara Institute of Science and Technology, Nara, Japan
| | - Y Sato
- Division of Information Science, Nara Institute of Science and Technology, Nara, Japan
| | - T Numajiri
- Department of Plastic and Reconstructive Surgery, Kyoto Prefectural University of Medicine, Kyoto, Japan
| |
Collapse
|
2
|
Imamura Y, Ogawa JI, Otake Y, Itoh H. Simultaneous Characterization of Reaction Kinetics and Enthalpy by Calorimetry Based on Spatially Resolved Temperature Profile in Flow Reactors. Org Process Res Dev 2023. [DOI: 10.1021/acs.oprd.2c00251] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/13/2023]
Affiliation(s)
- Yusuke Imamura
- Innovation Center, Yokogawa Electric Corp., 2-9-32 Nakacho, Musashino-shi, Tokyo 180-8750, Japan
| | - Jun-ichi Ogawa
- Innovation Center, Yokogawa Electric Corp., 2-9-32 Nakacho, Musashino-shi, Tokyo 180-8750, Japan
| | - Yuma Otake
- Innovation Center, Yokogawa Electric Corp., 2-9-32 Nakacho, Musashino-shi, Tokyo 180-8750, Japan
| | - Hidenosuke Itoh
- Innovation Center, Yokogawa Electric Corp., 2-9-32 Nakacho, Musashino-shi, Tokyo 180-8750, Japan
| |
Collapse
|
3
|
Otake Y, Adachi K, Yamashita Y, Iwanaga N, Sunakawa H, Shamoto T, Ogawa JI, Ito A, Kobayashi Y, Masuya K, Fuse S, Kubo D, Itoh H. Liquid-Phase Continuous-Flow Peptide Synthesizer for Preparing C-Terminal Free Peptides. REACT CHEM ENG 2023. [DOI: 10.1039/d2re00453d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
Despite the importance of the peptide drugs, their productions have been usually performed by unsustainable and time-consuming methods. Conventional peptide production requires repeated amidation and deprotection steps that increase the...
Collapse
|
4
|
Zhang Y, Li S, Uenaka T, Furuuchi K, Yonemori K, Shimizu T, Nishio S, Yunokawa M, Matsumoto K, Takehara K, Hasegawa K, Hirashima Y, Kato H, Otake Y, Miura T, Matsui J. Phase I Biomarker Analysis Results of MORAb-202 (Farletuzumab Ecteribulin) Effects on Vascular Remodeling and Immune Modulation in Patients With Ovarian Cancer. Eur J Cancer 2022. [DOI: 10.1016/s0959-8049(22)01032-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
|
5
|
Kitamura H, Otake Y, Sugisawa N, Sugisawa H, Ida T, Nakamura H, Fuse S. Cover Feature: Sequential Nucleophilic Substitution of Phosphorus Trichloride with Alcohols in a Continuous‐Flow Reactor and Consideration of a Mechanism for Reduced Over‐reaction through the Addition of Imidazole (Chem. Eur. J. 37/2022). Chemistry 2022. [DOI: 10.1002/chem.202201646] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Hiroshi Kitamura
- School of Life Science and Technology Tokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
| | - Yuma Otake
- School of Life Science and Technology Tokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
| | - Naoto Sugisawa
- Department of Basic Medicinal Sciences Graduate School of Pharmaceutical Sciences Nagoya University Furo-cho, Chikusa-ku Nagoya 464-8601 Japan
| | - Hiroki Sugisawa
- Division of Material Chemistry Graduate School of Natural Science and Technology Kanazawa University Kakuma-machi Kanazawa Ishikawa 920-1192 Japan
| | - Tomonori Ida
- Division of Material Chemistry Graduate School of Natural Science and Technology Kanazawa University Kakuma-machi Kanazawa Ishikawa 920-1192 Japan
| | - Hiroyuki Nakamura
- School of Life Science and Technology Tokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
- Laboratory for Chemistry and Life Science Institute of Innovative Research Tokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
| | - Shinichiro Fuse
- Department of Basic Medicinal Sciences Graduate School of Pharmaceutical Sciences Nagoya University Furo-cho, Chikusa-ku Nagoya 464-8601 Japan
| |
Collapse
|
6
|
Kitamura H, Otake Y, Sugisawa N, Sugisawa H, Ida T, Nakamura H, Fuse S. Sequential Nucleophilic Substitution of Phosphorus Trichloride with Alcohols in a Continuous‐Flow Reactor and Consideration of a Mechanism for Reduced Over‐reaction through the Addition of Imidazole. Chemistry 2022; 28:e202200932. [DOI: 10.1002/chem.202200932] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2022] [Indexed: 12/28/2022]
Affiliation(s)
- Hiroshi Kitamura
- School of Life Science and Technology Tokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
| | - Yuma Otake
- School of Life Science and Technology Tokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
| | - Naoto Sugisawa
- Department of Basic Medicinal Sciences Graduate School of Pharmaceutical Sciences Nagoya University Furo-cho, Chikusa-ku Nagoya 464-8601 Japan
| | - Hiroki Sugisawa
- Division of Material Chemistry Graduate School of Natural Science and Technology Kanazawa University Kakuma-machi Kanazawa Ishikawa 920-1192 Japan
| | - Tomonori Ida
- Division of Material Chemistry Graduate School of Natural Science and Technology Kanazawa University Kakuma-machi Kanazawa Ishikawa 920-1192 Japan
| | - Hiroyuki Nakamura
- School of Life Science and Technology Tokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
- Laboratory for Chemistry and Life Science Institute of Innovative Research Tokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
| | - Shinichiro Fuse
- Department of Basic Medicinal Sciences Graduate School of Pharmaceutical Sciences Nagoya University Furo-cho, Chikusa-ku Nagoya 464-8601 Japan
| |
Collapse
|
7
|
Fuse S, Komuro K, Otake Y, Masui H, Nakamura H. Rapid and Mild Lactamization Using Highly Electrophilic Triphosgene in a Microflow Reactor. Chemistry 2021; 27:7525-7532. [PMID: 33496974 DOI: 10.1002/chem.202100059] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2021] [Indexed: 12/23/2022]
Abstract
Lactams are cyclic amides that are indispensable as drugs and as drug candidates. Conventional lactamization includes acid-mediated and coupling-agent-mediated approaches that suffer from narrow substrate scope, much waste, and/or high cost. Inexpensive, less-wasteful approaches mediated by highly electrophilic reagents are attractive, but there is an imminent risk of side reactions. Herein, a methods using highly electrophilic triphosgene in a microflow reactor that accomplishes rapid (0.5-10 s), mild, inexpensive, and less-wasteful lactamization are described. Methods A and B, which use N-methylmorpholine and N-methylimidazole, respectively, were developed. Various lactams and a cyclic peptide containing acid- and/or heat-labile functional groups were synthesized in good to high yields without the need for tedious purification. Undesired reactions were successfully suppressed, and the risk of handling triphosgene was minimized by the use of microflow technology.
