Current Clinical Brain Tumor Imaging

Comparative analysis of brain volumetric measurements between contrast-enhanced and non-contrast MRI images

BACKGROUND

Clinical brain MRI scans, including contrast-enhanced (CE-MR) images, represent an underutilized resource for neuroscience research due to technical heterogeneity.

PURPOSE

To evaluate the reliability of morphometric measurements from CE-MR scans compared to non-contrast MR (NC-MR) scans in normal individuals.

METHODS

T1-weighted CE-MR and NC-MR scans from 59 normal participants (aged 21-73 years) were compared using CAT12 and SynthSeg+ segmentation tools. Volumetric measurements and age prediction efficacy were analyzed.

RESULTS

SynthSeg+ demonstrated high reliability (ICCs > 0.90) for most brain structures between CE-MR and NC-MR scans, with discrepancies in CSF and ventricular volumes. CAT12 showed inconsistent performance. Age prediction models using SynthSeg + yielded comparable results for both scan types.

CONCLUSION

Deep learning-based approaches like SynthSeg+ can reliably process CE-MR scans for morphometric analysis, potentially broadening the application of clinically acquired CE-MR images in neuroimaging research.

Multimodal Image Confidence: A Novel Method for Tumor and Organ Boundary Representation

The indistinct boundaries of tumors and organs at risk in medical images present significant challenges in treatment planning and other tasks in radiation therapy. This study introduces an innovative analytical algorithm called multimodal image confidence (MMC), which leverages the complementary strengths of various multimodal medical images to assign a confidence measure to each voxel within the region of interest (ROI). MMC enables the generation of modality-specific ROI-enhanced images, providing a detailed depiction of both the boundaries and internal features of the ROI. By employing an interpretable mathematical model that propagates voxel confidence based on intervoxel correlations, MMC circumvents the need for model training, distinguishing it from deep learning-based methods. The alogorithm was evaluated qualitatively and quantitatively on 156 nasopharyngeal carcinoma cases and 1251 glioma cases. Qualitative assessments demonstrated MMC's accuracy in delineating lesion boundaries as well as capturing internal tumor characteristics. Quantitative analyses further revealed strong concordance between MMC and manual delineations. This study presents a cutting-edge algorithm for identifying and illustating ROI boundaries using multimodal 3D medical images. The versatility of the proposed method extends to both targets and organs at risk across various anatomic sites and multiple image modalities, enhancing its potential for accurate delineation of critical structures andmany image-related tasks in radiaton therapy and other fields.

Cerebral blood flow and histological analysis for the accurate differentiation of infiltrating tumor and vasogenic edema in glioblastoma

BACKGROUND

Glioblastoma is characterized by neovascularization and diffuse infiltration into the adjacent tissue. T2*-based dynamic susceptibility contrast (DSC) MR perfusion images provide useful measurements of the biomarkers associated with tumor perfusion. This study aimed to distinguish infiltrating tumors from vasogenic edema in glioblastomas using DSC-MR perfusion images.

METHODS

Data were retrospectively collected from 48 patients with primary IDH-wild-type glioblastoma and 24 patients with meningiomas (Edemas-M). First, we attempted histological verification of cell density, Ki-67 index, and microvessel areas to distinguish between non-contrast-enhancing tumors (NETs) and edema (Edemas) which were obtained from stereotactically fused T2-weighted and perfusion images. This was performed for evaluating enhancing tumors (ETs), NETs, and Edemas. Second, we also performed radiological verification to distinguish NETs from Edemas. Two neurosurgeons manually assigned the regions of interests (ROIs) to ETs, NETs, and Edemas. The DSC-MR perfusion imaging-derived parameters calculated for each ROI included the cerebral blood volume (CBV), cerebral blood flow (CBF), and mean transit time (MTT).

RESULTS

Cell density and microvessel area were significantly higher in NETs than those in Edemas (p<0.01 and p<0.05, respectively). Regarding radiological analysis, the mean CBF ratio for Edemas was significantly lower than that for NETs (p<0.01). The mean MTT ratio for Edemas was significantly higher than that for NETs. The receiver operating characteristic (ROC) analysis showed that CBF (area under the curve [AUC] = 0.890) could effectively distinguish between NETs and Edemas. The ROC analysis also showed that MTT (AUC = 0.946) could effectively distinguish between NETs and Edemas.

CONCLUSIONS

DSC-MR perfusion images may prove useful in differentiating NETs from Edemas in non-contrast T2 hyperintensity regions of glioblastoma.

Imply on diagnosis and early prognosis of preoperative [68Ga]Ga-PSMA-11 PET/CT in patients with suspected brain tumours of glial origin

PET/CT targeting prostate-specific membrane antigen (PSMA) is commonly used in patients with prostate cancer. PSMA has been found in other solid tumours, including primary brain tumours. The aim of this study was to evaluate the usefulness of [68Ga]Ga-PSMA-11 PET/CT for preoperative diagnosis and 2-year prognosis. We prospectively screened patients with suspected glioma tumour. The PET/CT qualitative and quantitative results were compared to the histopathological examination. We compared glioblastoma (GBM) diagnostic data or between high-grade (HGG) and low-grade (LGG) gliomas. Overall (OS) and progression free survival (PFS) were analysed. Forty-four patients met the inclusion criteria. Twenty of them had positive and twenty-four negative scans. The sensitivity, specificity, positive predictive value, and negative predictive value for HGG diagnosis were 71.4 (95% confidence interval - 51.3-86.8), 100.0 (79.4-100.0), 100.0 (83.1-100.0), and 66.7 (44.7-84.4), respectively. For differentiation between GBM vs non-GBM tumours, the best parameter was the tumour-to-background ratio, with the area under the receiver operating characteristic curve 0.81 (0.66-0.96; 42.2) (95% CI; cut-off). Patients with positive PET/CT scans had similar PFS and OS to patients with HGG. PSMA accumulation negatively affected the PFS and OS of patients with diagnosed GBM. [68Ga]Ga-PSMA-11 PET/CT showed optimistic diagnostic results and may be prognostic a factor.Registration at www.clinicaltrials.gov 09/06/2023 with number NCT05896449.

Assessing Glioblastoma Treatment Response Using Machine Learning Approach Based on Magnetic Resonance Images Radiomics: An Exploratory Study

Background and Objectives

Assessing treatment response in glioblastoma multiforme (GBM) tumors necessitates developing more objective and quantitative approaches. A machine learning-based approach is presented in this exploratory study for GBM patients' treatment response assessment based on radiomics extracted from magnetic resonance (MR) images.

Methods

MR images from 77 GBM patients were acquired at two post-surgery stages and preprocessed. From these images, 107 radiomics were extracted from the segmented tumoral cavities. The most informative features for training machine learning (ML) classifiers were identified using the Spearman correlation analysis of features retained by the forward sequential and LASSO algorithms. Applied machine learning models included support vector machine (SVM), random forest (RF), K-nearest neighbors (KNN), AdaBoost, categorical boosting (CatBoost), light gradient boosting machine (LightGBM), extreme gradient boosting (XGBoost), Naïve Bayes (NB) and logistic regression (LR). Ten-fold cross-validation was used to validate the models. Statistical analysis was conducted using SPSS version 27; p-value < 0.05 was considered significant.

Results

The Naïve Bayes classifier demonstrated the highest performance among the trained models, achieving an AUC (area under the receiver operating characteristic curve) of 0.86 ± 0.13 when trained on the seven features selected by the forward sequential algorithm and an AUC of 0.84 ± 0.14 when trained using the five features chosen by the LASSO algorithm. The second-best performance was observed with the KNN classifier, which achieved an AUC of 0.80 ± 0.17 when trained on the features selected by the forward sequential algorithm.

Conclusion

Findings demonstrated that MRI-based radiomics could be used as distinctive features to train ML models for GBM patients' treatment response assessment. Trained ML classifiers based on these features serve as aiding tools to expedite the quantitative assessment of GBM patients' treatment response besides qualitative evaluations.

Detecting Tumor-Associated Intracranial Hemorrhage Using Proton Magnetic Resonance Spectroscopy

Intracranial hemorrhage associated with primary or metastatic brain tumors is a critical condition that requires urgent intervention, often through open surgery. Nevertheless, surgical interventions may not always be feasible due to two main reasons: (1) extensive hemorrhage can obscure the underlying tumor mass, limiting radiological assessment; and (2) intracranial hemorrhage may occasionally present as the first symptom of a brain tumor without prior knowledge of its existence. The current review of case studies suggests that advanced radiological imaging techniques can improve diagnostic power for tumoral hemorrhage. Adding proton magnetic resonance spectroscopy (1H-MRS), which profiles biochemical composition of mass lesions could be valuable: it provides unique information about tumor states distinct from hemorrhagic lesions bypassing the structural obliteration caused by the hemorrhage. Recent advances in 1H-MRS techniques may enhance the modality's reliability in clinical practice. This perspective proposes that 1H-MRS can be utilized in clinical settings to enhance diagnostic power in identifying tumors underlying intracranial hemorrhage.

