MRI-based radiomics: Quantifying the stability and reproducibility of tumour heterogeneity in vivo and in a 3D printed phantom

Magnetic resonance imaging (MRI) is a key component in the oncology workflow. Radiomics analysis is a new approach that uses standard of care (SOC) magnetic resonance (MR) images to non-invasively characterise tumour heterogeneity. For radiomics to be reliable, the imaging features measured must be stable and reproducible. This thesis aims to quantify the stability and reproducibility of MRI-based radiomics in vivo and in a 3D printed phantom. Chapter 4 explores the feasibility of constructing a 3D printed phantom using an MRI visible material (‘red resin’). The study shows that the material used to construct an anthropomorphic skull phantom mimicked human cortical bone with a T2* of 411 ± 19 µs. The phantom material provided sufficient signal for tissue segmentation however was only visible with an ultrashort echo time sequence, not commonly used in SOC imaging. Chapter 5 investigates a high temperature resin (‘white resin’) where a texture object was developed for analysis. The ‘white resin’ was visible using SOC sequences. The interscanner repeatability measurements of the texture phantom demonstrated high reproducibility with 76% of texture features having an ICC > 0.9. In chapter 6, further texture and shape objects were developed and employed in a multi-centre study assessing inter and intrascanner variation of MRI-based radiomics. The phantom was stable over a period of 12 months, with a T1 and T2 of 150.7 ± 6.7 ms and 56.1 ± 3.9 ms, respectively. The study also found that histogram features were more stable (ICC > 0.8 for 67%) compared to texture (ICC > 0.8 for 58%) and shape texture (ICC > 0.8 for 0%) across the 8 scanners. In chapter 7, phantom measurements found that radiomics features were more sensitive to changes of image resolution and noise. The in vivo test-retest component of chapter 7 detected many unstable features not suitable for use in a radiomics prognostic model. In chapter 8, of the 83 features computed only 19 features had significant changes between the baseline, mid and post radiation treatment and may be informative to assess rectal cancer treatment response. When considering using radiomics analysis for SOC MRI scans, caution must be taken to ensure imaging protocols, imaging equipment including scanners and coils are consistent to improve intra and inter-institutional feature robustness. This can be achieved with regular quality assurance (QA) of imaging protocols using a suitable phantom and appropriate feature selection using phantom and in vivo datasets

Feasibility of free breathing Lung MRI for Radiotherapy using non-Cartesian k-space acquisition schemes

Objective: To test a free-breathing MRI protocol for anatomical and functional assessment during lung cancer radiotherapy by assessing two non-Cartesian acquisition schemes based on T1 weighted 3D gradient recall echo sequence: (i) stack-of stars (StarVIBE) and (ii) spiral (SpiralVIBE) trajectories. Methods: MR images on five healthy volunteers were acquired on a wide bore 3T scanner (MAGNETOM Skyra, Siemens Healthcare, Erlangen, Germany). Anatomical image quality was assessed on: (1) free breathing (StarVIBE), (2) the standard clinical sequence (volumetric interpolated breath-hold examination, VIBE) acquired in a 20 second (s) compliant breath-hold and (3) 20 s non-compliant breath-hold. For functional assessment, StarVIBE and the current standard breath-hold time-resolved angiography with stochastic trajectories (TWIST) sequence were run as multiphase acquisitions to replicate dynamic contrast enhancement (DCE) in one healthy volunteer. The potential application of the SpiralVIBE sequence for lung parenchymal imaging was assessed on one healthy volunteer. Ten patients with lung cancer were subsequently imaged with the StarVIBE and SpiralVIBE sequences for anatomical and structural assessment. For functional assessment, free-breathing StarVIBE DCE protocol was compared with breath-hold TWIST sequences on four prior lung cancer patients with similar tumour locations. Image quality was evaluated independently and blinded to sequence information by an experienced thoracic radiologist. Results: For anatomical assessment, the compliant breath-hold VIBE sequence was better than free-breathing StarVIBE. However, in the presence of a non-compliant breath-hold, StarVIBE was superior. For functional assessment, StarVIBE outperformed the standard sequence and was shown to provide robust DCE data in the presence of motion. The ultrashort echo of the SpiralVIBE sequence enabled visualisation of lung parenchyma. Conclusion: The two non-Cartesian acquisition sequences, StarVIBE and SpiralVIBE, provide a free-breathing imaging protocol of the lung with sufficient image quality to permit anatomical, structural and functional assessment during radiotherapy. Advances in knowledge: Novel application of non-Cartesian MRI sequences for lung cancer imaging for radiotherapy. Illustration of SpiralVIBE UTE sequence as a promising sequence for lung structural imaging during lung radiotherapy