Collapse
Affiliation(s)
- Shinichiro Fuse
- Department of Basic Medicinal Sciences, Graduate School of Pharmaceutical Sciences, Nagoya University, Furo-cho, Chikusa-ku, Nagoya, 464-8601, Japan
| | - Keiji Komuro
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan.,School of Life Science and Technology, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan
| | - Yuma Otake
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan.,School of Life Science and Technology, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan
| | - Hisashi Masui
- Department of Basic Medicinal Sciences, Graduate School of Pharmaceutical Sciences, Nagoya University, Furo-cho, Chikusa-ku, Nagoya, 464-8601, Japan
| | - Hiroyuki Nakamura
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan
| |
Collapse
|
8
|
Fuse S, Komuro K, Otake Y, Masui H, Nakamura H. Cover Feature: Rapid and Mild Lactamization Using Highly Electrophilic Triphosgene in a Microflow Reactor (Chem. Eur. J. 27/2021). Chemistry 2021. [DOI: 10.1002/chem.202101330] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Shinichiro Fuse
- Department of Basic Medicinal Sciences Graduate School of Pharmaceutical Sciences Nagoya University Furo-cho Chikusa-ku Nagoya 464-8601 Japan
| | - Keiji Komuro
- Laboratory for Chemistry and Life Science, Institute of Innovative Research Tokyo Institute of Technology 4259 Nagatsuta-cho Midori-ku Yokohama 226-8503 Japan
- School of Life Science and Technology Tokyo Institute of Technology 4259 Nagatsuta-cho Midori-ku Yokohama 226-8503 Japan
| | - Yuma Otake
- Laboratory for Chemistry and Life Science, Institute of Innovative Research Tokyo Institute of Technology 4259 Nagatsuta-cho Midori-ku Yokohama 226-8503 Japan
- School of Life Science and Technology Tokyo Institute of Technology 4259 Nagatsuta-cho Midori-ku Yokohama 226-8503 Japan
| | - Hisashi Masui
- Department of Basic Medicinal Sciences Graduate School of Pharmaceutical Sciences Nagoya University Furo-cho Chikusa-ku Nagoya 464-8601 Japan
| | - Hiroyuki Nakamura
- Laboratory for Chemistry and Life Science, Institute of Innovative Research Tokyo Institute of Technology 4259 Nagatsuta-cho Midori-ku Yokohama 226-8503 Japan
| |
Collapse
|
9
|
Grupp RB, Murphy RJ, Hegeman RA, Alexander CP, Unberath M, Otake Y, McArthur BA, Armand M, Taylor RH. Fast and automatic periacetabular osteotomy fragment pose estimation using intraoperatively implanted fiducials and single-view fluoroscopy. Phys Med Biol 2020; 65:245019. [PMID: 32590372 DOI: 10.1088/1361-6560/aba089] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
Accurate and consistent mental interpretation of fluoroscopy to determine the position and orientation of acetabular bone fragments in 3D space is difficult. We propose a computer assisted approach that uses a single fluoroscopic view and quickly reports the pose of an acetabular fragment without any user input or initialization. Intraoperatively, but prior to any osteotomies, two constellations of metallic ball-bearings (BBs) are injected into the wing of a patient's ilium and lateral superior pubic ramus. One constellation is located on the expected acetabular fragment, and the other is located on the remaining, larger, pelvis fragment. The 3D locations of each BB are reconstructed using three fluoroscopic views and 2D/3D registrations to a preoperative CT scan of the pelvis. The relative pose of the fragment is established by estimating the movement of the two BB constellations using a single fluoroscopic view taken after osteotomy and fragment relocation. BB detection and inter-view correspondences are automatically computed throughout the processing pipeline. The proposed method was evaluated on a multitude of fluoroscopic images collected from six cadaveric surgeries performed bilaterally on three specimens. Mean fragment rotation error was 2.4 ± 1.0 degrees, mean translation error was 2.1 ± 0.6 mm, and mean 3D lateral center edge angle error was 1.0 ± 0.5 degrees. The average runtime of the single-view pose estimation was 0.7 ± 0.2 s. The proposed method demonstrates accuracy similar to other state of the art systems which require optical tracking systems or multiple-view 2D/3D registrations with manual input. The errors reported on fragment poses and lateral center edge angles are within the margins required for accurate intraoperative evaluation of femoral head coverage.
Collapse
Affiliation(s)
- R B Grupp
- Department of Computer Science, Johns Hopkins University, Baltimore, MD, United States of America
| | | | | | | | | | | | | | | | | |
Collapse
|
10
|
Kawamura J, Kitamura H, Otake Y, Fuse S, Nakamura H. Size-Controllable and Scalable Production of Liposomes Using a V-Shaped Mixer Micro-Flow Reactor. Org Process Res Dev 2020. [DOI: 10.1021/acs.oprd.0c00174] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Affiliation(s)
- Jun Kawamura
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, Yokohama 226-8503, Japan
- School of Life Science and Technology, Tokyo Institute of Technology, Yokohama 226-8501, Japan
| | - Hiroshi Kitamura
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, Yokohama 226-8503, Japan
- School of Life Science and Technology, Tokyo Institute of Technology, Yokohama 226-8501, Japan
| | - Yuma Otake
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, Yokohama 226-8503, Japan
- School of Life Science and Technology, Tokyo Institute of Technology, Yokohama 226-8501, Japan
| | - Shinichiro Fuse
- Graduate School of Pharmaceutical Sciences, Nagoya University, Nagoya 464-8601, Japan
| | - Hiroyuki Nakamura
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, Yokohama 226-8503, Japan
| |
Collapse
|
11
|
Otake Y, Shibata Y, Hayashi Y, Kawauchi S, Nakamura H, Fuse S. N‐Methylated Peptide Synthesis via Generation of an Acyl N‐Methylimidazolium Cation Accelerated by a Brønsted Acid. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.202002106] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Yuma Otake
- Laboratory for Chemistry and Life Science Institute of Innovative Research Tokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
- School of Life Science and Technology Tokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
| | - Yusuke Shibata
- School of Materials and Chemical Technology Tokyo Institute of Technology 2-12-1 Ookayama, Meguro-ku Tokyo 152-8552 Japan
| | - Yoshihiro Hayashi
- School of Materials and Chemical Technology Tokyo Institute of Technology 2-12-1 Ookayama, Meguro-ku Tokyo 152-8552 Japan
| | - Susumu Kawauchi
- School of Materials and Chemical Technology Tokyo Institute of Technology 2-12-1 Ookayama, Meguro-ku Tokyo 152-8552 Japan
| | - Hiroyuki Nakamura
- Laboratory for Chemistry and Life Science Institute of Innovative Research Tokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
| | - Shinichiro Fuse
- Department of Basic Medicinal Sciences Graduate School of Pharmaceutical Sciences Nagoya University Furo-cho, Chikusa-ku Nagoya 464-8601 Japan
| |
Collapse
|
12
|
Otake Y, Shibata Y, Hayashi Y, Kawauchi S, Nakamura H, Fuse S. N-Methylated Peptide Synthesis via Generation of an Acyl N-Methylimidazolium Cation Accelerated by a Brønsted Acid. Angew Chem Int Ed Engl 2020; 59:12925-12930. [PMID: 32274844 DOI: 10.1002/anie.202002106] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2020] [Indexed: 12/31/2022]
Abstract
The development of a robust amide-bond formation remains a critical aspect of N-methylated peptide synthesis. In this study, we synthesized a variety of dipeptides in high yields, without severe racemization, from equivalent amounts of amino acids. Highly reactive N-methylimidazolium cation species were generated in situ to accelerate the amidation. The key to success was the addition of a strong Brønsted acid. The developed amidation enabled the synthesis of a bulky peptide with a higher yield in a shorter amount of time compared with the results of conventional amidation. In addition, the amidation can be performed by using either a microflow reactor or a conventional flask. The first total synthesis of naturally occurring bulky N-methylated peptides, pterulamides I-IV, was achieved. Based on experimental results and theoretical calculations, we speculated that a Brønsted acid would accelerate the rate-limiting generation of acyl imidazolium cations from mixed carbonic anhydrides.
Collapse
Affiliation(s)
- Yuma Otake
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan.,School of Life Science and Technology, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan
| | - Yusuke Shibata
- School of Materials and Chemical Technology, Tokyo Institute of Technology, 2-12-1 Ookayama, Meguro-ku, Tokyo, 152-8552, Japan
| | - Yoshihiro Hayashi
- School of Materials and Chemical Technology, Tokyo Institute of Technology, 2-12-1 Ookayama, Meguro-ku, Tokyo, 152-8552, Japan
| | - Susumu Kawauchi
- School of Materials and Chemical Technology, Tokyo Institute of Technology, 2-12-1 Ookayama, Meguro-ku, Tokyo, 152-8552, Japan
| | - Hiroyuki Nakamura
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan
| | - Shinichiro Fuse
- Department of Basic Medicinal Sciences, Graduate School of Pharmaceutical Sciences, Nagoya University, Furo-cho, Chikusa-ku, Nagoya, 464-8601, Japan
| |
Collapse
|
13
|
Sugisawa N, Otake Y, Nakamura H, Fuse S. Single-Step, Rapid, and Mild Synthesis of β-Amino Acid N-Carboxy Anhydrides Using Micro-Flow Technology. Chem Asian J 2020; 15:79-84. [PMID: 31778028 DOI: 10.1002/asia.201901429] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2019] [Revised: 11/06/2019] [Indexed: 01/25/2023]
Abstract
β-Amino acid N-carboxy anhydrides (β-NCAs) are rarely used in the synthesis of β-peptides, which is due mainly to the poor availability of these potentially useful substrates. Herein, we describe the heretofore challenging synthesis of β-NCAs via a single-step, rapid, and mild formation using pH flash switching and flash dilution, which are aspects of micro-flow technology. We synthesized 15 β-NCAs in good to excellent yields that included acid-labile β-NCAs that cannot be readily synthesized using the conventional Leuchs approach. Scaled-up synthesis using this process can be readily achieved via continuous operation.