A neural network to create super-resolution MR from multiple 2D brain scans of pediatric patients

BACKGROUND

High-resolution (HR) 3D MR images provide detailed soft-tissue information that is useful in assessing long-term side-effects after treatment in childhood cancer survivors, such as morphological changes in brain structures. However, these images require long acquisition times, so routinely acquired follow-up images after treatment often consist of 2D low-resolution (LR) images (with thick slices in multiple planes).

PURPOSE

In this work, we present a super-resolution convolutional neural network, based on previous single-image MRI super-resolution work, that can reconstruct a HR image from 2D LR slices in multiple planes in order to facilitate the extraction of structural biomarkers from routine scans.

METHODS

A multilevel densely connected super-resolution convolutional neural network (mDCSRN) was adapted to take two perpendicular LR scans (e.g., coronal and axial) as tensors and reconstruct a 3D HR image. A training set of 90 HR T1 pediatric head scans from the Adolescent Brain Cognitive Development (ABCD) study was used, with 2D LR images simulated through a downsampling pipeline that introduces motion artifacts, blurring, and registration errors to make the LR scans more realistic to routinely acquired ones. The outputs of the model were compared against simple interpolation in two steps. First, the quality of the reconstructed HR images was assessed using the peak signal-to-noise ratio and structural similarity index compared to baseline. Second, the precision of structure segmentation (using the autocontouring software Limbus AI) in the reconstructed versus the baseline HR images was assessed using mean distance-to-agreement (mDTA) and 95% Hausdorff distance. Three datasets were used: 10 new ABCD images (dataset 1), 18 images from the Children's Brain Tumor Network (CBTN) study (dataset 2) and 6 "real-world" follow-up images of a pediatric head and neck cancer patient (dataset 3).

RESULTS

The proposed mDCSRN outperformed simple interpolation in terms of visual quality. Similarly, structure segmentations were closer to baseline images after 3D reconstruction. The mDTA improved to, on average (95% confidence interval), 0.7 (0.4-1.0) and 0.8 (0.7-0.9) mm for datasets 1 and 3 respectively, from the interpolation performance of 6.5 (3.6-9.5) and 1.2 (1.0-1.3) mm.

CONCLUSIONS

We demonstrate that deep learning methods can successfully reconstruct 3D HR images from 2D LR ones, potentially unlocking datasets for retrospective study and advancing research in the long-term effects of pediatric cancer. Our model outperforms standard interpolation, both in perceptual quality and for autocontouring. Further work is needed to validate it for additional structural analysis tasks.

Effective deep-learning brain MRI super resolution using simulated training data

BACKGROUND

In the field of medical imaging, high-resolution (HR) magnetic resonance imaging (MRI) is essential for accurate disease diagnosis and analysis. However, HR imaging is prone to artifacts and is not universally available. Consequently, low-resolution (LR) MRI images are typically acquired. Deep learning (DL)-based super-resolution (SR) techniques can transform LR images into HR quality. However, these techniques require paired HR-LR data for training the SR networks.

OBJECTIVE

This research aims to investigate the potential of simulated brain MRI data to train DL-based SR networks.

METHODS

We simulated a large set of anatomically diverse, voxel-aligned, and artifact-free brain MRI data at different resolutions. We utilized this simulated data to train four distinct DL-based SR networks and augment their training. The trained networks were then evaluated using real data from various sources.

RESULTS

With our trained networks, we produced 0.7mm SR images from standard 1mm resolution multi-source T1w brain MRI. Our experimental results demonstrate that the trained networks significantly enhance the sharpness of LR input MR images. For single-source images, the performance of networks trained solely on simulated data is slightly inferior to those trained solely on real data, with an average structural similarity index (SSIM) difference of 0.025. However, networks augmented with simulated data outperform those trained on single-source real data when evaluated across datasets from multiple sources.

CONCLUSION

Paired HR-LR simulated brain MRI data is suitable for training and augmenting diverse brain MRI SR networks. Augmenting the training data with simulated data can enhance the generalizability of the SR networks across real datasets from multiple sources.

The Impact of Brain Tumors on Emotional and Behavioral Functioning

While the physical manifestations of brain tumors are well-documented, their impact on the emotional and psychological landscape of patients is of equal importance. Patients frequently experience a range of challenges from depression, apathy, and increased aggression to personality changes. The complexity of these changes and their effects on emotional functioning are shaped by tumor characteristics, including location, growth rate, and the corresponding hormonal imbalances. These challenges may ripple outward, affecting not only the patients themselves but also their caregivers. This review aims to examine the diverse emotional experiences associated with various brain tumor types and locations, through understanding the neurobiological mechanisms underlying these changes. The impact of psychosocial factors on emotional distress and coping strategies is also explored, focusing on the critical role of social support and resilience. The need for integrated care that addresses both the physical and psychological aspects of brain tumors is essential for improving the quality of life (QoL) for patients and their families. The close relationship between emotional and cognitive difficulties is analyzed, stressing how these challenges can mutually reinforce each other, creating a convoluted and challenging situation for brain tumor patients. By understanding and addressing these issues, healthcare providers can better support patients and improve their overall QoL. This review seeks to consolidate the current understanding of this complicated relationship, drawing from an array of studies, reviews, and meta-analyses.

Evaluating Brain Tumor Detection with Deep Learning Convolutional Neural Networks Across Multiple MRI Modalities

Central Nervous System (CNS) tumors represent a significant public health concern due to their high morbidity and mortality rates. Magnetic Resonance Imaging (MRI) has emerged as a critical non-invasive modality for the detection, diagnosis, and management of brain tumors, offering high-resolution visualization of anatomical structures. Recent advancements in deep learning, particularly convolutional neural networks (CNNs), have shown potential in augmenting MRI-based diagnostic accuracy for brain tumor detection. In this study, we evaluate the diagnostic performance of six fundamental MRI sequences in detecting tumor-involved brain slices using four distinct CNN architectures enhanced with transfer learning techniques. Our dataset comprises 1646 MRI slices from the examinations of 62 patients, encompassing both tumor-bearing and normal findings. With our approach, we achieved a classification accuracy of 98.6%, underscoring the high potential of CNN-based models in this context. Additionally, we assessed the performance of each MRI sequence across the different CNN models, identifying optimal combinations of MRI modalities and neural networks to meet radiologists' screening requirements effectively. This study offers critical insights into the integration of deep learning with MRI for brain tumor detection, with implications for improving diagnostic workflows in clinical settings.

Evolution of Molecular Biomarkers and Precision Molecular Therapeutic Strategies in Glioblastoma

Glioblastoma is the most commonly occurring malignant brain tumor, with a high mortality rate despite current treatments. Its classification has evolved over the years to include not only histopathological features but also molecular findings. Given the heterogeneity of glioblastoma, molecular biomarkers for diagnosis have become essential for initiating treatment with current therapies, while new technologies for detecting specific variations using computational tools are being rapidly developed. Advances in molecular genetics have made possible the creation of tailored therapies based on specific molecular targets, with various degrees of success. This review provides an overview of the latest advances in the fields of histopathology and radiogenomics and the use of molecular markers for management of glioblastoma, as well as the development of new therapies targeting the most common molecular markers. Furthermore, we offer a summary of the results of recent preclinical and clinical trials to recognize the current trends of investigation and understand the possible future directions of molecular targeted therapies in glioblastoma.

Brain tumor classification utilizing pixel distribution and spatial dependencies higher-order statistical measurements through explainable ML models

Brain tumors are among the most fatal and devastating diseases, and they often result in a significant reduction in life expectancy. The devising of treatment plans that can extend the lives of affected individuals hinges on an accurate diagnosis of these tumors. Identifying and analyzing large volumes of magnetic resonance imaging (MRI) data manually proves to be both challenging and time-consuming. As a result, there exists a pressing need for a reliable machine-learning approach to accurately diagnose brain tumors, and numerous methods have already been proposed over the last decade. In this paper, a novel, comprehensive approach is proposed for identifying and classifying a given MR brain image as abnormal. Three common brain diseases, namely glioma, meningioma, and pituitary tumor, are chosen as abnormal brains, and the Figshare MRI brain image dataset was collected from the Kaggle and IEEE websites. The proposed method is initiated by employing 1st-order statistics, 2nd-order statistics, and higher-order transformed (DWT) feature extraction to extract features from images. Then missing data is addressed and handled using KNNImputer, followed by the application of the ExtratreesClassifier and PCA feature selection methods to identify the most relevant features and reduce the dimensions of these features. Subsequently, the reduced features are submitted to seven machine learning models, namely RF, GB, CB, SVM, LGBM, DT, and LR. The strategy of k-fold cross-validation is utilized to enhance the performance of those models. Finally, the models are evaluated using XAI approaches, which ensure transparent decision-making processes and provide insights into the model's predictions. Remarkably, our approach achieves the highest accuracy, precision, recall, F1 score, MCC, Kappa, AUC-ROC, and R2, as well as the lowest loss, among the seven models evaluated, proving its effectiveness and applicability in multiple analytic applications relying on publicly available datasets.