Comparison of four dimensional computed tomography and magnetic resonance imaging in abdominal radiotherapy planning

Background and Purpose: Four-dimensional (4D) computed tomography (CT) is widely used in radiotherapy (RT) planning and remains the current standard for motion evaluation. We assess a 4D magnetic resonance imaging (MRI) sequence in terms of motion and image quality in a phantom, healthy volunteers and patients undergoing RT. Materials and Methods: The 4D-MRI sequence is a prototype T1-weighted 3D gradient echo with radial acquisition with self-gating. The accuracy of the 4D-MRI respiratory sorting based method was assessed using a MRICT compatible respiratory simulation phantom. In volunteers, abdominal viscera were evaluated for artefact, noise, structure delineation and overall image quality using a previously published four-point scoring system. In patients undergoing abdominal RT, the tumour (or a surrogate) was utilized to assess the range of motion on both 4D-CT and 4D-MRI. Furthermore, imaging quality was evaluated for both 4D-CT and 4D-MRI. Results: In phantom studies 4D-MRI demonstrated amplitude of motion error of less than 0.2mm for five, seven and ten bins. 4D-MRI provided excellent image quality for liver, kidney and pancreas. In patients, the median amplitude of motion seen on 4D-CT and 4D-MRI was 11.2mm (range 2.8-20.3 mm) and 10.1mm (range 0.7-20.7 mm) respectively. The median difference in amplitude between 4D-CT and 4D-MRI was −0.6mm (range −3.4-5.2 mm). 4D-MRI demonstrated superior edge detection (median score 3 versus 1) and overall image quality (median score 2 versus 1) compared to 4D-CT. Conclusions: The prototype 4D-MRI sequence demonstrated promising results and may be used in abdominal targeting, motion gating, and towards implementing MRI-based adaptive RT

Commissioning and quality control of a dedicated wide bore 3T MRI simulator for radiotherapy planning

Purpose: The purpose of this paper is to describe a practical approach to commissioning and quality assurance (QA) of a dedicated wide-bore 3 Tesla (3T) magnetic resonance imaging (MRI) scanner for radiotherapy planning.Methods: A comprehensive commissioning protocol focusing on radiotherapy (RT) specific requirements was developed and performed. RT specific tests included: uniformity characteristics of radio-frequency (RF) coil, couch top attenuation, geometric distortion, laser and couch movement and an end-to-end radiotherapy treatment planning test. General tests for overall system performance and safety measurements were also performed.Results: The use of pre-scan based intensity correction increased the uniformity from 61.7% to 97% (body flexible coil), from 50% to 90% (large flexible coil) and from 51% to 98% (small flexible coil). RT flat top couch decreased signal-to-noise ratio (SNR) by an average of 42%. The mean and maximum geometric distortion was found to be 1.25 mm and 4.08 mm for three dimensional (3D) corrected image acquisition, 2.07 mm and 7.88 mm for two dimensional (2D) corrected image acquisition over 500 mm × 375 mm × 252 mm field of view (FOV). The accuracy of the laser and couch movement was less than ±1 mm. The standard deviation of registration parameters for the end-to-end test was less than 0.41 mm. An on-going QA program was developed to monitor the system’s performance.Conclusion: A number of RT specific tests have been described for commissioning and subsequent performance monitoring of a dedicated MRI simulator (MRI-Sim). These tests have been important in establishing and maintaining its operation for RT planning.</p

Commissioning and quality control of a dedicated wide bore 3T MRI simulator for radiotherapy planning