Collapse
Affiliation(s)
- Naoto Sugisawa
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan.,School of Life Science and Technology, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan
| | - Yuma Otake
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan.,School of Life Science and Technology, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan
| | - Hiroyuki Nakamura
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan
| | - Shinichiro Fuse
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan.,Present address: Department of Basic Medical Sciences, Graduate School of Pharmaceutical Sciences, Nagoya University, Furo-cho, Chikusa-ku, Nagoya, 464-8601, Japan
| |
Collapse
|
14
|
Sugisawa N, Otake Y, Nakamura H, Fuse S. Cover Feature: Single‐Step, Rapid, and Mild Synthesis of β‐Amino Acid
N
‐Carboxy Anhydrides Using Micro‐Flow Technology (Chem. Asian J. 1/2020). Chem Asian J 2020. [DOI: 10.1002/asia.201901586] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Naoto Sugisawa
- Laboratory for Chemistry and Life ScienceInstitute of Innovative ResearchTokyo Institute of Technology 4259 Nagatsuta-cho Midori-ku Yokohama 226-8503 Japan
- School of Life Science and TechnologyTokyo Institute of Technology 4259 Nagatsuta-cho Midori-ku Yokohama 226-8503 Japan
| | - Yuma Otake
- Laboratory for Chemistry and Life ScienceInstitute of Innovative ResearchTokyo Institute of Technology 4259 Nagatsuta-cho Midori-ku Yokohama 226-8503 Japan
- School of Life Science and TechnologyTokyo Institute of Technology 4259 Nagatsuta-cho Midori-ku Yokohama 226-8503 Japan
| | - Hiroyuki Nakamura
- Laboratory for Chemistry and Life ScienceInstitute of Innovative ResearchTokyo Institute of Technology 4259 Nagatsuta-cho Midori-ku Yokohama 226-8503 Japan
| | - Shinichiro Fuse
- Laboratory for Chemistry and Life ScienceInstitute of Innovative ResearchTokyo Institute of Technology 4259 Nagatsuta-cho Midori-ku Yokohama 226-8503 Japan
- Present address: Department of Basic Medical SciencesGraduate School of Pharmaceutical SciencesNagoya University Furo-cho Chikusa-ku Nagoya 464-8601 Japan
| |
Collapse
|
15
|
Fuse S, Masuda K, Otake Y, Nakamura H. Cover Feature: Peptide‐Chain Elongation Using Unprotected Amino Acids in a Micro‐Flow Reactor (Chem. Eur. J. 66/2019). Chemistry 2019. [DOI: 10.1002/chem.201904370] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Shinichiro Fuse
- Laboratory for Chemistry and Life Science, Institute of Innovative ResearchTokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
| | - Koshiro Masuda
- Laboratory for Chemistry and Life Science, Institute of Innovative ResearchTokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
- School of Life Science and TechnologyTokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
| | - Yuma Otake
- Laboratory for Chemistry and Life Science, Institute of Innovative ResearchTokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
- School of Life Science and TechnologyTokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
| | - Hiroyuki Nakamura
- Laboratory for Chemistry and Life Science, Institute of Innovative ResearchTokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
| |
Collapse
|
16
|
Fuse S, Masuda K, Otake Y, Nakamura H. Peptide‐Chain Elongation Using Unprotected Amino Acids in a Micro‐Flow Reactor. Chemistry 2019; 25:15091-15097. [DOI: 10.1002/chem.201903531] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2019] [Revised: 08/28/2019] [Indexed: 12/24/2022]
Affiliation(s)
- Shinichiro Fuse
- Laboratory for Chemistry and Life Science, Institute of Innovative Research Tokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
| | - Koshiro Masuda
- Laboratory for Chemistry and Life Science, Institute of Innovative Research Tokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
- School of Life Science and Technology Tokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
| | - Yuma Otake
- Laboratory for Chemistry and Life Science, Institute of Innovative Research Tokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
- School of Life Science and Technology Tokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
| | - Hiroyuki Nakamura
- Laboratory for Chemistry and Life Science, Institute of Innovative Research Tokyo Institute of Technology 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
| |
Collapse
|
17
|
Williams JD, Otake Y, Coussanes G, Saridakis I, Maulide N, Kappe CO. Towards a Scalable Synthesis of 2-Oxabicyclo[2.2.0]hex-5-en-3-one Using Flow Photochemistry. CHEMPHOTOCHEM 2019; 3:229-232. [PMID: 31423462 PMCID: PMC6686974 DOI: 10.1002/cptc.201900017] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2019] [Revised: 01/31/2019] [Indexed: 12/12/2022]
Abstract
Cyclobutene lactones hold great potential as synthetic building blocks, yet their preparation by photochemical rearrangement in batch can often be a bottleneck in synthetic studies. We report the use of flow photochemistry as a tool to enable a higher-throughput approach to the synthesis of 2-oxabicyclo[2.2.0]hex-5-en-3-one, which reduces reaction times from 24 h to 10 min. Accordingly, a significantly improved throughput of 144 mg/h (vs 14-21 mg/h in batch) was achieved. Scale-out experiments showed problematic reactor fouling and steps were taken to explore and minimize this effect.
Collapse
Affiliation(s)
- Jason D. Williams
- Center for Continuous Flow Synthesis and Processing (CCFLOW)Research Center Pharmaceutical Engineering GmbH (RCPE)Inffeldgasse 138010GrazAustria
- Institute of ChemistryUniversity of Graz NAWI GrazHeinrichstrasse 288010 GrazAustria
| | - Yuma Otake
- Institute of ChemistryUniversity of Graz NAWI GrazHeinrichstrasse 288010 GrazAustria
- Present address: Laboratory for Chemistry and Life ScienceInstitute of Innovative Research Tokyo Institute of Technology 4259 Nagatsuta-cho, Midori-kuYokohama226-8503Japan
| | - Guilhem Coussanes
- Institute of Organic ChemistryUniversity of ViennaWähringer Strasse 381090ViennaAustria
| | - Iakovos Saridakis
- Institute of Organic ChemistryUniversity of ViennaWähringer Strasse 381090ViennaAustria
| | - Nuno Maulide
- Institute of Organic ChemistryUniversity of ViennaWähringer Strasse 381090ViennaAustria
| | - C. Oliver Kappe
- Center for Continuous Flow Synthesis and Processing (CCFLOW)Research Center Pharmaceutical Engineering GmbH (RCPE)Inffeldgasse 138010GrazAustria
- Institute of ChemistryUniversity of Graz NAWI GrazHeinrichstrasse 288010 GrazAustria
| |
Collapse
|
18
|
Otake Y, Williams JD, Rincón JA, de Frutos O, Mateos C, Kappe CO. Photochemical benzylic bromination in continuous flow using BrCCl3 and its application to telescoped p-methoxybenzyl protection. Org Biomol Chem 2019; 17:1384-1388. [DOI: 10.1039/c9ob00044e] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Abstract
Photochemical benzylic bromination in flow using BrCCl3, which is compatible with electron-rich aromatics, allowing in situ p-methoxybenzyl bromide formation and PMB-protection.
Collapse
Affiliation(s)
- Yuma Otake
- Institute of Chemistry
- University of Graz
- NAWI Graz
- 8010 Graz
- Austria
| | | | - Juan A. Rincón
- Centro de Investigación Lilly S.A
- 28108 Alcobendas-Madrid
- Spain
| | - Oscar de Frutos
- Centro de Investigación Lilly S.A
- 28108 Alcobendas-Madrid
- Spain
| | - Carlos Mateos
- Centro de Investigación Lilly S.A
- 28108 Alcobendas-Madrid
- Spain
| | - C. Oliver Kappe
- Institute of Chemistry
- University of Graz
- NAWI Graz
- 8010 Graz
- Austria
| |
Collapse
|
19
|
Otake Y, Nakamura H, Fuse S. Rapid and Mild Synthesis of Amino Acid N-Carboxy Anhydrides: Basic-to-Acidic Flash Switching in a Microflow Reactor. Angew Chem Int Ed Engl 2018; 57:11389-11393. [PMID: 29998576 DOI: 10.1002/anie.201803549] [Citation(s) in RCA: 37] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2018] [Indexed: 12/20/2022]
Abstract
Polymerization of N-carboxy anhydrides (NCAs) is the primary process used to prepare polypeptides. The synthesis of various pure NCAs is key to the efficient synthesis of polypeptides. The only practical method that can be used to synthesize NCAs requires harsh acidic conditions that make acid-labile substrates unusable and results in an undesired ring opening of NCAs. Basic-to-acidic flash switching and subsequent flash dilution technology in a microflow reactor was used to demonstrate the synthesis of NCAs. It is both rapid (0.1 s) and mild (20 °C) and includes substrates containing acid-labile functional groups. The basic-to-acidic flash switching enabled both an acceleration of the desired NCA formation and avoided the undesired ring opening of NCAs. The flash dilution precluded the undesired decomposition of acid-labile functional groups. The developed process allowed the synthesis of various NCAs which cannot be readily synthesized using conventional batch methods.