Staged intervention to enable the resection of a large left temporoinsular cystic glioblastoma with language preservation: illustrative case

BACKGROUND

Resection of glioblastoma (GBM) in eloquent regions depends on functional mapping to limit perioperative neurological morbidity. When neurological deficits preclude reliable mapping, neurosurgeons should explore potential mitigation strategies. The authors present the case of a patient with a large left cystic temporoinsular GBM and aphasia, for whom the authors used intraoperative language mapping and a staged approach to enable safe tumor resection.

OBSERVATIONS

A 49-year-old female presented with progressive mixed aphasia for 1 month and new-onset right facial droop. Magnetic resonance imaging (MRI) revealed a large, heterogeneously enhancing, left temporoinsular tumor with a significant cystic component. Her aphasia was profound, and resection without reliable language mapping was deemed unsafe. An initial stereotactic tumoral cyst aspiration was performed, which reduced local mass effect and improved her language function. Cyst decompression thereby enabled both task-based functional MRI and intraoperative awake speech mapping, resulting in a safe resection of her GBM.

LESSONS

Safe resection of eloquently localized GBM is compromised when neurological deficits prohibit intraoperative functional mapping. This case demonstrates a mitigation strategy specific to cystic lesions in which an initial-stage stereotactic cyst aspiration is aimed at generating sufficient interval neurological improvement, such that intraoperative functional mapping can be performed during a second-stage resection. https://thejns.org/doi/10.3171/CASE24362.

Digital "flipbooks" for enhanced visual assessment of simple and complex brain tumors

Typical longitudinal radiographic assessment of brain tumors relies on side-by-side qualitative visualization of serial magnetic resonance images (MRIs) aided by quantitative measurements of tumor size. However, when assessing slowly growing tumors and/or complex tumors, side-by-side visualization and quantification may be difficult or unreliable. Whole-brain, patient-specific "digital flipbooks" of longitudinal scans are a potential method to augment radiographic side-by-side reads in clinical settings by enhancing the visual perception of changes in tumor size, mass effect, and infiltration across multiple slices over time. In this approach, co-registered, consecutive MRI scans are displayed in a slide deck, where one slide displays multiple brain slices of a single timepoint in an array (eg, 3 × 5 "mosaic" view of slices). The flipbooks are viewed similarly to an animated flipbook of cartoons/photos so that subtle radiographic changes are visualized via perceived motion when scrolling through the slides. Importantly, flipbooks can be created easily with free, open-source software. This article describes the step-by-step methodology for creating flipbooks and discusses clinical scenarios for which flipbooks are particularly useful. Example flipbooks are provided in Supplementary Material.

Diffusion Tensor Imaging (DTI) Biomarker Alterations in Brain Metastases and Comparable Tumors: A Systematic Review of DTI and Tractography Findings

BACKGROUND

Brain metastases (BMs) are the most frequent tumors of the central nervous system. Diffusion tensor imaging (DTI) is a magnetic resonance imaging technique that provides insights into brain microstructural alterations and tensor metrics and generates tractography to visualize white matter fiber tracts based on diffusion directionality. This systematic review assessed evidence from DTI biomarker alterations in BMs and comparable tumors such as glioblastoma.

METHODS

PubMed, Scopus, and Web of Science were searched, and published between January 2000 and August 2023. The key inclusion criteria were studies reporting DTI metrics in BMs and comparisons with other tumors. Data on study characteristics, tumor types, sample details, and main DTI findings were extracted.

RESULTS

Fifty-seven studies with 1592 BM patients and 1578 comparable brain tumors were included. Peritumoral fractional anisotropy (FA) consistently differentiates BMs from primary brain tumors, whereas intratumoral FA shows limited discriminatory power. Mean diffusivity increased in BMs versus comparators. Intratumoral metrics were less consistent but revealed differences in BM origin. Axial and radial diffusivity have provided insights into the effects of radiation, tumor origin, and infiltration. Axial diffusivity/radial diffusivity differentiated tumor infiltration from vasogenic edema. Tractography revealed anatomical relationships between white matter tracts and BMs. In addition, tractography-guided BM surgery and radiotherapy planning are required. Machine learning models incorporating DTI biomarkers/metrics accurately classified BMs versus comparators and improved diagnostic classification.

CONCLUSIONS

DTI metrics provide noninvasive biomarkers for distinguishing BMs from other tumors and predicting outcomes. Key metrics included peritumoral FA and mean diffusivity.

Deep learning automatic semantic segmentation of glioblastoma multiforme regions on multimodal magnetic resonance images

OBJECTIVES

In patients having naïve glioblastoma multiforme (GBM), this study aims to assess the efficacy of Deep Learning algorithms in automating the segmentation of brain magnetic resonance (MR) images to accurately determine 3D masks for 4 distinct regions: enhanced tumor, peritumoral edema, non-enhanced/necrotic tumor, and total tumor.

MATERIAL AND METHODS

A 3D U-Net neural network algorithm was developed for semantic segmentation of GBM. The training dataset was manually delineated by a group of expert neuroradiologists on MR images from the Brain Tumor Segmentation Challenge 2021 (BraTS2021) image repository, as ground truth labels for diverse glioma (GBM and low-grade glioma) subregions across four MR sequences (T1w, T1w-contrast enhanced, T2w, and FLAIR) in 1251 patients. The in-house test was performed on 50 GBM patients from our cohort (PerProGlio project). By exploring various hyperparameters, the network's performance was optimized, and the most optimal parameter configuration was identified. The assessment of the optimized network's performance utilized Dice scores, precision, and sensitivity metrics.

RESULTS

Our adaptation of the 3D U-net with additional residual blocks demonstrated reliable performance on both the BraTS2021 dataset and the in-house PerProGlio cohort, employing only T1w-ce sequences for enhancement and non-enhanced/necrotic tumor models and T1w-ce + T2w + FLAIR for peritumoral edema and total tumor. The mean Dice scores (training and test) were 0.89 and 0.75; 0.75 and 0.64; 0.79 and 0.71; and 0.60 and 0.55, for total tumor, edema, enhanced tumor, and non-enhanced/necrotic tumor, respectively.

CONCLUSIONS

The results underscore the high precision with which our network can effectively segment GBM tumors and their distinct subregions. The level of accuracy achieved agrees with the coefficients recorded in previous GBM studies. In particular, our approach allows model specialization for each of the different tumor subregions employing only those MR sequences that provide value for segmentation.

Handling Missing MRI Data in Brain Tumors Classification Tasks: Usage of Synthetic Images vs. Duplicate Images and Empty Images

BACKGROUND

Deep-learning is widely used for lesion classification. However, in the clinic patient data often has missing images.

PURPOSE

To evaluate the use of generated, duplicate and empty(black) images for replacing missing MRI data in AI brain tumor classification tasks.

STUDY TYPE

Retrospective.

POPULATION

224 patients (local-dataset; low-grade-glioma (LGG) = 37, high-grade-glioma (HGG) = 187) and 335 patients (public-dataset (BraTS); LGG = 76, HGG = 259). The local-dataset was divided into training (64), validation (16), and internal-test-data (20), while the public-dataset was an independent test-set.

FIELD STRENGTH/SEQUENCE

T1WI, T1WI+C, T2WI, and FLAIR images (1.5T/3.0T-MR), obtained from different suppliers.

ASSESSMENT

Three image-to-image translation generative-adversarial-network (Pix2Pix-GAN) models were trained on the local-dataset, to generate T1WI, T2WI, and FLAIR images. The rating-and-preference-judgment assessment was performed by three human-readers (radiologist (MD) and two MRI-technicians). Resnet152 was used for classification, and inference was performed on both datasets, with baseline input, and with missing data replaced by 1) generated images; 2) duplication of existing images; and 3) black images.

STATISTICAL TESTS

The similarity between the generated and the original images was evaluated using the peak-signal-to-noise-ratio (PSNR) and the structural-similarity-index-measure (SSIM). Classification results were evaluated using accuracy, F1-score and the Kolmogorov-Smirnov test and distance.

RESULTS

For baseline-state, the classification model reached to accuracy = 0.93,0.82 on the local and public-datasets. For the missing-data methods, high similarity was obtained between the generated and the original images with mean PSNR = 35.65,32.94 and SSIM = 0.87,0.91 on the local and public-datasets; 39% of the generated-images were labeled as real images by the human-readers. The classification model using generated-images to replace missing images produced the highest results with mean accuracy = 0.91,0.82 compared to 0.85,0.79 for duplicated and 0.77,0.68 for use of black images; DATA CONCLUSION: The feasibility for inference classification model on an MRI dataset with missing images using the Pix2pix-GAN generated images, was shown. The stability and generalization ability of the model was demonstrated by producing consistent results on two independent datasets.

LEVEL OF EVIDENCE

3 TECHNICAL EFFICACY: Stage 5.

TensorFit: A torch-based tool for ultrafast metabolite fitting of large MRSI data sets

PURPOSE

To introduce a tool (TensorFit) for ultrafast and robust metabolite fitting of MRSI data based on Torch's auto-differentiation and optimization framework.

METHODS

TensorFit was implemented in Python based on Torch's auto-differentiation to fit individual metabolites in MRS spectra. The underlying time domain and/or frequency domain fitting model is based on a linear combination of metabolite spectroscopic response. The computational time efficiency and accuracy of TensorFit were tested on simulated and in vivo MRS data and compared against TDFDFit and QUEST.