Purpose: The purpose of this paper is to describe a practical approach to commissioning and quality assurance (QA) of a dedicated wide-bore 3 Tesla (3T) magnetic resonance imaging (MRI) scanner for radiotherapy planning.Methods: A comprehensive commissioning protocol focusing on radiotherapy (RT) specific requirements was developed and performed. RT specific tests included: uniformity characteristics of radio-frequency (RF) coil, couch top attenuation, geometric distortion, laser and couch movement and an end-to-end radiotherapy treatment planning test. General tests for overall system performance and safety measurements were also performed.Results: The use of pre-scan based intensity correction increased the uniformity from 61.7% to 97% (body flexible coil), from 50% to 90% (large flexible coil) and from 51% to 98% (small flexible coil). RT flat top couch decreased signal-to-noise ratio (SNR) by an average of 42%. The mean and maximum geometric distortion was found to be 1.25 mm and 4.08 mm for three dimensional (3D) corrected image acquisition, 2.07 mm and 7.88 mm for two dimensional (2D) corrected image acquisition over 500 mm × 375 mm × 252 mm field of view (FOV). The accuracy of the laser and couch movement was less than ±1 mm. The standard deviation of registration parameters for the end-to-end test was less than 0.41 mm. An on-going QA program was developed to monitor the system’s performance.Conclusion: A number of RT specific tests have been described for commissioning and subsequent performance monitoring of a dedicated MRI simulator (MRI-Sim). These tests have been important in establishing and maintaining its operation for RT planning

Imaging performance of a dedicated radiation transparent RF coil on a 1.0 Tesla inline MRI-linac

This work describes the first imaging studies on a 1.0 Tesla inline MRI-Linac using a dedicated transmit/receive RF body coil that has been designed to be completely radio transparent and provide optimum imaging performance over a large patient opening.&#13; Methods: A series of experiments was performed on the MRI-Linac to investigate the performance and imaging characteristics of a new dedicated volumetric RF coil: (1) numerical electromagnetic simulations were used to measure transmit efficiency in two patient positions; (2) image quality metrics of signal-to-noise ratio (SNR), ghosting and uniformity were assessed in a large diameter phantom with no radiation beam; (3) radiation induced effects were investigated in both the raw data (k-space) and image sequences acquired with simultaneous irradiation; (4) radiation dose was measured with and without image acquisition; (5) RF heating was studied using an MR-compatible fluoroptic thermometer and; (6) the in vivo image quality and versatility of the coil was demonstrated in normal healthy subjects for both supine and standing positions.&#13; Results: Daily phantom measurements demonstrated excellent imaging performance with stable SNR over a period of 3 months (42.6 ± 0.9). Simultaneous irradiation produced no statistical change in image quality (p&gt;0.74) and no interference in raw data for a 20 20 cm radiation field. The coil was found to be efficient over large volumes and negligible RF heating was observed. Volunteer scans acquired in both supine and standing positions provided artefact free images with good anatomical visualisation.&#13; Conclusions: The first completely radio transparent RF coil for use on a 1.0 Tesla MRI-Linac has been described. There is no impact on either the imaging or dosimetry performance with a simultaneous radiation beam. The open design enables imaging and radiotherapy guidance in a variety of positons.&#13

The current and future role of the MRI radiographer in radiation oncology: A collaborative, experiential reflection on the Australian rollout of dedicated MRI simulators

Abstract Magnetic Resonance Imaging (MRI) has proven value in radiotherapy treatment planning (RTP). MRI provides excellent soft tissue contrast, and improves lesion detection, definition and extent, allowing for increased conformal treatment. Recent installation of dedicated MRI simulators and MRI‐guided linear accelerators (MR Linacs) within radiation oncology departments has led to a sudden and rapid expansion in the scope of practice for many radiation therapists and MRI radiographers. The lack of current recommendations, guidelines and credentialing for both MRI radiographers and radiation therapists working within these atypical MRI environments poses a significant challenge for the education and training of staff, and the safe operation of these units. This commentary discusses current pathways for radiographers and radiation therapists entering the emerging field of MRI‐guided radiation oncology, and the future role of the MRI radiographer in addressing the unique issues found in non‐standard MRI environments. The authors draw on their collective experience as MRI radiographers assisting the rollout of dedicated MRI simulators in radiation oncology departments across Australia and reflect on the need for close collaboration between radiographers, radiation therapists and their respective departments. There is also a critical role for professional bodies to play in supporting existing and future roles in MRI and recognising advanced practitioner scope of practice