Collapse
Affiliation(s)
- Yuma Otake
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan.,School of Life Science and Technology, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan
| | - Hiroyuki Nakamura
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan
| | - Shinichiro Fuse
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, 226-8503, Japan
| |
Collapse
|
20
|
Otake Y, Nakamura H, Fuse S. Rapid and Mild Synthesis of Amino Acid N
-Carboxy Anhydrides: Basic-to-Acidic Flash Switching in a Microflow Reactor. Angew Chem Int Ed Engl 2018. [DOI: 10.1002/ange.201803549] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Affiliation(s)
- Yuma Otake
- Laboratory for Chemistry and Life Science; Institute of Innovative Research; Tokyo Institute of Technology; 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
- School of Life Science and Technology; Tokyo Institute of Technology; 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
| | - Hiroyuki Nakamura
- Laboratory for Chemistry and Life Science; Institute of Innovative Research; Tokyo Institute of Technology; 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
| | - Shinichiro Fuse
- Laboratory for Chemistry and Life Science; Institute of Innovative Research; Tokyo Institute of Technology; 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8503 Japan
| |
Collapse
|
21
|
|
22
|
Affiliation(s)
- Shinichiro Fuse
- Laboratory for Chemistry and Life Science; Institute of Innovative Research; Tokyo Institute of Technology; 4259 Nagatsuta-cho, Midori-ku 226-8503 Yokohama Japan
| | - Yuma Otake
- Laboratory for Chemistry and Life Science; Institute of Innovative Research; Tokyo Institute of Technology; 4259 Nagatsuta-cho, Midori-ku 226-8503 Yokohama Japan
| | - Hiroyuki Nakamura
- Laboratory for Chemistry and Life Science; Institute of Innovative Research; Tokyo Institute of Technology; 4259 Nagatsuta-cho, Midori-ku 226-8503 Yokohama Japan
| |
Collapse
|
23
|
Otake Y, Ishiki H, Iwase S, Nojima M. Examination of the prognostic factors of CART (Cell-free and Concentrated Ascites Reinfusion Therapy) in cancer patients with malignant ascites. Eur J Cancer 2017. [DOI: 10.1016/s0959-8049(17)30610-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
|
24
|
Affiliation(s)
- T. Fukui
- Health Care Science; Graduate School; Bunkyo Gakuin University; Tokyo Japan
| | - Y. Otake
- Health Care Science; Graduate School; Bunkyo Gakuin University; Tokyo Japan
| | - T. Kondo
- Health Care Science; Graduate School; Bunkyo Gakuin University; Tokyo Japan
| |
Collapse
|
25
|
Otake Y, Leonard S, Reiter A, Rajan P, Siewerdsen JH, Gallia GL, Ishii M, Taylor RH, Hager GD. Rendering-Based Video-CT Registration with Physical Constraints for Image-Guided Endoscopic Sinus Surgery. Proc SPIE Int Soc Opt Eng 2015; 9415. [PMID: 25991876 DOI: 10.1117/12.2081732] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
Abstract
We present a system for registering the coordinate frame of an endoscope to pre- or intra- operatively acquired CT data based on optimizing the similarity metric between an endoscopic image and an image predicted via rendering of CT. Our method is robust and semi-automatic because it takes account of physical constraints, specifically, collisions between the endoscope and the anatomy, to initialize and constrain the search. The proposed optimization method is based on a stochastic optimization algorithm that evaluates a large number of similarity metric functions in parallel on a graphics processing unit. Images from a cadaver and a patient were used for evaluation. The registration error was 0.83 mm and 1.97 mm for cadaver and patient images respectively. The average registration time for 60 trials was 4.4 seconds. The patient study demonstrated robustness of the proposed algorithm against a moderate anatomical deformation.
Collapse
Affiliation(s)
- Y Otake
- Department of Computer Science, Johns Hopkins University, Baltimore MD, USA ; Graduate School of Information Science, Nara Institute of Science and Technology, Nara, Japan
| | - S Leonard
- Department of Computer Science, Johns Hopkins University, Baltimore MD, USA
| | - A Reiter
- Department of Computer Science, Johns Hopkins University, Baltimore MD, USA
| | - P Rajan
- Department of Computer Science, Johns Hopkins University, Baltimore MD, USA
| | - J H Siewerdsen
- Department of Boimedical Engineering, Johns Hopkins University, Baltimore MD, USA
| | - G L Gallia
- Department of Otolaryngology - Head and Neck Surgery, Johns Hopkins University, Baltimore MD, USA
| | - M Ishii
- Department of Otolaryngology - Head and Neck Surgery, Johns Hopkins University, Baltimore MD, USA
| | - R H Taylor
- Department of Computer Science, Johns Hopkins University, Baltimore MD, USA
| | - G D Hager
- Department of Computer Science, Johns Hopkins University, Baltimore MD, USA
| |
Collapse
|
26
|
Abstract
An efficient, one-flow Arndt–Eistert synthesis was demonstrated. A sequence of acid chloride formation–nucleophilic acyl substitution–Wolff rearrangement–nucleophilic addition was performed in a microflow system without isolating any intermediates, which included a potentially explosive compound. The microflow system was made from simple, inexpensive, and readily available instruments and tubes. α-Aryl esters 2a and 2b were prepared in yields of 33 and 23 % (three steps) respectively.
Collapse
|
27
|
Uneri A, Wang AS, Otake Y, Kleinszig G, Vogt S, Khanna AJ, Gallia GL, Gokaslan ZL, Siewerdsen JH. Evaluation of low-dose limits in 3D-2D rigid registration for surgical guidance. Phys Med Biol 2014; 59:5329-45. [PMID: 25146673 DOI: 10.1088/0031-9155/59/18/5329] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
|
28
|
Reaungamornrat S, Wang AS, Uneri A, Otake Y, Khanna AJ, Siewerdsen JH. Deformable image registration with local rigidity constraints for cone-beam CT-guided spine surgery. Phys Med Biol 2014; 59:3761-87. [PMID: 24937093 DOI: 10.1088/0031-9155/59/14/3761] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Abstract
Image-guided spine surgery (IGSS) is associated with reduced co-morbidity and improved surgical outcome. However, precise localization of target anatomy and adjacent nerves and vessels relative to planning information (e.g., device trajectories) can be challenged by anatomical deformation. Rigid registration alone fails to account for deformation associated with changes in spine curvature, and conventional deformable registration fails to account for rigidity of the vertebrae, causing unrealistic distortions in the registered image that can confound high-precision surgery. We developed and evaluated a deformable registration method capable of preserving rigidity of bones while resolving the deformation of surrounding soft tissue. The method aligns preoperative CT to intraoperative cone-beam CT (CBCT) using free-form deformation (FFD) with constraints on rigid body motion imposed according to a simple intensity threshold of bone intensities. The constraints enforced three properties of a rigid transformation-namely, constraints on affinity (AC), orthogonality (OC), and properness (PC). The method also incorporated an injectivity constraint (IC) to preserve topology. Physical experiments involving phantoms, an ovine spine, and a human cadaver as well as digital simulations were performed to evaluate the sensitivity to registration parameters, preservation of rigid body morphology, and overall registration accuracy of constrained FFD in comparison to conventional unconstrained FFD (uFFD) and Demons registration. FFD with orthogonality and injectivity constraints (denoted FFD+OC+IC) demonstrated improved performance compared to uFFD and Demons. Affinity and properness constraints offered little or no additional improvement. The FFD+OC+IC method preserved rigid body morphology at near-ideal values of zero dilatation (D = 0.05, compared to 0.39 and 0.56 for uFFD and Demons, respectively) and shear (S = 0.08, compared to 0.36 and 0.44 for uFFD and Demons, respectively). Target registration error (TRE) was similarly improved for FFD+OC+IC (0.7 mm), compared to 1.4 and 1.8 mm for uFFD and Demons. Results were validated in human cadaver studies using CT and CBCT images, with FFD+OC+IC providing excellent preservation of rigid morphology and equivalent or improved TRE. The approach therefore overcomes distortions intrinsic to uFFD and could better facilitate high-precision IGSS.