RESULTS

TensorFit demonstrates a significant improvement in computation speed, achieving a 165-times acceleration compared with TDFDFit and 115 times against QUEST. TensorFit showed smaller percentual errors on simulated data compared with TDFDFit and QUEST. When tested on in vivo data, it performed similarly to TDFDFit with a 2% better fit in terms of mean squared error while obtaining a 169-fold speedup.

CONCLUSION

TensorFit enables fast and robust metabolite fitting in large MRSI data sets compared with conventional metabolite fitting methods. This tool could boost the clinical applicability of large 3D MRSI by enabling the fitting of large MRSI data sets within computation times acceptable in a clinical environment.

A Comprehensive Review on the Role of MRI in the Assessment of Supratentorial Neoplasms: Comparative Insights Into Adult and Pediatric Cases

Magnetic resonance imaging (MRI) is a critical diagnostic tool in assessing supratentorial neoplasms, offering unparalleled detail and specificity in brain imaging. Supratentorial neoplasms in the cerebral hemispheres, basal ganglia, thalamus, and other structures above the tentorium cerebelli present significant diagnostic and therapeutic challenges. These challenges vary notably between adult and pediatric populations due to differences in tumor types, biological behavior, and patient management strategies. This comprehensive review explores the role of MRI in diagnosing, planning treatment, monitoring response, and detecting recurrence in supratentorial neoplasms, providing comparative insights into adult and pediatric cases. The review begins with an overview of the epidemiology and pathophysiology of these tumors in different age groups, followed by a detailed examination of standard and advanced MRI techniques, including diffusion-weighted imaging (DWI), perfusion-weighted imaging (PWI), and magnetic resonance spectroscopy (MRS). We discuss the specific imaging characteristics of various neoplasms and the importance of tailored approaches to optimize diagnostic accuracy and therapeutic efficacy. The review also addresses the technical and interpretative challenges unique to pediatric imaging and the implications for long-term patient outcomes. By highlighting the comparative utility of MRI in adult and pediatric cases, this review aims to enhance the understanding of its pivotal role in managing supratentorial neoplasms. It underscores the necessity of age-specific diagnostic and therapeutic strategies. Emerging MRI technologies and future research directions are also discussed, emphasizing the potential for advancements in personalized imaging approaches and improved patient care across all age groups.

A comprehensive survey on the use of deep learning techniques in glioblastoma

Glioblastoma, characterized as a grade 4 astrocytoma, stands out as the most aggressive brain tumor, often leading to dire outcomes. The challenge of treating glioblastoma is exacerbated by the convergence of genetic mutations and disruptions in gene expression, driven by alterations in epigenetic mechanisms. The integration of artificial intelligence, inclusive of machine learning algorithms, has emerged as an indispensable asset in medical analyses. AI is becoming a necessary tool in medicine and beyond. Current research on Glioblastoma predominantly revolves around non-omics data modalities, prominently including magnetic resonance imaging, computed tomography, and positron emission tomography. Nonetheless, the assimilation of omic data-encompassing gene expression through transcriptomics and epigenomics-offers pivotal insights into patients' conditions. These insights, reciprocally, hold significant value in refining diagnoses, guiding decision- making processes, and devising efficacious treatment strategies. This survey's core objective encompasses a comprehensive exploration of noteworthy applications of machine learning methodologies in the domain of glioblastoma, alongside closely associated research pursuits. The study accentuates the deployment of artificial intelligence techniques for both non-omics and omics data, encompassing a range of tasks. Furthermore, the survey underscores the intricate challenges posed by the inherent heterogeneity of Glioblastoma, delving into strategies aimed at addressing its multifaceted nature.

A fine-tuned vision transformer based enhanced multi-class brain tumor classification using MRI scan imagery

Brain tumors occur due to the expansion of abnormal cell tissues and can be malignant (cancerous) or benign (not cancerous). Numerous factors such as the position, size, and progression rate are considered while detecting and diagnosing brain tumors. Detecting brain tumors in their initial phases is vital for diagnosis where MRI (magnetic resonance imaging) scans play an important role. Over the years, deep learning models have been extensively used for medical image processing. The current study primarily investigates the novel Fine-Tuned Vision Transformer models (FTVTs)-FTVT-b16, FTVT-b32, FTVT-l16, FTVT-l32-for brain tumor classification, while also comparing them with other established deep learning models such as ResNet50, MobileNet-V2, and EfficientNet - B0. A dataset with 7,023 images (MRI scans) categorized into four different classes, namely, glioma, meningioma, pituitary, and no tumor are used for classification. Further, the study presents a comparative analysis of these models including their accuracies and other evaluation metrics including recall, precision, and F1-score across each class. The deep learning models ResNet-50, EfficientNet-B0, and MobileNet-V2 obtained an accuracy of 96.5%, 95.1%, and 94.9%, respectively. Among all the FTVT models, FTVT-l16 model achieved a remarkable accuracy of 98.70% whereas other FTVT models FTVT-b16, FTVT-b32, and FTVT-132 achieved an accuracy of 98.09%, 96.87%, 98.62%, respectively, hence proving the efficacy and robustness of FTVT's in medical image processing.

Enhancing predictability of IDH mutation status in glioma patients at initial diagnosis: a comparative analysis of radiomics from MRI, [18F]FET PET, and TSPO PET

PURPOSE

According to the World Health Organization classification for tumors of the central nervous system, mutation status of the isocitrate dehydrogenase (IDH) genes has become a major diagnostic discriminator for gliomas. Therefore, imaging-based prediction of IDH mutation status is of high interest for individual patient management. We compared and evaluated the diagnostic value of radiomics derived from dual positron emission tomography (PET) and magnetic resonance imaging (MRI) data to predict the IDH mutation status non-invasively.

METHODS

Eighty-seven glioma patients at initial diagnosis who underwent PET targeting the translocator protein (TSPO) using [18F]GE-180, dynamic amino acid PET using [18F]FET, and T1-/T2-weighted MRI scans were examined. In addition to calculating tumor-to-background ratio (TBR) images for all modalities, parametric images quantifying dynamic [18F]FET PET information were generated. Radiomic features were extracted from TBR and parametric images. The area under the receiver operating characteristic curve (AUC) was employed to assess the performance of logistic regression (LR) classifiers. To report robust estimates, nested cross-validation with five folds and 50 repeats was applied.

RESULTS

TBRGE-180 features extracted from TSPO-positive volumes had the highest predictive power among TBR images (AUC 0.88, with age as co-factor 0.94). Dynamic [18F]FET PET reached a similarly high performance (0.94, with age 0.96). The highest LR coefficients in multimodal analyses included TBRGE-180 features, parameters from kinetic and early static [18F]FET PET images, age, and the features from TBRT2 images such as the kurtosis (0.97).

CONCLUSION

The findings suggest that incorporating TBRGE-180 features along with kinetic information from dynamic [18F]FET PET, kurtosis from TBRT2, and age can yield very high predictability of IDH mutation status, thus potentially improving early patient management.

Germline Co-deletion of CDKN2A and CDKN2B Genes in Pleomorphic Xanthoastrocytoma: Case Report

BACKGROUND/AIM

Gliomas are highly heterogeneous malignancies originating from diverse cell types within the brain. Although their precise etiology is frequently unknown, risk factors, such as chemical exposure, radiation, and specific uncommon genetic disorders have been identified. Diagnosis typically entails imaging tests, such as magnetic resonance imaging and computed tomography, complemented by a biopsy for confirmation, which may be further validated through genetic testing.

CASE REPORT

Next-generation sequencing technology revealed germline co-deletion deletion of cyclin-dependent kinase inhibitor 2 A and B genes (CDKN2A and CDKN2B) in a patient diagnosed with pleomorphic xanthoastrocytoma based on the tumor's molecular characteristics. Following this result, we performed focused genetic analysis with use of multiplex ligation-dependent probe amplification technology for the mother that revealed the same co-deletion. Moreover, due to the father's neuroendocrine pancreatic cancer, application of the NGS technology detected a pathogenic variant in the BRCA1-interacting helicase 1 (BRIP1) gene. Comprehensive multi-gene testing conducted within the familial context, marked by a varied spectrum of cancer type, revealed a constellation of genetic predispositions.

CONCLUSION

This case study underscores the critical importance of molecular testing for tumor characterization and highlights the pivotal role of genetic testing in facilitating early intervention and screening for at-risk family members. Furthermore, the identification of germline co-deletions in cancer lays the foundation for the development of targeted therapeutic strategies aimed at restoring normal cellular regulation and improving patient management.

Neuroimaging of Vermiform Giant Arachnoid Granulations in Children

Arachnoid granulations (AGs) are generally benign structures within the subarachnoid space that extend into the dural sinuses and calvarial bone. They can present in a variety of sizes but are termed 'giant' arachnoid granulations (GAGs) when they are larger than 1 cm in diameter or take up a significant portion of the dural sinus' lumen. Vermiform giant arachnoid granulations are a specific type of GAG that are known for their worm-like appearance. Specifically, these vermiform GAGs can be challenging to diagnose as they can mimic other pathologies like dural sinus thrombosis, sinus cavernomas, or brain tumors. In this case series, we present two cases of vermiform giant arachnoid granulations, discuss their imaging characteristics and highlight the diagnostic challenges to improve identification and prevent misdiagnoses.