Magnetic resonance imaging in lung: a review of its potential for radiotherapy

MRI has superior soft-tissue definition compared with existing imaging modalities in radiation oncology; this has the added benefit of functional as well as anatomical imaging. This review aimed to evaluate the current use of MRI for lung cancer and identify the potential of a MRI protocol for lung radiotherapy (RT). 30 relevant studies were identified. Improvements in MRI technology have overcome some of the initial limitations of utilizing MRI for lung imaging. A number of commercially available and novel sequences have shown image quality to be adequate for the detection of pulmonary nodules with the potential for tumour delineation. Quantifying tumour motion is also feasible and may be more representative than that seen on four-dimensional CT. Functional MRI sequences have shown correlation with flu-deoxy-glucose positron emission tomography (FDG-PET) in identifying malignant involvement and treatment response. MRI can also be used as a measure of pulmonary function. While there are some limitations for the adoption of MRI in RT-planning process for lung cancer, MRI has shown the potential to compete with both CT and PET for tumour delineation and motion definition, with the added benefit of functional information. MRI is well placed to become a significant imaging modality in RT for lung cancer

Repeatability of MRI for radiotherapy planning for pelvic, brain, and head and neck malignancies

Objectives: The objective of this study was to assess the repeatability of MRI for the purpose of radiotherapy treatment planning by considering the difference in registering MRI to MRI compared to registering CT and MRI. Methods: Fifty patients undergoing radiotherapy planning for gynaecological, prostate, rectal, head and neck and CNS malignancies had a planning CT followed by two T2-weighted MRIs. Anatomical landmarks were contoured on each dataset and the images were rigidly registered. Centre of Mass (COM), Dice Similarity Coefficient (DSC), and Mean Distance to Agreement (MDA) were calculated to assess structure volume and position comparing CT-MRI and MRI-MRI. Results: DSC and MDA demonstrated more consistency in delineated volumes for MRI-MRI than for the CT-MRI comparison. The median DSC values were ≥0.8 for 15 of 46 contoured structures for the CT-MRI comparison and 21 of 23 structures for the MRI-MRI comparison. MDA values were ≤1 mm for 11 of 46 structures for the CT-MRI comparison and 18 of 23 structures for the MRI-MRI comparisons. COM were also more consistent between MRI-MRI than between CT-MRI. Conclusion: There was less variability of anatomical structures between repeated MRIs than registered CT and MRI datasets, demonstrating consistency of MRI for volume delineation in radiotherapy planning

MRI micturating urethrography for improved urethral delineation in prostate radiotherapy planning: A case study

Stereotactic ablative body radiotherapy is used in prostate cancer to deliver a high dose of radiation to the tumour over a small number of treatments. This involves the simulation of the patient using both CT and MRI. Current practice is to insert an indwelling catheter (IDC) during CT to assist with visualisation of the urethra and subsequently minimise dose to this highly critical structure. However, this procedure is invasive and has an associated risk of infection. This is a case study, which demonstrates our initial experience of using a real-time non-invasive MRI technique to replace the use of IDC for prostate cancer patients. The patient was scanned on a dedicated 3T MRI and was instructed to micturate in their own time whereupon a sagittal T2 weighted HASTE sequence was acquired every 5 s. This was subsequently followed by T2 weighted axial imaging at the level of mid prostate to provide improved urethral definition. Acquired images showed bladder voidance in real-time and an increase in signal intensity in the proximal urethra post voiding allowing for delineation of the urethra. The dimension and shape of the proximal urethra was well visualised and accumulation time of urine in the urethra was sufficient to enable optimum timing of the scanning technique. We have presented for the first time a micturating urethography technique using MRI, which has allowed us to visualise the urethra without contrast and with minimal invasiveness to the patient