Collapse
Affiliation(s)
- S Reaungamornrat
- Department of Computer Science, Johns Hopkins University, Baltimore, MD 21218, USA
| | | | | | | | | | | |
Collapse
|
29
|
Wang A, Stayman J, Otake Y, Gallia G, Siewerdsen J. WE-G-18A-01: JUNIOR INVESTIGATOR WINNER - Low-Dose C-Arm Cone-Beam CT with Model-Based Image Reconstruction for High-Quality Guidance of Neurosurgical Intervention. Med Phys 2014. [DOI: 10.1118/1.4889512] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
|
30
|
Locatelli F, Choukroun G, Fliser D, Moecks J, Wiggenhauser A, Gupta A, Swinkels DW, Lin V, Guss C, Pratt R, Carrilho P, Martins AR, Alves M, Mateus A, Gusmao L, Parreira L, Assuncao J, Rodrigues I, Stamopoulos D, Mpakirtzi N, Afentakis N, Grapsa E, Zitt E, Sturm G, Kronenberg F, Neyer U, Knoll F, Lhotta K, Weiss G, Robinson BM, Larkina M, Bieber B, Kleophas W, Li Y, Locatelli F, McCullough K, Nolen JG, Port FK, Pisoni RL, Kalicki RM, Uehlinger DE, Ogawa C, Kanda F, Tomosugi N, Maeda T, Kuji T, Fujikawa T, Shino M, Shibata K, Kaneda T, Nishihara M, Satta H, Kawata SI, Koguchi N, Tamura K, Hirawa N, Toya Y, Umemura S, Chanliau J, Martin H, Stamatelou K, Gonzalez-Tabares L, Manamley N, Farouk M, Addison J, Donck J, Schneider A, Gutjahr-Lengsfeld L, Ritz E, Scharnagl H, Gelbrich G, Pilz S, Macdougall IC, Wanner C, Drechsler C, Kuntsevich V, Charen E, Kobena D, Sheth N, Siktel H, Levin NW, Winchester JF, Kotanko P, Kaysen G, Kuragano T, Kida A, Yahiro M, Nanami M, Nagasawa Y, Hasuike Y, Nakanishi T, Stamopoulos D, Mpakirtzi N, Dimitratou V, Griveas I, Lianos E, Grapsa E, Sasaki Y, Yamazaki S, Fujita K, Kurasawa M, Yorozu K, Shimonaka Y, Suzuki N, Yamamoto M, Zwiech R, Szczepa ska J, Bruzda-Zwiech A, Rao A, Gilg J, Caskey F, Kirkpantur A, Balci MM, Turkvatan A, Afsar B, Alkis M, Mandiroglu F, Kim YO, Yoon SA, Kim YS, Choi SJ, Min JW, Cheong MA, Hasuike Y, Kida A, Oue M, Yamamoto K, Kimura T, Fukao W, Yahiro M, Kaibe S, Nanami M, Nakanishi T, Djuric PS, Ikonomovski J, Tosic J, Jankovic A, Majster Z, Stankovic Popovic V, Dimkovic N, Aicardi Spalloni V, Del Vecchio L, Longhi S, Violo L, La Milia V, Pontoriero G, Locatelli F, Shino M, Kuji T, Fujikawa T, Toya Y, Umemura S, Macdougall I, Rumjon A, Mangahis E, Goldstein L, Ryzlewicz T, Becker F, Kilgallon W, Fukasawa M, Otake Y, Yamagishi T, Kamiyama M, Kobayashi H, Takeda M, Toida T, Sato Y, Fujimoto S. DIALYSIS ANAEMIA. Nephrol Dial Transplant 2014. [DOI: 10.1093/ndt/gfu176] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
|
31
|
Wang AS, Stayman JW, Otake Y, Khanna AJ, Gallia GL, Siewerdsen JH. Patient-Specific Minimum-Dose Imaging Protocols for Statistical Image Reconstruction in C-arm Cone-Beam CT Using Correlated Noise Injection. ACTA ACUST UNITED AC 2014; 9033. [PMID: 34211241 DOI: 10.1117/12.2043083] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
Abstract
Purpose A new method for accurately portraying the impact of low-dose imaging techniques in C-arm cone-beam CT (CBCT) is presented and validated, allowing identification of minimum-dose protocols suitable to a given imaging task on a patient-specific basis in scenarios that require repeat intraoperative scans. Method To accurately simulate lower-dose techniques and account for object-dependent noise levels (x-ray quantum noise and detector electronics noise) and correlations (detector blur), noise of the proper magnitude and correlation was injected into the projections from an initial CBCT acquired at the beginning of a procedure. The resulting noisy projections were then reconstructed to yield low-dose preview (LDP) images that accurately depict the image quality at any level of reduced dose in both filtered backprojection and statistical image reconstruction. Validation studies were conducted on a mobile C-arm, with the noise injection method applied to images of an anthropomorphic head phantom and cadaveric torso across a range of lower-dose techniques. Results Comparison of preview and real CBCT images across a full range of techniques demonstrated accurate noise magnitude (within ~5%) and correlation (matching noise-power spectrum, NPS). Other image quality characteristics (e.g., spatial resolution, contrast, and artifacts associated with beam hardening and scatter) were also realistically presented at all levels of dose and across reconstruction methods, including statistical reconstruction. Conclusion Generating low-dose preview images for a broad range of protocols gives a useful method to select minimum-dose techniques that accounts for complex factors of imaging task, patient-specific anatomy, and observer preference. The ability to accurately simulate the influence of low-dose acquisition in statistical reconstruction provides an especially valuable means of identifying low-dose limits in a manner that does not rely on a model for the nonlinear reconstruction process or a model of observer performance.
Collapse
Affiliation(s)
- A S Wang
- Department of Biomedical Engineering, Johns Hopkins University, Baltimore MD
| | - J W Stayman
- Department of Biomedical Engineering, Johns Hopkins University, Baltimore MD
| | - Y Otake
- Department of Biomedical Engineering, Johns Hopkins University, Baltimore MD.,Department of Computer Science, Johns Hopkins University, Baltimore MD
| | - A J Khanna
- Department of Orthopaedic Surgery, Johns Hopkins University, Baltimore MD
| | - G L Gallia
- Department of Neurosurgery, Johns Hopkins University, Baltimore MD
| | - J H Siewerdsen
- Department of Biomedical Engineering, Johns Hopkins University, Baltimore MD
| |
Collapse
|
32
|
Uneri A, Otake Y, Wang AS, Kleinszig G, Vogt S, Khanna AJ, Siewerdsen JH. 3D-2D registration for surgical guidance: effect of projection view angles on registration accuracy. Phys Med Biol 2013; 59:271-87. [PMID: 24351769 DOI: 10.1088/0031-9155/59/2/271] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Abstract
An algorithm for intensity-based 3D-2D registration of CT and x-ray projections is evaluated, specifically using single- or dual-projection views to provide 3D localization. The registration framework employs the gradient information similarity metric and covariance matrix adaptation evolution strategy to solve for the patient pose in six degrees of freedom. Registration performance was evaluated in an anthropomorphic phantom and cadaver, using C-arm projection views acquired at angular separation, Δθ, ranging from ∼0°-180° at variable C-arm magnification. Registration accuracy was assessed in terms of 2D projection distance error and 3D target registration error (TRE) and compared to that of an electromagnetic (EM) tracker. The results indicate that angular separation as small as Δθ ∼10°-20° achieved TRE <2 mm with 95% confidence, comparable or superior to that of the EM tracker. The method allows direct registration of preoperative CT and planning data to intraoperative fluoroscopy, providing 3D localization free from conventional limitations associated with external fiducial markers, stereotactic frames, trackers and manual registration.
Collapse
Affiliation(s)
- A Uneri
- Department of Computer Science, Johns Hopkins University, Baltimore, MD 21218, USA
| | | | | | | | | | | | | |
Collapse
|
33
|
Togashi T, Takahashi E, Midorikawa K, Aoyama M, Yamakawa K, Sato T, Iwasaki A, Owada S, Yamanouchi K, Hara T, Matsubara S, Ohshima T, Otake Y, Tamasaku K, Tanaka H, Tanaka T, Tomizawa H, Watanabe T, Yabashi M, Ishikawa T. Extreme ultraviolet free electron laser seeded by high-order harmonic. Radiat Phys Chem Oxf Engl 1993 2013. [DOI: 10.1016/j.radphyschem.2013.06.013] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
|
34
|
Armiger RS, Otake Y, Iwaskiw AS, Wickwire AC, Ott KA, Voo LM, Armand M, Merkle AC. Biomechanical Response of Blast Loading to the Head Using 2D-3D Cineradiographic Registration. ACTA ACUST UNITED AC 2013. [DOI: 10.1007/978-3-319-00777-9_18] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/20/2023]
|
35
|
Reaungamornrat S, Liu WP, Wang AS, Otake Y, Nithiananthan S, Uneri A, Schafer S, Tryggestad E, Richmon J, Sorger JM, Siewerdsen JH, Taylor RH. Deformable image registration for cone-beam CT guided transoral robotic base-of-tongue surgery. Phys Med Biol 2013; 58:4951-79. [PMID: 23807549 PMCID: PMC3990286 DOI: 10.1088/0031-9155/58/14/4951] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Abstract
Transoral robotic surgery (TORS) offers a minimally invasive approach to resection of base-of-tongue tumors. However, precise localization of the surgical target and adjacent critical structures can be challenged by the highly deformed intraoperative setup. We propose a deformable registration method using intraoperative cone-beam computed tomography (CBCT) to accurately align preoperative CT or MR images with the intraoperative scene. The registration method combines a Gaussian mixture (GM) model followed by a variation of the Demons algorithm. First, following segmentation of the volume of interest (i.e. volume of the tongue extending to the hyoid), a GM model is applied to surface point clouds for rigid initialization (GM rigid) followed by nonrigid deformation (GM nonrigid). Second, the registration is refined using the Demons algorithm applied to distance map transforms of the (GM-registered) preoperative image and intraoperative CBCT. Performance was evaluated in repeat cadaver studies (25 image pairs) in terms of target registration error (TRE), entropy correlation coefficient (ECC) and normalized pointwise mutual information (NPMI). Retraction of the tongue in the TORS operative setup induced gross deformation >30 mm. The mean TRE following the GM rigid, GM nonrigid and Demons steps was 4.6, 2.1 and 1.7 mm, respectively. The respective ECC was 0.57, 0.70 and 0.73, and NPMI was 0.46, 0.57 and 0.60. Registration accuracy was best across the superior aspect of the tongue and in proximity to the hyoid (by virtue of GM registration of surface points on these structures). The Demons step refined registration primarily in deeper portions of the tongue further from the surface and hyoid bone. Since the method does not use image intensities directly, it is suitable to multi-modality registration of preoperative CT or MR with intraoperative CBCT. Extending the 3D image registration to the fusion of image and planning data in stereo-endoscopic video is anticipated to support safer, high-precision base-of-tongue robotic surgery.