The Role of ArtificiaI Intelligence in Brain Tumor Diagnosis: An Evaluation of a Machine Learning Model

This research study explores of the effectiveness of a machine learning image classification model in the accurate identification of various types of brain tumors. The types of tumors under consideration in this study are gliomas, meningiomas, and pituitary tumors. These are some of the most common types of brain tumors and pose significant challenges in terms of accurate diagnosis and treatment. The machine learning model that is the focus of this study is built on the Google Teachable Machine platform (Alphabet Inc., Mountain View, CA). The Google Teachable Machine is a machine learning image classification platform that is built from Tensorflow, a popular open-source platform for machine learning. The Google Teachable Machine model was specifically evaluated for its ability to differentiate between normal brains and the aforementioned types of tumors in MRI images. MRI images are a common tool in the diagnosis of brain tumors, but the challenge lies in the accurate classification of the tumors. This is where the machine learning model comes into play. The model is trained to recognize patterns in the MRI images that correspond to the different types of tumors. The performance of the machine learning model was assessed using several metrics. These include precision, recall, and F1 score. These metrics were generated from a confusion matrix analysis and performance graphs. A confusion matrix is a table that is often used to describe the performance of a classification model. Precision is a measure of the model's ability to correctly identify positive instances among all instances it identified as positive. Recall, on the other hand, measures the model's ability to correctly identify positive instances among all actual positive instances. The F1 score is a measure that combines precision and recall providing a single metric for model performance. The results of the study were promising. The Google Teachable Machine model demonstrated high performance, with accuracy, precision, recall, and F1 scores ranging between 0.84 and 1.00. This suggests that the model is highly effective in accurately classifying the different types of brain tumors. This study provides insights into the potential of machine learning models in the accurate classification of brain tumors. The findings of this study lay the groundwork for further research in this area and have implications for the diagnosis and treatment of brain tumors. The study also highlights the potential of machine learning in enhancing the field of medical imaging and diagnosis. With the increasing complexity and volume of medical data, machine learning models like the one evaluated in this study could play a crucial role in improving the accuracy and efficiency of diagnoses. Furthermore, the study underscores the importance of continued research and development in this field to further refine these models and overcome any potential limitations or challenges. Overall, the study contributes to the field of medical imaging and machine learning and sets the stage for future research and advancements in this area.

Brain tumor detection with integrating traditional and computational intelligence approaches across diverse imaging modalities - Challenges and future directions

Brain tumor segmentation and classification play a crucial role in the diagnosis and treatment planning of brain tumors. Accurate and efficient methods for identifying tumor regions and classifying different tumor types are essential for guiding medical interventions. This study comprehensively reviews brain tumor segmentation and classification techniques, exploring various approaches based on image processing, machine learning, and deep learning. Furthermore, our study aims to review existing methodologies, discuss their advantages and limitations, and highlight recent advancements in this field. The impact of existing segmentation and classification techniques for automated brain tumor detection is also critically examined using various open-source datasets of Magnetic Resonance Images (MRI) of different modalities. Moreover, our proposed study highlights the challenges related to segmentation and classification techniques and datasets having various MRI modalities to enable researchers to develop innovative and robust solutions for automated brain tumor detection. The results of this study contribute to the development of automated and robust solutions for analyzing brain tumors, ultimately aiding medical professionals in making informed decisions and providing better patient care.

Tumour growth rate predicts overall survival in patients with recurrent WHO grade 4 glioma

PURPOSE

Accurate prognostication may aid in the selection of patients who will benefit from surgery at recurrent WHO grade 4 glioma. This study aimed to evaluate the role of serial tumour volumetric measurements for prognostication at first tumour recurrence.

METHODS

We retrospectively analyzed patients with histologically-diagnosed WHO grade 4 glioma at initial and at first tumour recurrence at a tertiary hospital between May 2000 and September 2018. We performed auto-segmentation using ITK-SNAP software, followed by manual adjustment to measure serial contrast-enhanced T1W (CE-T1W) and T2W lesional volume changes on all MRI images performed between initial resection and repeat surgery.

RESULTS

Thirty patients met inclusion criteria; the median overall survival using Kaplan-Meier analysis from second surgery was 10.5 months. Seventeen (56.7%) patients received treatment post second surgery. Univariate cox regression analysis showed that greater rate of increase in lesional volume on CE-T1W (HR = 2.57; 95% CI [1.18, 5.57]; p = 0.02) in the last 2 MRI scans leading up to the second surgery was associated with a higher mortality likelihood. Patients with higher Karnofsky Performance Score (KPS) (HR = 0.97; 95% CI [0.95, 0.99]; p = 0.01) and who received further treatment following second surgery (HR = 0.43; 95% CI [0.19, 0.98]; p = 0.04) were shown to have a better survival.

CONCLUSION

Higher rate of CE-T1W lesional growth on the last 2 MRI images prior to surgery at recurrence was associated with increase mortality risk. A larger prospective study is required to determine and validate the threshold to distinguish rapidly progressive tumour with poor prognosis.

IMPA-Net: Interpretable Multi-Part Attention Network for Trustworthy Brain Tumor Classification from MRI

Deep learning (DL) networks have shown attractive performance in medical image processing tasks such as brain tumor classification. However, they are often criticized as mysterious "black boxes". The opaqueness of the model and the reasoning process make it difficult for health workers to decide whether to trust the prediction outcomes. In this study, we develop an interpretable multi-part attention network (IMPA-Net) for brain tumor classification to enhance the interpretability and trustworthiness of classification outcomes. The proposed model not only predicts the tumor grade but also provides a global explanation for the model interpretability and a local explanation as justification for the proffered prediction. Global explanation is represented as a group of feature patterns that the model learns to distinguish high-grade glioma (HGG) and low-grade glioma (LGG) classes. Local explanation interprets the reasoning process of an individual prediction by calculating the similarity between the prototypical parts of the image and a group of pre-learned task-related features. Experiments conducted on the BraTS2017 dataset demonstrate that IMPA-Net is a verifiable model for the classification task. A percentage of 86% of feature patterns were assessed by two radiologists to be valid for representing task-relevant medical features. The model shows a classification accuracy of 92.12%, of which 81.17% were evaluated as trustworthy based on local explanations. Our interpretable model is a trustworthy model that can be used for decision aids for glioma classification. Compared with black-box CNNs, it allows health workers and patients to understand the reasoning process and trust the prediction outcomes.

Generalizable synthetic MRI with physics-informed convolutional networks

BACKGROUND

Magnetic resonance imaging (MRI) provides state-of-the-art image quality for neuroimaging, consisting of multiple separately acquired contrasts. Synthetic MRI aims to accelerate examinations by synthesizing any desirable contrast from a single acquisition.

PURPOSE

We developed a physics-informed deep learning-based method to synthesize multiple brain MRI contrasts from a single 5-min acquisition and investigate its ability to generalize to arbitrary contrasts.

METHODS

A dataset of 55 subjects acquired with a clinical MRI protocol and a 5-min transient-state sequence was used. The model, based on a generative adversarial network, maps data acquired from the five-minute scan to "effective" quantitative parameter maps (q*-maps), feeding the generated PD, T1, and T2 maps into a signal model to synthesize four clinical contrasts (proton density-weighted, T1-weighted, T2-weighted, and T2-weighted fluid-attenuated inversion recovery), from which losses are computed. The synthetic contrasts are compared to an end-to-end deep learning-based method proposed by literature. The generalizability of the proposed method is investigated for five volunteers by synthesizing three contrasts unseen during training and comparing these to ground truth acquisitions via qualitative assessment and contrast-to-noise ratio (CNR) assessment.

RESULTS

The physics-informed method matched the quality of the end-to-end method for the four standard contrasts, with structural similarity metrics above0.75 ± 0.08 $0.75\pm 0.08$ ( ± $\pm$ std), peak signal-to-noise ratios above22.4 ± 1.9 $22.4\pm 1.9$ , representing a portion of compact lesions comparable to standard MRI. Additionally, the physics-informed method enabled contrast adjustment, and similar signal contrast and comparable CNRs to the ground truth acquisitions for three sequences unseen during model training.

CONCLUSIONS

The study demonstrated the feasibility of physics-informed, deep learning-based synthetic MRI to generate high-quality contrasts and generalize to contrasts beyond the training data. This technology has the potential to accelerate neuroimaging protocols.

Compressed Sensitivity Encoding Artificial Intelligence Accelerates Brain Metastasis Imaging by Optimizing Image Quality and Reducing Scan Time

BACKGROUND AND PURPOSE

Accelerating the image acquisition speed of MR imaging without compromising the image quality is challenging. This study aimed to evaluate the feasibility of contrast-enhanced (CE) 3D T1WI and CE 3D-FLAIR sequences reconstructed with compressed sensitivity encoding artificial intelligence (CS-AI) for detecting brain metastases (BM) and explore the optimal acceleration factor (AF) for clinical BM imaging.

