Dosimetric evaluation of synthetic CT generated with GANs for MRI-only proton therapy treatment planning of brain tumors.

PURPOSE: The purpose of this study was to address the dosimetric accuracy of synthetic computed tomography (sCT) images of patients with brain tumor generated using a modified generative adversarial network (GAN) method, for their use in magnetic resonance imaging (MRI)-only treatment planning for proton therapy. METHODS: Dose volume histogram (DVH) analysis was performed on CT and sCT images of patients with brain tumor for plans generated for intensity-modulated proton therapy (IMPT). All plans were robustly optimized using a commercially available treatment planning system (RayStation, from RaySearch Laboratories) and standard robust parameters reported in the literature. The IMPT plan was then used to compute the dose on CT and sCT images for dosimetric comparison, using RayStation analytical (pencil beam) dose algorithm. We used a second, independent Monte Carlo dose calculation engine to recompute the dose on both CT and sCT images to ensure a proper analysis of the dosimetric accuracy of the sCT images. RESULTS: The results extracted from RayStation showed excellent agreement for most DVH metrics computed on the CT and sCT for the nominal case, with a mean absolute difference below 0.5% (0.3 Gy) of the prescription dose for the clinical target volume (CTV) and below 2% (1.2 Gy) for the organs at risk (OARs) considered. This demonstrates a high dosimetric accuracy for the generated sCT images, especially in the target volume. The metrics obtained from the Monte Carlo doses mostly agreed with the values extracted from RayStation for the nominal and worst-case scenarios (mean difference below 3%). CONCLUSIONS: This work demonstrated the feasibility of using sCT generated with a GAN-based deep learning method for MRI-only treatment planning of patients with brain tumor in intensity-modulated proton therapy.

Definitive radiation for advanced cervix cancer is not associated with vaginal shortening-a prospective vaginal length and dose correlation.

PURPOSE: Prospectively measure change in vaginal length after definitive chemoradiation (C-EBRT) with Intracavitary Brachytherapy (ICBT) for locally advanced cervix cancer (LACC) and correlate with vaginal dose (VD). MATERIALS AND METHODS: Twenty one female patients with LACC receiving C-EBRT and ICBT underwent serial vaginal length (VL) measurements. An initial measurement was made at the time of the first ICBT procedure and subsequently at 3 month intervals up to 1 year post radiation. The vagina was contoured as a 3-dimensional structure for each brachytherapy plan. The difference in VL before and at least 6 months after the last fraction of brachytherapy was considered as an indicator of toxicity. RESULTS: The mean initial VL was 8.7 cm (6.5-12) with median value of 8.5 cm. The mean VL after 6 months was 8.6 cm (6.5-12) and VL change was not found to be statistically significant. The median values (interquartile ranges) for vaginal D0.1cc, D1cc, and D2cc were 129.2 Gy (99.6-252.2), 96.9 Gy (84.2-114.9), and 89.6 Gy (82.4-102.2), respectively. No significant correlation was found between vaginal length change and the dosimetric parameters calculated for all patients. CONCLUSION: Definitive C-EBRT and ICBT did not significantly impact VL in this prospective cohort probably related to acceptable doses per ICRU constraints. Estimate of vaginal stenosis and sexual function was not performed in this cohort which is a limitation of this study and which we hope to study prospectively going forward.

Synthesizing CT images from MR images with deep learning: model generalization for different datasets through transfer learning.