Collapse
Affiliation(s)
- S Reaungamornrat
- Department of Computer Science, Johns Hopkins University, Baltimore, MD 21218, USA
| | | | | | | | | | | | | | | | | | | | | | | |
Collapse
|
36
|
Stayman JW, Dang H, Otake Y, Zbijewski W, Noble J, Dawant B, Labadie R, Carey JP, Siewerdsen JH. Overcoming Nonlinear Partial Volume Effects in Known-Component Reconstruction of Cochlear Implants. Proc SPIE Int Soc Opt Eng 2013; 8668:86681L. [PMID: 24949189 PMCID: PMC4060628 DOI: 10.1117/12.2007945] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
Abstract
Nonlinear partial volume (NLPV) effects can be significant for objects with large attenuation differences and fine detail structures near the spatial resolution limits of a tomographic system. This is particularly true for small metal devices like cochlear implants. While traditional model-based approaches might alleviate these artifacts through very fine sampling of the image volume and subsampling of rays to each detector element, such solutions can be extremely burdensome in terms of memory and computational requirements. The work presented in this paper leverages the model-based approach called "known-component reconstruction" (KCR) where prior knowledge of a surgical device is integrated into the estimation. In KCR, the parameterization of the object separates the volume into an unknown background anatomy and a known component with unknown registration. Thus, one can model projections of an implant at very high spatial resolution while limiting the spatial resolution of the anatomy - in effect, modeling NLPV effects where they are most significant. We present modifications of the KCR approach that can be used to largely eliminate NLPV artifacts, and demonstrate the efficacy of the modified technique (with improved image quality and accurate implant position estimates) for the cochlear implant imaging scenario.
Collapse
Affiliation(s)
- J. W. Stayman
- Dept. of Biomedical Eng., Johns Hopkins University, Baltimore, MD USA 21205
| | - H. Dang
- Dept. of Biomedical Eng., Johns Hopkins University, Baltimore, MD USA 21205
| | - Y. Otake
- Dept. of Biomedical Eng., Johns Hopkins University, Baltimore, MD USA 21205
| | - W. Zbijewski
- Dept. of Biomedical Eng., Johns Hopkins University, Baltimore, MD USA 21205
| | - J. Noble
- Dept. of Electrical Eng. and Computer Science, Vanderbilt University, Nashville, TN USA 37232
| | - B. Dawant
- Dept. of Electrical Eng. and Computer Science, Vanderbilt University, Nashville, TN USA 37232
| | - R. Labadie
- Dept. of Otolaryngology, Vanderbilt University, Nashville, TN USA 37232
| | - J. P. Carey
- Dept. of Otolaryngology, Johns Hopkins University, Baltimore, MD USA 21205
| | - J. H. Siewerdsen
- Dept. of Biomedical Eng., Johns Hopkins University, Baltimore, MD USA 21205
| |
Collapse
|
37
|
Dang H, Otake Y, Schafer S, Stayman JW, Kleinszig G, Siewerdsen JH. Robust methods for automatic image-to-world registration in cone-beam CT interventional guidance. Med Phys 2012; 39:6484-98. [PMID: 23039683 DOI: 10.1118/1.4754589] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
Abstract
PURPOSE Real-time surgical navigation relies on accurate image-to-world registration to align the coordinate systems of the image and patient. Conventional manual registration can present a workflow bottleneck and is prone to manual error and intraoperator variability. This work reports alternative means of automatic image-to-world registration, each method involving an automatic registration marker (ARM) used in conjunction with C-arm cone-beam CT (CBCT). The first involves a Known-Model registration method in which the ARM is a predefined tool, and the second is a Free-Form method in which the ARM is freely configurable. METHODS Studies were performed using a prototype C-arm for CBCT and a surgical tracking system. A simple ARM was designed with markers comprising a tungsten sphere within infrared reflectors to permit detection of markers in both x-ray projections and by an infrared tracker. The Known-Model method exercised a predefined specification of the ARM in combination with 3D-2D registration to estimate the transformation that yields the optimal match between forward projection of the ARM and the measured projection images. The Free-Form method localizes markers individually in projection data by a robust Hough transform approach extended from previous work, backprojected to 3D image coordinates based on C-arm geometric calibration. Image-domain point sets were transformed to world coordinates by rigid-body point-based registration. The robustness and registration accuracy of each method was tested in comparison to manual registration across a range of body sites (head, thorax, and abdomen) of interest in CBCT-guided surgery, including cases with interventional tools in the radiographic scene. RESULTS The automatic methods exhibited similar target registration error (TRE) and were comparable or superior to manual registration for placement of the ARM within ∼200 mm of C-arm isocenter. Marker localization in projection data was robust across all anatomical sites, including challenging scenarios involving the presence of interventional tools. The reprojection error of marker localization was independent of the distance of the ARM from isocenter, and the overall TRE was dominated by the configuration of individual fiducials and distance from the target as predicted by theory. The median TRE increased with greater ARM-to-isocenter distance (e.g., for the Free-Form method, TRE increasing from 0.78 mm to 2.04 mm at distances of ∼75 mm and 370 mm, respectively). The median TRE within ∼200 mm distance was consistently lower than that of the manual method (TRE = 0.82 mm). Registration performance was independent of anatomical site (head, thorax, and abdomen). The Free-Form method demonstrated a statistically significant improvement (p = 0.0044) in reproducibility compared to manual registration (0.22 mm versus 0.30 mm, respectively). CONCLUSIONS Automatic image-to-world registration methods demonstrate the potential for improved accuracy, reproducibility, and workflow in CBCT-guided procedures. A Free-Form method was shown to exhibit robustness against anatomical site, with comparable or improved TRE compared to manual registration. It was also comparable or superior in performance to a Known-Model method in which the ARM configuration is specified as a predefined tool, thereby allowing configuration of fiducials on the fly or attachment to the patient.
Collapse
Affiliation(s)
- H Dang
- Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD 21202, USA
| | | | | | | | | | | |
Collapse
|
38
|
Otake Y, Schafer S, Stayman JW, Zbijewski W, Kleinszig G, Graumann R, Khanna AJ, Siewerdsen JH. Automatic localization of vertebral levels in x-ray fluoroscopy using 3D-2D registration: a tool to reduce wrong-site surgery. Phys Med Biol 2012; 57:5485-508. [PMID: 22864366 DOI: 10.1088/0031-9155/57/17/5485] [Citation(s) in RCA: 50] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
Surgical targeting of the incorrect vertebral level (wrong-level surgery) is among the more common wrong-site surgical errors, attributed primarily to the lack of uniquely identifiable radiographic landmarks in the mid-thoracic spine. The conventional localization method involves manual counting of vertebral bodies under fluoroscopy, is prone to human error and carries additional time and dose. We propose an image registration and visualization system (referred to as LevelCheck), for decision support in spine surgery by automatically labeling vertebral levels in fluoroscopy using a GPU-accelerated, intensity-based 3D-2D (namely CT-to-fluoroscopy) registration. A gradient information (GI) similarity metric and a CMA-ES optimizer were chosen due to their robustness and inherent suitability for parallelization. Simulation studies involved ten patient CT datasets from which 50 000 simulated fluoroscopic images were generated from C-arm poses selected to approximate the C-arm operator and positioning variability. Physical experiments used an anthropomorphic chest phantom imaged under real fluoroscopy. The registration accuracy was evaluated as the mean projection distance (mPD) between the estimated and true center of vertebral levels. Trials were defined as successful if the estimated position was within the projection of the vertebral body (namely mPD <5 mm). Simulation studies showed a success rate of 99.998% (1 failure in 50 000 trials) and computation time of 4.7 s on a midrange GPU. Analysis of failure modes identified cases of false local optima in the search space arising from longitudinal periodicity in vertebral structures. Physical experiments demonstrated the robustness of the algorithm against quantum noise and x-ray scatter. The ability to automatically localize target anatomy in fluoroscopy in near-real-time could be valuable in reducing the occurrence of wrong-site surgery while helping to reduce radiation exposure. The method is applicable beyond the specific case of vertebral labeling, since any structure defined in pre-operative (or intra-operative) CT or cone-beam CT can be automatically registered to the fluoroscopic scene.