MATERIALS AND METHODS

Fifty-one patients with cancer with suspected BM were included. Fifty participants underwent different customized CE 3D-T1WI or CE 3D-FLAIR sequence scans. Compressed SENSE encoding acceleration 6 (CS6), a commercially available standard sequence, was used as the reference standard. Quantitative and qualitative methods were used to evaluate image quality. The SNR and contrast-to-noise ratio (CNR) were calculated, and qualitative evaluations were independently conducted by 2 neuroradiologists. After exploring the optimal AF, sample images were obtained from 1 patient by using both optimized sequences.

RESULTS

Quantitatively, the CNR of the CS-AI protocol for CE 3D-T1WI and CE 3D-FLAIR sequences was superior to that of the CS protocol under the same AF (P < .05). Compared with reference CS6, the CS-AI groups had higher CNR values (all P < .05), with the CS-AI10 scan having the highest value. The SNR of the CS-AI group was better than that of the reference for both CE 3D-T1WI and CE 3D-FLAIR sequences (all P < .05). Qualitatively, the CS-AI protocol produced higher image quality scores than did the CS protocol with the same AF (all P < .05). In contrast to the reference CS6, the CS-AI group showed good image quality scores until an AF of up to 10 (all P < .05). The CS-AI10 scan provided the optimal images, improving the delineation of normal gray-white matter boundaries and lesion areas (P < .05). Compared with the reference, CS-AI10 showed reductions in scan time of 39.25% and 39.93% for CE 3D-T1WI and CE 3D-FLAIR sequences, respectively.

CONCLUSIONS

CE 3D-T1WI and CE 3D-FLAIR sequences reconstructed with CS-AI for the detection of BM may provide a more effective alternative reconstruction approach than CS. CS-AI10 is suitable for clinical applications, providing optimal image quality and a shortened scan time.

Artificial intelligence in neuro-oncology: advances and challenges in brain tumor diagnosis, prognosis, and precision treatment

This review delves into the most recent advancements in applying artificial intelligence (AI) within neuro-oncology, specifically emphasizing work on gliomas, a class of brain tumors that represent a significant global health issue. AI has brought transformative innovations to brain tumor management, utilizing imaging, histopathological, and genomic tools for efficient detection, categorization, outcome prediction, and treatment planning. Assessing its influence across all facets of malignant brain tumor management- diagnosis, prognosis, and therapy- AI models outperform human evaluations in terms of accuracy and specificity. Their ability to discern molecular aspects from imaging may reduce reliance on invasive diagnostics and may accelerate the time to molecular diagnoses. The review covers AI techniques, from classical machine learning to deep learning, highlighting current applications and challenges. Promising directions for future research include multimodal data integration, generative AI, large medical language models, precise tumor delineation and characterization, and addressing racial and gender disparities. Adaptive personalized treatment strategies are also emphasized for optimizing clinical outcomes. Ethical, legal, and social implications are discussed, advocating for transparency and fairness in AI integration for neuro-oncology and providing a holistic understanding of its transformative impact on patient care.

Imaging Role in Diagnosis, Prognosis, and Treatment Response Prediction Associated with High-grade Glioma

Background

Glioma is one of the most drug and radiation-resistant tumors. Gliomas suffer from inter- and intratumor heterogeneity which makes the outcome of similar treatment protocols vary from patient to patient. This article is aimed to overview the potential imaging markers for individual diagnosis, prognosis, and treatment response prediction in malignant glioma. Furthermore, the correlation between imaging findings and biological and clinical information of glioma patients is reviewed.

Materials and Methods

The search strategy in this study is to select related studies from scientific websites such as PubMed, Scopus, Google Scholar, and Web of Science published until 2022. It comprised a combination of keywords such as Biomarkers, Diagnosis, Prognosis, Imaging techniques, and malignant glioma, according to Medical Subject Headings.

Results

Some imaging parameters that are effective in glioma management include: ADC, FA, Ktrans, regional cerebral blood volume (rCBV), cerebral blood flow (CBF), ve, Cho/NAA and lactate/lipid ratios, intratumoral uptake of 18F-FET (for diagnostic application), RD, ADC, ve, vp, Ktrans, CBFT1, rCBV, tumor blood flow, Cho/NAA, lactate/lipid, MI/Cho, uptakes of 18F-FET, 11C-MET, and 18F-FLT (for prognostic and predictive application). Cerebral blood volume and Ktrans are related to molecular markers such as vascular endothelial growth factor (VEGF). Preoperative ADCmin value of GBM tumors is associated with O6-methylguanine-DNA methyltransferase (MGMT) promoter methylation status. 2-hydroxyglutarate metabolite and dynamic 18F-FDOPA positron emission tomography uptake are related to isocitrate dehydrogenase (IDH) mutations.

Conclusion

Parameters including ADC, RD, FA, rCBV, Ktrans, vp, and uptake of 18F-FET are useful for diagnosis, prognosis, and treatment response prediction in glioma. A significant correlation between molecular markers such as VEGF, MGMT, and IDH mutations with some diffusion and perfusion imaging parameters has been identified.

BrainNet: a fusion assisted novel optimal framework of residual blocks and stacked autoencoders for multimodal brain tumor classification

A significant issue in computer-aided diagnosis (CAD) for medical applications is brain tumor classification. Radiologists could reliably detect tumors using machine learning algorithms without extensive surgery. However, a few important challenges arise, such as (i) the selection of the most important deep learning architecture for classification (ii) an expert in the field who can assess the output of deep learning models. These difficulties motivate us to propose an efficient and accurate system based on deep learning and evolutionary optimization for the classification of four types of brain modalities (t1 tumor, t1ce tumor, t2 tumor, and flair tumor) on a large-scale MRI database. Thus, a CNN architecture is modified based on domain knowledge and connected with an evolutionary optimization algorithm to select hyperparameters. In parallel, a Stack Encoder-Decoder network is designed with ten convolutional layers. The features of both models are extracted and optimized using an improved version of Grey Wolf with updated criteria of the Jaya algorithm. The improved version speeds up the learning process and improves the accuracy. Finally, the selected features are fused using a novel parallel pooling approach that is classified using machine learning and neural networks. Two datasets, BraTS2020 and BraTS2021, have been employed for the experimental tasks and obtained an improved average accuracy of 98% and a maximum single-classifier accuracy of 99%. Comparison is also conducted with several classifiers, techniques, and neural nets; the proposed method achieved improved performance.

Synthesizing Contrast-Enhanced MR Images from Noncontrast MR Images Using Deep Learning

BACKGROUND AND PURPOSE

Recent developments in deep learning methods offer a potential solution to the need for alternative imaging methods due to concerns about the toxicity of gadolinium-based contrast agents. The purpose of the study was to synthesize virtual gadolinium contrast-enhanced T1-weighted MR images from noncontrast multiparametric MR images in patients with primary brain tumors by using deep learning.

MATERIALS AND METHODS

We trained and validated a deep learning network by using MR images from 335 subjects in the Brain Tumor Segmentation Challenge 2019 training data set. A held out set of 125 subjects from the Brain Tumor Segmentation Challenge 2019 validation data set was used to test the generalization of the model. A residual inception DenseNet network, called T1c-ET, was developed and trained to simultaneously synthesize virtual contrast-enhanced T1-weighted (vT1c) images and segment the enhancing portions of the tumor. Three expert neuroradiologists independently scored the synthesized vT1c images by using a 3-point Likert scale, evaluating image quality and contrast enhancement against ground truth T1c images (1 = poor, 2 = good, 3 = excellent).

RESULTS

The synthesized vT1c images achieved structural similarity index, peak signal-to-noise ratio, and normalized mean square error scores of 0.91, 64.35, and 0.03, respectively. There was moderate interobserver agreement between the 3 raters, regarding the algorithm's performance in predicting contrast enhancement, with a Fleiss kappa value of 0.61. Our model was able to accurately predict contrast enhancement in 88.8% of the cases (scores of 2 to 3 on the 3-point scale).

CONCLUSIONS

We developed a novel deep learning architecture to synthesize virtual postcontrast enhancement by using only conventional noncontrast brain MR images. Our results demonstrate the potential of deep learning methods to reduce the need for gadolinium contrast in the evaluation of primary brain tumors.

Deep CNNs for glioma grading on conventional MRIs: Performance analysis, challenges, and future directions

The increasing global incidence of glioma tumors has raised significant healthcare concerns due to their high mortality rates. Traditionally, tumor diagnosis relies on visual analysis of medical imaging and invasive biopsies for precise grading. As an alternative, computer-assisted methods, particularly deep convolutional neural networks (DCNNs), have gained traction. This research paper explores the recent advancements in DCNNs for glioma grading using brain magnetic resonance images (MRIs) from 2015 to 2023. The study evaluated various DCNN architectures and their performance, revealing remarkable results with models such as hybrid and ensemble based DCNNs achieving accuracy levels of up to 98.91%. However, challenges persisted in the form of limited datasets, lack of external validation, and variations in grading formulations across diverse literature sources. Addressing these challenges through expanding datasets, conducting external validation, and standardizing grading formulations can enhance the performance and reliability of DCNNs in glioma grading, thereby advancing brain tumor classification and extending its applications to other neurological disorders.