Background and purpose.Replacing CT imaging with MR imaging for MR-only radiotherapy has sparked the interest of many scientists and is being increasingly adopted in radiation oncology. Although many studies have focused on generating CT images from MR images, only models on data with the same dataset were tested. Therefore, how well the trained model will work for data from different hospitals and MR protocols is still unknown. In this study, we addressed the model generalization problem for the MR-to-CT conversion task.Materials and methods.Brain T2 MR and corresponding CT images were collected from SZSPH (source domain dataset), brain T1-FLAIR, T1-POST MR, and corresponding CT images were collected from The University of Texas Southwestern (UTSW) (target domain dataset). To investigate the model's generalizability ability, four potential solutions were proposed: source model, target model, combined model, and adapted model. All models were trained using the CycleGAN network. The source model was trained with a source domain dataset from scratch and tested with a target domain dataset. The target model was trained with a target domain dataset and tested with a target domain dataset. The combined model was trained with both source domain and target domain datasets, and tested with the target domain dataset. The adapted model used a transfer learning strategy to train a CycleGAN model with a source domain dataset and retrain the pre-trained model with a target domain dataset. MAE, RMSE, PSNR, and SSIM were used to quantitatively evaluate model performance on a target domain dataset.Results.The adapted model achieved best quantitative results of 74.56 ± 8.61, 193.18 ± 17.98, 28.30 ± 0.83, and 0.84 ± 0.01 for MAE, RMSE, PSNR, and SSIM using the T1-FLAIR dataset and 74.89 ± 15.64, 195.73 ± 31.29, 27.72 ± 1.43, and 0.83 ± 0.04 for MAE, RMSE, PSNR, and SSIM using the T1-POST dataset. The source model had the poorest performance.Conclusions.This work indicates high generalization ability to generate synthetic CT images from small training datasets of MR images using pre-trained CycleGAN. The quantitative results of the test data, including different scanning protocols and different acquisition centers, indicated the proof of this concept.

Semiautomated Assessment of the Anterior Cingulate Cortex in Alzheimer's Disease.

BACKGROUND AND PURPOSE: The anterior cingulate cortex (ACC) is involved in several cognitive processes including executive function. Degenerative changes of ACC are consistently seen in Alzheimer's disease (AD). However, volumetric changes specific to the ACC in AD are not clear because of the difficulty in segmenting this region. The objectives of the current study were to develop a precise and high-throughput approach for measuring ACC volumes and to correlate the relationship between ACC volume and cognitive function in AD. METHODS: Structural T1 -weighted magnetic resonance images of AD patients (n = 47) and age-matched controls (n = 47) at baseline and at 24 months were obtained from the Alzheimer's disease neuroimaging initiative (ADNI) database and studied using a custom-designed semiautomated segmentation protocol. RESULTS: ACC volumes obtained using the semiautomated protocol were highly correlated to values obtained from manual segmentation (r = .98) and the semiautomated protocol was considerably faster. When comparing AD and control subjects, no significant differences were observed in baseline ACC volumes or in change in ACC volumes over 24 months using the two segmentation methods. However, a change in ACC volume over 24 months did not correlate with a change in mini-mental state examination scores. CONCLUSIONS: Our results indicate that the proposed semiautomated segmentation protocol is reliable for determining ACC volume in neurodegenerative conditions including AD.

MRI-only brain radiotherapy: Assessing the dosimetric accuracy of synthetic CT images generated using a deep learning approach.

PURPOSE: This study assessed the dosimetric accuracy of synthetic CT images generated from magnetic resonance imaging (MRI) data for focal brain radiation therapy, using a deep learning approach. MATERIAL AND METHODS: We conducted a study in 77 patients with brain tumors who had undergone both MRI and computed tomography (CT) imaging as part of their simulation for external beam treatment planning. We designed a generative adversarial network (GAN) to generate synthetic CT images from MRI images. We used Mutual Information (MI) as the loss function in the generator to overcome the misalignment between MRI and CT images (unregistered data). The model was trained using all MRI slices with corresponding CT slices from each training subject's MRI/CT pair. RESULTS: The proposed GAN method produced an average mean absolute error (MAE) of 47.2 ±â€¯11.0 HU over 5-fold cross validation. The overall mean Dice similarity coefficient between CT and synthetic CT images was 80% ±â€¯6% in bone for all test data. Though training a GAN model may take several hours, the model only needs to be trained once. Generating a complete synthetic CT volume for each new patient MRI volume using a trained GAN model took only one second. CONCLUSIONS: The GAN model we developed produced highly accurate synthetic CT images from conventional, single-sequence MRI images in seconds. Our proposed method has strong potential to perform well in a clinical workflow for MRI-only brain treatment planning.

Fully automated organ segmentation in male pelvic CT images.

Accurate segmentation of prostate and surrounding organs at risk is important for prostate cancer radiotherapy treatment planning. We present a fully automated workflow for male pelvic CT image segmentation using deep learning. The architecture consists of a 2D organ volume localization network followed by a 3D segmentation network for volumetric segmentation of prostate, bladder, rectum, and femoral heads. We used a multi-channel 2D U-Net followed by a 3D U-Net with encoding arm modified with aggregated residual networks, known as ResNeXt. The models were trained and tested on a pelvic CT image dataset comprising 136 patients. Test results show that 3D U-Net based segmentation achieves mean (±SD) Dice coefficient values of 90 (±2.0)%, 96 (±3.0)%, 95 (±1.3)%, 95 (±1.5)%, and 84 (±3.7)% for prostate, left femoral head, right femoral head, bladder, and rectum, respectively, using the proposed fully automated segmentation method.