Collapse
Affiliation(s)
- Y Otake
- Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD 21205, USA
| | | | | | | | | | | | | | | |
Collapse
|
39
|
Zbijewski W, Stayman J, Otake Y, Carrino J, Khanna A, Siewerdsen J. WE-G-217BCD-01: BEST IN PHYSICS (IMAGING) - High-Quality CT Imaging in the Presence of Surgical Instrumentation Using Spectral System Models and Knowledge of Implanted Devices. Med Phys 2012; 39:3972-3973. [DOI: 10.1118/1.4736211] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
|
40
|
Yoo J, Schafer S, Uneri A, Otake Y, Khanna AJ, Siewerdsen JH. An electromagnetic “Tracker-in-Table” configuration for X-ray fluoroscopy and cone-beam CT-guided surgery. Int J Comput Assist Radiol Surg 2012; 8:1-13. [PMID: 22585463 DOI: 10.1007/s11548-012-0744-z] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2011] [Accepted: 04/26/2012] [Indexed: 11/25/2022]
Affiliation(s)
- J Yoo
- Department of Biomedical Engineering, The Johns Hopkins University, Baltimore, MD, USA
| | | | | | | | | | | |
Collapse
|
41
|
Reaungamornrat S, Otake Y, Uneri A, Schafer S, Mirota DJ, Nithiananthan S, Stayman JW, Kleinszig G, Khanna AJ, Taylor RH, Siewerdsen JH. An on-board surgical tracking and video augmentation system for C-arm image guidance. Int J Comput Assist Radiol Surg 2012; 7:647-65. [PMID: 22539008 DOI: 10.1007/s11548-012-0682-9] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/08/2011] [Accepted: 03/20/2012] [Indexed: 11/27/2022]
Abstract
PURPOSE Conventional tracker configurations for surgical navigation carry a variety of limitations, including limited geometric accuracy, line-of-sight obstruction, and mismatch of the view angle with the surgeon's-eye view. This paper presents the development and characterization of a novel tracker configuration (referred to as "Tracker-on-C") intended to address such limitations by incorporating the tracker directly on the gantry of a mobile C-arm for fluoroscopy and cone-beam CT (CBCT). METHODS A video-based tracker (MicronTracker, Claron Technology Inc., Toronto, ON, Canada) was mounted on the gantry of a prototype mobile isocentric C-arm next to the flat-panel detector. To maintain registration within a dynamically moving reference frame (due to rotation of the C-arm), a reference marker consisting of 6 faces (referred to as a "hex-face marker") was developed to give visibility across the full range of C-arm rotation. Three primary functionalities were investigated: surgical tracking, generation of digitally reconstructed radiographs (DRRs) from the perspective of a tracked tool or the current C-arm angle, and augmentation of the tracker video scene with image, DRR, and planning data. Target registration error (TRE) was measured in comparison with the same tracker implemented in a conventional in-room configuration. Graphics processing unit (GPU)-accelerated DRRs were generated in real time as an assistant to C-arm positioning (i.e., positioning the C-arm such that target anatomy is in the field-of-view (FOV)), radiographic search (i.e., a virtual X-ray projection preview of target anatomy without X-ray exposure), and localization (i.e., visualizing the location of the surgical target or planning data). Video augmentation included superimposing tracker data, the X-ray FOV, DRRs, planning data, preoperative images, and/or intraoperative CBCT onto the video scene. Geometric accuracy was quantitatively evaluated in each case, and qualitative assessment of clinical feasibility was analyzed by an experienced and fellowship-trained orthopedic spine surgeon within a clinically realistic surgical setup of the Tracker-on-C. RESULTS The Tracker-on-C configuration demonstrated improved TRE (0.87 ± 0.25) mm in comparison with a conventional in-room tracker setup (1.92 ± 0.71) mm (p < 0.0001) attributed primarily to improved depth resolution of the stereoscopic camera placed closer to the surgical field. The hex-face reference marker maintained registration across the 180° C-arm orbit (TRE = 0.70 ± 0.32 mm). DRRs generated from the perspective of the C-arm X-ray detector demonstrated sub- mm accuracy (0.37 ± 0.20 mm) in correspondence with the real X-ray image. Planning data and DRRs overlaid on the video scene exhibited accuracy of (0.59 ± 0.38) pixels and (0.66 ± 0.36) pixels, respectively. Preclinical assessment suggested potential utility of the Tracker-on-C in a spectrum of interventions, including improved line of sight, an assistant to C-arm positioning, and faster target localization, while reducing X-ray exposure time. CONCLUSIONS The proposed tracker configuration demonstrated sub- mm TRE from the dynamic reference frame of a rotational C-arm through the use of the multi-face reference marker. Real-time DRRs and video augmentation from a natural perspective over the operating table assisted C-arm setup, simplified radiographic search and localization, and reduced fluoroscopy time. Incorporation of the proposed tracker configuration with C-arm CBCT guidance has the potential to simplify intraoperative registration, improve geometric accuracy, enhance visualization, and reduce radiation exposure.
Collapse
Affiliation(s)
- S Reaungamornrat
- Department of Biomedical Engineering, Johns Hopkins University, Traylor Building, Room #726, 720 Rutland Avenue, Baltimore, MD 21205-2109, USA.
| | | | | | | | | | | | | | | | | | | | | |
Collapse
|
42
|
Stayman JW, Otake Y, Schafer S, Khanna AJ, Prince JL, Siewerdsen JH. Model-based Reconstruction of Objects with Inexactly Known Components. Proc SPIE Int Soc Opt Eng 2012. [PMID: 26203201 DOI: 10.1117/12.911202] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
Abstract
Because tomographic reconstructions are ill-conditioned, algorithms that incorporate additional knowledge about the imaging volume generally have improved image quality. This is particularly true when measurements are noisy or have missing data. This paper presents a general reconstruction framework for including attenuation contributions from objects known to be in the field-of-view. Components such as surgical devices and tools may be modeled explicitly as part of the attenuating volume but are inexactly known with respect to their locations poses, and possible deformations. The proposed reconstruction framework, referred to as Known-Component Reconstruction (KCR), is based on this novel parameterization of the object, a likelihood-based objective function, and alternating optimizations between registration and image parameters to jointly estimate the both the underlying attenuation and unknown registrations. A deformable KCR (dKCR) approach is introduced that adopts a control point-based warping operator to accommodate shape mismatches between the component model and the physical component, thereby allowing for a more general class of inexactly known components. The KCR and dKCR approaches are applied to low-dose cone-beam CT data with spine fixation hardware present in the imaging volume. Such data is particularly challenging due to photon starvation effects in projection data behind the metallic components. The proposed algorithms are compared with traditional filtered-backprojection and penalized-likelihood reconstructions and found to provide substantially improved image quality. Whereas traditional approaches exhibit significant artifacts that complicate detection of breaches or fractures near metal, the KCR framework tends to provide good visualization of anatomy right up to the boundary of surgical devices.
Collapse
Affiliation(s)
- J W Stayman
- Dept. of Biomedical Eng., Johns Hopkins University, Baltimore, MD USA 21205
| | - Y Otake
- Dept. of Biomedical Eng., Johns Hopkins University, Baltimore, MD USA 21205
| | - S Schafer
- Dept. of Biomedical Eng., Johns Hopkins University, Baltimore, MD USA 21205
| | - A J Khanna
- Dept. of Orthopaedic Surgery, Johns Hopkins University, Baltimore, MD USA 21205
| | - J L Prince
- Dept. of Electrical and Computer Eng., Johns Hopkins University, Baltimore, MD USA 21205
| | - J H Siewerdsen
- Dept. of Biomedical Eng., Johns Hopkins University, Baltimore, MD USA 21205
| |
Collapse
|
43
|
Lee J, Stayman JW, Otake Y, Schafer S, Zbijewski W, Khanna AJ, Prince JL, Siewerdsen JH. Incorporation of Prior Knowledge for Region of Change Imaging from Sparse Scan Data in Image-Guided Surgery. Proc SPIE Int Soc Opt Eng 2012; 8316:831603. [PMID: 26166930 PMCID: PMC4497550 DOI: 10.1117/12.910850] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
This paper proposes to utilize a patient-specific prior to augment intraoperative sparse-scan data to accurately reconstruct the aspects of the region that have changed by a surgical procedure in image-guided surgeries. When anatomical changes are introduced by a surgical procedure, only a sparse set of x-ray images are acquired, and the prior volume is registered to these data. Since all the information of the patient anatomy except for the surgical change is already known from the prior volume, we highlight only the change by creating difference images between the new scan and digitally reconstructed radiographs (DRR) computed from the registered prior volume. The region of change (RoC) is reconstructed from these sparse difference images by a penalized likelihood (PL) reconstruction method regularized by a compressed sensing penalty. When the surgical changes are local and relatively small, the RoC reconstruction involves only a small volume size and a small number of projections, allowing much faster computation and lower radiation dose than is needed to reconstruct the entire surgical volume. The reconstructed RoC merges with the prior volume to visualize an updated surgical field. We apply this novel approach to sacroplasty phantom data obtained from a cone-beam CT (CBCT) test bench and vertebroplasty data with a fresh cadaver acquired from a C-arm CBCT system with a flat-panel detector (FPD).