Protein MRI Contrast Agents as an Effective Approach for Precision Molecular Imaging

ABSTRACT

Cancer and other acute and chronic diseases are results of perturbations of common molecular determinants in key biological and signaling processes. Imaging is critical for characterizing dynamic changes in tumors and metastases, the tumor microenvironment, tumor-stroma interactions, and drug targets, at multiscale levels. Magnetic resonance imaging (MRI) has emerged to be a primary imaging modality for both clinical and preclinical applications due to its advantages over other modalities, including sensitivity to soft tissues, nondepth limitations, and the use of nonionizing radiation. However, extending the application of MRI to achieve both qualitative and quantitative precise molecular imaging with the capability to quantify molecular biomarkers for early detection, staging, and monitoring therapeutic treatment requires the capacity to overcome several major challenges including the trade-off between metal-binding affinity and relaxivity, which is an issue frequently associated with small chelator contrast agents. In this review, we will introduce the criteria of ideal contrast agents for precision molecular imaging and discuss the relaxivity of current contrast agents with defined first shell coordination water molecules. We will then report our advances in creating a new class of protein-targeted MRI contrast agents (ProCAs) with contributions to relaxivity largely derived from the secondary sphere and correlation time. We will summarize our rationale, design strategy, and approaches to the development and optimization of our pioneering ProCAs with desired high relaxivity, metal stability, and molecular biomarker-targeting capability, for precision MRI. From first generation (ProCA1) to third generation (ProCA32), we have achieved dual high r1 and r2 values that are 6- to 10-fold higher than clinically approved contrast agents at magnetic fields of 1.5 T, and their relaxivity values at high field are also significantly higher, which enables high resolution during small animal imaging. Further engineering of multiple targeting moieties enables ProCA32 agents that have strong biomarker-binding affinity and specificity for an array of key molecular biomarkers associated with various chronic diseases, while maintaining relaxation and exceptional metal-binding and selectivity, serum stability, and resistance to transmetallation, which are critical in mitigating risks associated with metal toxicity. Our leading product ProCA32.collagen has enabled the first early detection of liver metastasis from multiple cancers at early stages by mapping the tumor environment and early stage of fibrosis from liver and lung in vivo, with strong translational potential to extend to precision MRI for preclinical and clinical applications for precision diagnosis and treatment.

Unveiling the Intricacies: A Comprehensive Review of Magnetic Resonance Imaging (MRI) Assessment of T2-Weighted Hyperintensities in the Neuroimaging Landscape

T2-weighted hyperintensities in neuroimaging represent areas of heightened signal intensity on magnetic resonance imaging (MRI) scans, holding crucial importance in neuroimaging. This comprehensive review explores the T2-weighted hyperintensities, providing insights into their definition, characteristics, clinical relevance, and underlying causes. It highlights the significance of these hyperintensities as sensitive markers for neurological disorders, including multiple sclerosis, vascular dementia, and brain tumors. The review also delves into advanced neuroimaging techniques, such as susceptibility-weighted and diffusion tensor imaging, and the application of artificial intelligence and machine learning in hyperintensities analysis. Furthermore, it outlines the challenges and pitfalls associated with their assessment and emphasizes the importance of standardized protocols and a multidisciplinary approach. The review discusses future directions for research and clinical practice, including the development of biomarkers, personalized medicine, and enhanced imaging techniques. Ultimately, the review underscores the profound impact of T2-weighted hyperintensities in shaping the landscape of neurological diagnosis, prognosis, and treatment, contributing to a deeper understanding of complex neurological conditions and guiding more informed and effective patient care.

Investigations on correlations between changes of optical tissue properties and NMR relaxation times

BACKGROUND

Accurate light dosimetry is a complex remaining challenge in interstitial photodynamic therapy (iPDT) for malignant gliomas. The light dosimetry should ideally be based on the tissue morphology and the individual optical tissue properties of each tissue type in the target region. First investigations are reported on using NMR information to estimate changes of individual optical tissue properties.

METHODS

Porcine brain tissue and optical tissue phantoms were investigated. To the porcine brain, supplements were added to simulate an edema or high blood content. The tissue phantoms were based on agar, Lipoveneous, ink, blood and gadobutrol (Gd-based MRI contrast agent). The concentrations of phantom ingredients and tissue additives are varied to compare concentration-dependent effects on optical and NMR properties. A 3-tesla whole-body MRI system was used to determine T1 and T2 relaxation times. Optical tissue properties, i.e., the spectrally resolved absorption and reduced scattering coefficient, were obtained using a single integrating sphere setup. The observed changes of NMR and optical properties were compared to each other.

RESULTS

By adjusting the NMR relaxation times and optical tissue properties of the tissue phantoms to literature values, recipes for human brain tumor, white matter and grey matter tissue phantoms were obtained that mimic these brain tissues simultaneously in both properties. For porcine brain tissue, it was observed that with increasing water concentration in the tissue, both NMR-relaxation times increased, while µa decreased and µs' increased at 635 nm. The addition of blood to porcine brain samples showed a constant T1, while T2 shortened and the absorption coefficient at 635 nm increased.

CONCLUSIONS

In this investigation, by changing sample contents, notable changes of both NMR relaxation times and optical tissue properties have been observed and their relations examined. The developed dual NMR/optical tissue phantoms can be used in iPDT research, clinical training and demonstrations.

Using a generative adversarial network to generate synthetic MRI images for multi-class automatic segmentation of brain tumors

Challenging tasks such as lesion segmentation, classification, and analysis for the assessment of disease progression can be automatically achieved using deep learning (DL)-based algorithms. DL techniques such as 3D convolutional neural networks are trained using heterogeneous volumetric imaging data such as MRI, CT, and PET, among others. However, DL-based methods are usually only applicable in the presence of the desired number of inputs. In the absence of one of the required inputs, the method cannot be used. By implementing a generative adversarial network (GAN), we aim to apply multi-label automatic segmentation of brain tumors to synthetic images when not all inputs are present. The implemented GAN is based on the Pix2Pix architecture and has been extended to a 3D framework named Pix2PixNIfTI. For this study, 1,251 patients of the BraTS2021 dataset comprising sequences such as T1w, T2w, T1CE, and FLAIR images equipped with respective multi-label segmentation were used. This dataset was used for training the Pix2PixNIfTI model for generating synthetic MRI images of all the image contrasts. The segmentation model, namely DeepMedic, was trained in a five-fold cross-validation manner for brain tumor segmentation and tested using the original inputs as the gold standard. The inference of trained segmentation models was later applied to synthetic images replacing missing input, in combination with other original images to identify the efficacy of generated images in achieving multi-class segmentation. For the multi-class segmentation using synthetic data or lesser inputs, the dice scores were observed to be significantly reduced but remained similar in range for the whole tumor when compared with evaluated original image segmentation (e.g. mean dice of synthetic T2w prediction NC, 0.74 ± 0.30; ED, 0.81 ± 0.15; CET, 0.84 ± 0.21; WT, 0.90 ± 0.08). A standard paired t-tests with multiple comparison correction were performed to assess the difference between all regions (p < 0.05). The study concludes that the use of Pix2PixNIfTI allows us to segment brain tumors when one input image is missing.

Guess What Is in My Brain

Magnetic resonance imaging (MRI) of the brain is an important diagnostic tool used by neurologists. This article explores the workup and management for a patient with a brain lesion and highlights the importance of neuroimaging. Similarities and differences in MRI findings for meningioma, central nervous system lymphoma, and glioblastomas are discussed, along with common MRI sequences and their utility.

Convolutional Neural Networks for Glioma Segmentation and Prognosis: A Systematic Review

Deep learning (DL) is poised to redefine the way medical images are processed and analyzed. Convolutional neural networks (CNNs), a specific type of DL architecture, are exceptional for high-throughput processing, allowing for the effective extraction of relevant diagnostic patterns from large volumes of complex visual data. This technology has garnered substantial interest in the field of neuro-oncology as a promising tool to enhance medical imaging throughput and analysis. A multitude of methods harnessing MRI-based CNNs have been proposed for brain tumor segmentation, classification, and prognosis prediction. They are often applied to gliomas, the most common primary brain cancer, to classify subtypes with the goal of guiding therapy decisions. Additionally, the difficulty of repeating brain biopsies to evaluate treatment response in the setting of often confusing imaging findings provides a unique niche for CNNs to help distinguish the treatment response to gliomas. For example, glioblastoma, the most aggressive type of brain cancer, can grow due to poor treatment response, can appear to grow acutely due to treatment-related inflammation as the tumor dies (pseudo-progression), or falsely appear to be regrowing after treatment as a result of brain damage from radiation (radiation necrosis). CNNs are being applied to separate this diagnostic dilemma. This review provides a detailed synthesis of recent DL methods and applications for intratumor segmentation, glioma classification, and prognosis prediction. Furthermore, this review discusses the future direction of MRI-based CNN in the field of neuro-oncology and challenges in model interpretability, data availability, and computation efficiency.