Accurate real time localization tracking in a clinical environment using Bluetooth Low Energy and deep learning.

Deep learning has started to revolutionize several different industries, and the applications of these methods in medicine are now becoming more commonplace. This study focuses on investigating the feasibility of tracking patients and clinical staff wearing Bluetooth Low Energy (BLE) tags in a radiation oncology clinic using artificial neural networks (ANNs) and convolutional neural networks (CNNs). The performance of these networks was compared to relative received signal strength indicator (RSSI) thresholding and triangulation. By utilizing temporal information, a combined CNN+ANN network was capable of correctly identifying the location of the BLE tag with an accuracy of 99.9%. It outperformed a CNN model (accuracy = 94%), a thresholding model employing majority voting (accuracy = 95%), and a triangulation classifier utilizing majority voting (accuracy = 95%). Future studies will seek to deploy this affordable real time location system in hospitals to improve clinical workflow, efficiency, and patient safety.

Spontaneous low frequency BOLD signal variations from resting-state fMRI are decreased in Alzheimer disease.

Previous studies have demonstrated altered brain activity in Alzheimer's disease using task based functional MRI (fMRI), network based resting-state fMRI, and glucose metabolism from 18F fluorodeoxyglucose-PET (FDG-PET). Our goal was to define a novel indicator of neuronal activity based on a first-order textural feature of the resting state functional MRI (RS-fMRI) signal. Furthermore, we examined the association between this neuronal activity metric and glucose metabolism from 18F FDG-PET. We studied 15 normal elderly controls (NEC) and 15 probable Alzheimer disease (AD) subjects from the AD Neuroimaging Initiative. An independent component analysis was applied to the RS-fMRI, followed by template matching to identify neuronal components (NC). A regional brain activity measurement was constructed based on the variation of the RS-fMRI signal of these NC. The standardized glucose uptake values of several brain regions relative to the cerebellum (SUVR) were measured from partial volume corrected FDG-PET images. Comparing the AD and NEC groups, the mean brain activity metric was significantly lower in the accumbens, while the glucose SUVR was significantly lower in the amygdala and hippocampus. The RS-fMRI brain activity metric was positively correlated with cognitive measures and amyloid ß1-42 cerebral spinal fluid levels; however, these did not remain significant following Bonferroni correction. There was a significant linear correlation between the brain activity metric and the glucose SUVR measurements. This proof of concept study demonstrates that this novel and easy to implement RS-fMRI brain activity metric can differentiate a group of healthy elderly controls from a group of people with AD.

Automated algorithm to measure changes in medial temporal lobe volume in Alzheimer disease.

BACKGROUND: The change in volume of anatomic structures is as a sensitive indicator of Alzheimer disease (AD) progression. Although several methods are available to measure brain volumes, improvements in speed and automation are required. Our objective was to develop a fully automated, fast, and reliable approach to measure change in medial temporal lobe (MTL) volume, including primarily hippocampus. METHODS: The MTL volume defined in an atlas image was propagated onto each baseline image and a level set algorithm was applied to refine the shape and smooth the boundary. The MTL of the baseline image was then mapped onto the corresponding follow-up image to measure volume change (ΔMTL). Baseline and 24 months 3D T1-weighted images from the Alzheimer Disease Neuroimaging Initiative (ADNI) were randomly selected for 50 normal elderly controls (NECs), 50 subjects with mild cognitive impairment (MCI) and 50 subjects with AD to test the algorithm. The method was compared to the FreeSurfer segmentation tools. RESULTS: The average ΔMTL (mean±SEM) was 68±35mm(3) in NEC, 187±38mm(3) in MCI and 300±34mm(3) in the AD group and was significantly different (p<0.0001) between all three groups. The ΔMTL was correlated with cognitive decline. COMPARISON WITH EXISTING METHOD(S): Results for the FreeSurfer software were similar but did not detect significant differences between the MCI and AD groups. CONCLUSION: This novel segmentation approach is fully automated and provides a robust marker of brain atrophy that shows different rates of atrophy over 2 years between NEC, MCI, and AD groups.