Collapse
Affiliation(s)
- J Lee
- Department of Electrical and Computer Eng., Johns Hopkins University, Baltimore, MD, USA
| | - J W Stayman
- Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD, USA
| | - Y Otake
- Department of Computer Science, Johns Hopkins University, Baltimore, MD, USA
| | - S Schafer
- Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD, USA
| | - W Zbijewski
- Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD, USA
| | - A J Khanna
- Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD, USA ; Department of Orthopaedic Surgery, Johns Hopkins University, Baltimore, MD, USA
| | - J L Prince
- Department of Electrical and Computer Eng., Johns Hopkins University, Baltimore, MD, USA
| | - J H Siewerdsen
- Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD, USA ; Department of Computer Science, Johns Hopkins University, Baltimore, MD, USA
| |
Collapse
|
44
|
Uneri A, Schafer S, Mirota DJ, Nithiananthan S, Otake Y, Taylor RH, Gallia GL, Khanna AJ, Lee S, Reh DD, Siewerdsen JH. TREK: an integrated system architecture for intraoperative cone-beam CT-guided surgery. Int J Comput Assist Radiol Surg 2011; 7:159-73. [PMID: 21744085 DOI: 10.1007/s11548-011-0636-7] [Citation(s) in RCA: 74] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2011] [Accepted: 06/10/2011] [Indexed: 10/18/2022]
Abstract
PURPOSE A system architecture has been developed for integration of intraoperative 3D imaging [viz., mobile C-arm cone-beam CT (CBCT)] with surgical navigation (e.g., trackers, endoscopy, and preoperative image and planning data). The goal of this paper is to describe the architecture and its handling of a broad variety of data sources in modular tool development for streamlined use of CBCT guidance in application-specific surgical scenarios. METHODS The architecture builds on two proven open-source software packages, namely the cisst package (Johns Hopkins University, Baltimore, MD) and 3D Slicer (Brigham and Women's Hospital, Boston, MA), and combines data sources common to image-guided procedures with intraoperative 3D imaging. Integration at the software component level is achieved through language bindings to a scripting language (Python) and an object-oriented approach to abstract and simplify the use of devices with varying characteristics. The platform aims to minimize offline data processing and to expose quantitative tools that analyze and communicate factors of geometric precision online. Modular tools are defined to accomplish specific surgical tasks, demonstrated in three clinical scenarios (temporal bone, skull base, and spine surgery) that involve a progressively increased level of complexity in toolset requirements. RESULTS The resulting architecture (referred to as "TREK") hosts a collection of modules developed according to application-specific surgical tasks, emphasizing streamlined integration with intraoperative CBCT. These include multi-modality image display; 3D-3D rigid and deformable registration to bring preoperative image and planning data to the most up-to-date CBCT; 3D-2D registration of planning and image data to real-time fluoroscopy; infrared, electromagnetic, and video-based trackers used individually or in hybrid arrangements; augmented overlay of image and planning data in endoscopic or in-room video; and real-time "virtual fluoroscopy" computed from GPU-accelerated digitally reconstructed radiographs (DRRs). Application in three preclinical scenarios (temporal bone, skull base, and spine surgery) demonstrates the utility of the modular, task-specific approach in progressively complex tasks. CONCLUSIONS The design and development of a system architecture for image-guided surgery has been reported, demonstrating enhanced utilization of intraoperative CBCT in surgical applications with vastly different requirements. The system integrates C-arm CBCT with a broad variety of data sources in a modular fashion that streamlines the interface to application-specific tools, accommodates distinct workflow scenarios, and accelerates testing and translation of novel toolsets to clinical use. The modular architecture was shown to adapt to and satisfy the requirements of distinct surgical scenarios from a common code-base, leveraging software components arising from over a decade of effort within the imaging and computer-assisted interventions community.
Collapse
Affiliation(s)
- A Uneri
- Department of Computer Science, Johns Hopkins University, Baltimore, MD 21205-2109, USA.
| | | | | | | | | | | | | | | | | | | | | |
Collapse
|
45
|
Stayman J, Otake Y, Uneri A, Prince J, Siewerdsen J. WE-A-301-04: Model-Based Known Component Reconstruction for Computed Tomography. Med Phys 2011. [DOI: 10.1118/1.3613288] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
|
46
|
Schafer S, Otake Y, Uneri A, Mirota D, Nithiananthan S, Stayman J, Zbijewski W, Schmidgunst C, Kleinszig G, Siewerdsen J. TH-E-110-09: Grids Revisited: The Effect of Antiscatter Grids on Image Quality and Dose in Mobile C-Arm Cone-Beam CT for Image-Guided Surgery. Med Phys 2011. [DOI: 10.1118/1.3613593] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
|
47
|
Nithiananthan S, Schafer S, Mirota DJ, Uneri A, Otake Y, Stayman JW, Siewerdsen JH. SU-E-J-47: Deformable Image Registration in the Presence of Excised Tissue: A Modified Demons Algorithm for Cone-Beam CT-Guided Surgery. Med Phys 2011. [DOI: 10.1118/1.3611815] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
|
48
|
Stayman J, Zbijewski W, Otake Y, Schafer S, Lee J, Prince J, Siewerdsen J. WE-A-301-07: Using Prior Images with Registration in Penalized Likelihood Estimation for CT with Sparse Data. Med Phys 2011. [DOI: 10.1118/1.3613291] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
|
49
|
Nithiananthan S, Mirota D, Uneri A, Schafer S, Otake Y, Stayman JW, Siewerdsen JH. Incorporating Tissue Excision in Deformable Image Registration: A Modified Demons Algorithm for Cone-Beam CT-Guided Surgery. Proc SPIE Int Soc Opt Eng 2011; 7964:796404. [PMID: 37621997 PMCID: PMC10448501 DOI: 10.1117/12.878258] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 08/26/2023]
Abstract
The ability to perform fast, accurate, deformable registration with intraoperative images featuring surgical excisions was investigated for use in cone-beam CT (CBCT) guided head and neck surgery. Existing deformable registration methods generally fail to account for tissue excised between image acquisitions and typically simply "move" voxels within the images with no ability to account for tissue that is removed (or introduced) between scans. We have thus developed an approach in which an extra dimension is added during the registration process to act as a sink for voxels removed during the course of the procedure. A series of cadaveric images acquired using a prototype CBCT-capable C-arm were used to model tissue deformation and excision occurring during a surgical procedure, and the ability of deformable registration to correctly account for anatomical changes under these conditions was investigated. Using a previously developed version of the Demons deformable registration algorithm, we identify the difficulties that traditional registration algorithms encounter when faced with excised tissue and present a modified version of the algorithm better suited for use in intraoperative image-guided procedures. Studies were performed for different deformation and tissue excision tasks, and registration performance was quantified in terms of the ability to accurately account for tissue excision while avoiding spurious deformations arising around the excision.
Collapse
Affiliation(s)
- S Nithiananthan
- Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD 21205
| | - D Mirota
- Department of Computer Science, Johns Hopkins University, Baltimore MD 21218
| | - A Uneri
- Department of Computer Science, Johns Hopkins University, Baltimore MD 21218
| | - S Schafer
- Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD 21205
| | - Y Otake
- Department of Computer Science, Johns Hopkins University, Baltimore MD 21218
| | - J W Stayman
- Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD 21205
| | - J H Siewerdsen
- Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD 21205
- Department of Computer Science, Johns Hopkins University, Baltimore MD 21218
| |
Collapse
|
50
|
Stayman J, Zbijewski W, Otake Y, Prince J, Siewerdsen J. TH-D-201B-07: Predicting Noise and Resolution Properties in Tomosynthesis with Statistical Image Reconstruction. Med Phys 2010. [DOI: 10.1118/1.3469566] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
|