Basics for Pediatric Brain Tumor Imaging: Techniques and Protocol Recommendations

This review provides an overview of the current state of pediatric brain tumor imaging, emphasizing the role of various imaging sequences and highlighting the advantages of standardizing protocols for pediatric brain tumor imaging in diagnosis and treatment response evaluation. Basic anatomical sequences such as pre- and post-contrast 3D T1-weighted, T2-weighted, fluid-attenuated inversion recovery, T2*-weighted, and diffusion-weighted imaging (DWI), are fundamental for assessing tumor location, extent, and characteristics. Advanced techniques like DWI, diffusion tensor imaging, perfusion imaging, magnetic resonance spectroscopy, and functional MRI offer insights into cellularity, vascularity, metabolism, and function. To enhance consistency and quality, standardized protocols for pediatric brain tumor imaging have been recommended by expert groups. Special considerations for pediatric patients, including the minimization of anesthesia exposure and gadolinium contrast agent usage, are essential to ensure patient safety and comfort. Staying up-to-date with diagnostic imaging techniques can contribute to improved communication, outcomes, and patient care in the field of pediatric neurooncology.

Applications and Integration of Radiomics for Skull Base Oncology

Radiomics, a quantitative approach to extracting features from medical images, represents a new frontier in skull base oncology. Novel image analysis approaches have enabled us to capture patterns from images imperceptible by the human eye. This rich source of data can be combined with a range of clinical features, holding the potential to be a noninvasive source of biomarkers. Applications of radiomics in skull base pathologies have centered around three common tumor classes: meningioma, sellar/parasellar tumors, and vestibular schwannomas. Radiomic investigations can be categorized into five domains: tumor detection/segmentation, classification between tumor types, tumor grading, detection of tumor features, and prognostication. Various computational architectures have been employed across these domains, with deep-learning methods becoming more common versus machine learning. Across radiomic applications, contrast-enhanced T1-weighted MRI images remain the most utilized sequence for model development. Efforts to standardize and connect radiomic features to tumor biology have facilitated more clinically applicable radiomic models. Despite the advancement in model performance, several challenges continue to hinder translatability, including small sample sizes and model training on homogenous single institution data. To recognize the potential of radiomics for skull base oncology, prospective, multi-institutional collaboration will be the cornerstone for a validated radiomic technology.

Possibilities of Using Multi-b-value Diffusion Magnetic Resonance Imaging for Classification of Brain Lesions

In contrast to conventional diffusion magnetic resonance imaging (MRI), multi-b-value diffusion MRI methods are able to separate the signal from free water, pseudo-diffusion, and non-Gaussian components of water molecule diffusion. These approaches can then be utilised in so-called intravoxel incoherent motion imaging and diffusion kurtosis imaging. Various parameters provided by these methods can describe additional characteristics of the tissue microstructure and potentially help in the diagnosis and classification of various pathological processes. In this review, we present the basic principles and methods of analysing multi-b-value diffusion imaging data and specifically focus on the known possibilities for its use in the diagnosis of brain lesions. We also suggest possible directions for further research.

Least square-support vector machine based brain tumor classification system with multi model texture features

Radiologists confront formidable challenges when confronted with the intricate task of classifying brain tumors through the analysis of MRI images. Our forthcoming manuscript introduces an innovative and highly effective methodology that capitalizes on the capabilities of Least Squares Support Vector Machines (LS-SVM) in tandem with the rich insights drawn from Multi-Scale Morphological Texture Features (MMTF) extracted from T1-weighted MR images. Our methodology underwent meticulous evaluation on a substantial dataset encompassing 139 cases, consisting of 119 cases of aberrant tumors and 20 cases of normal brain images. The outcomes we achieved are nothing short of extraordinary. Our LS-SVM-based approach vastly outperforms competing classifiers, demonstrating its dominance with an exceptional accuracy rate of 98.97%. This represents a substantial 3.97% improvement over alternative methods, accompanied by a notable 2.48% enhancement in Sensitivity and a substantial 10% increase in Specificity. These results conclusively surpass the performance of traditional classifiers such as Support Vector Machines (SVM), Radial Basis Function (RBF), and Artificial Neural Networks (ANN) in terms of classification accuracy. The outstanding performance of our model in the realm of brain tumor diagnosis signifies a substantial leap forward in the field, holding the promise of delivering more precise and dependable tools for radiologists and healthcare professionals in their pivotal role of identifying and classifying brain tumors using MRI imaging techniques.

Insights into the molecular roles of FOXR2 in the pathology of primary pediatric brain tumors

Forkhead box gene R2 (FOXR2) belongs to the family of FOX genes which codes for highly conserved transcription factors (TFs) with critical roles in biological processes ranging from development to organogenesis to metabolic and immune regulation to cellular homeostasis. A number of FOX genes are associated with cancer development and progression and poor prognosis. A growing body of evidence suggests that FOXR2 is an oncogene. Studies suggested important roles for FOXR2 in cancer cell growth, metastasis, and drug resistance. Recent studies showed that FOXR2 is overexpressed by a subset of newly identified entities of embryonal tumors. This review discusses the role(s) FOXR2 plays in the pathology of pediatric brain cancers and its potential as a therapeutic target.

Investigating cerebral perfusion with high resolution hyperpolarized [1-13 C]pyruvate MRI

PURPOSE

To investigate high-resolution hyperpolarized (HP) 13 C pyruvate MRI for measuring cerebral perfusion in the human brain.

METHODS

HP [1-13 C]pyruvate MRI was acquired in five healthy volunteers with a multi-resolution EPI sequence with 7.5 × 7.5 mm2 resolution for pyruvate. Perfusion parameters were calculated from pyruvate MRI using block-circulant singular value decomposition and compared to relative cerebral blood flow calculated from arterial spin labeling (ASL). To examine regional perfusion patterns, correlations between pyruvate and ASL perfusion were performed for whole brain, gray matter, and white matter voxels.

RESULTS

High resolution 7.5 × 7.5 mm2 pyruvate images were used to obtain relative cerebral blood flow (rCBF) values that were significantly positively correlated with ASL rCBF values (r = 0.48, 0.20, 0.28 for whole brain, gray matter, and white matter voxels respectively). Whole brain voxels exhibited the highest correlation between pyruvate and ASL perfusion, and there were distinct regional patterns of relatively high ASL and low pyruvate normalized rCBF found across subjects.

CONCLUSION

Acquiring HP 13 C pyruvate metabolic images at higher resolution allows for finer spatial delineation of brain structures and can be used to obtain cerebral perfusion parameters. Pyruvate perfusion parameters were positively correlated to proton ASL perfusion values, indicating a relationship between the two perfusion measures. This HP 13 C study demonstrated that hyperpolarized pyruvate MRI can assess cerebral metabolism and perfusion within the same study.

Comparative study between dynamic susceptibility contrast magnetic resonance imaging and arterial spin labelling perfusion in differentiating low-grade from high-grade brain tumours

Purpose

Our aim was to distinguish between low-grade and high-grade brain tumours on the basis of dynamic susceptibility contrast (DSC) magnetic resonance imaging (MRI) perfusion and arterial spin labelling (ASL) perfusion and to compare DSC and ASL techniques.

Material and methods

Forty-one patients with brain tumours were evaluated by 3-Tesla MRI. Conventional and perfusion MRI imaging with a 3D pseudo-continuous ASL (PCASL) and DSC perfusion maps were evaluated. Three ROIs were placed to obtain cerebral blood value (CBV) and cerebral blood flow (CBF) in areas of maximum perfusion in brain tumour and normal grey matter. Histopathological diagnosis was considered as the reference. ROC analysis was performed to compare the diagnostic performance and to obtain a feasible cut-off value of perfusion parameters to differentiate low-grade and high-grade brain tumours.

Results

Normalised perfusion parameters with grey matter (rCBF or rCBV lesion/NGM) of malignant lesions were significantly higher than those of benign lesions in both DSC (normalised rCBF of 2.16 and normalised rCBV of 2.63) and ASL (normalised rCBF of 2.22) perfusion imaging. The normalised cut-off values of DSC (rCBF of 1.1 and rCBV of 1.4) and ASL (rCBF of 1.3) showed similar specificity and near similar sensitivity in distinguishing low-grade and high-grade brain tumours.

Conclusions

Quantitative analysis of perfusion parameters obtained by both DSC and ASL perfusion techniques can be reliably used to distinguish low-grade and high-grade brain tumours. Normalisation of these values by grey matter gives us more reliable parameters, eliminating the different technical parameters involved in both the techniques.

Nanotechnology for brain tumor imaging and therapy based on π-conjugated materials: state-of-the-art advances and prospects

In contemporary biomedical research, the development of nanotechnology has brought forth numerous possibilities for brain tumor imaging and therapy. Among these, π-conjugated materials have garnered significant attention as a special class of nanomaterials in brain tumor-related studies. With their excellent optical and electronic properties, π-conjugated materials can be tailored in structure and nature to facilitate applications in multimodal imaging, nano-drug delivery, photothermal therapy, and other related fields. This review focuses on presenting the cutting-edge advances and application prospects of π-conjugated materials in brain tumor imaging and therapeutic nanotechnology.