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Current trends in glioma tumor segmentation: A survey of deep learning modules.

Shoushtari FK, Elahi R, Valizadeh G, Moodi F, Salari HM, Rad HS

pubmed logopapersJun 2 2025
Multiparametric Magnetic Resonance Imaging (mpMRI) is the gold standard for diagnosing brain tumors, especially gliomas, which are difficult to segment due to their heterogeneity and varied sub-regions. While manual segmentation is time-consuming and error-prone, Deep Learning (DL) automates the process with greater accuracy and speed. We conducted ablation studies on surveyed articles to evaluate the impact of "add-on" modules-addressing challenges like spatial information loss, class imbalance, and overfitting-on glioma segmentation performance. Advanced modules-such as atrous (dilated) convolutions, inception, attention, transformer, and hybrid modules-significantly enhance segmentation accuracy, efficiency, multiscale feature extraction, and boundary delineation, while lightweight modules reduce computational complexity. Experiments on the Brain Tumor Segmentation (BraTS) dataset (comprising low- and high-grade gliomas) confirm their robustness, with top-performing models achieving high Dice score for tumor sub-regions. This survey underscores the need for optimal module selection and placement to balance speed, accuracy, and interpretability in glioma segmentation. Future work should focus on improving model interpretability, lowering computational costs, and boosting generalizability. Tools like NeuroQuant® and Raidionics demonstrate potential for clinical translation. Further refinement could enable regulatory approval, advancing precision in brain tumor diagnosis and treatment planning.

Fine-tuned large Language model for extracting newly identified acute brain infarcts based on computed tomography or magnetic resonance imaging reports.

Fujita N, Yasaka K, Kiryu S, Abe O

pubmed logopapersJun 2 2025
This study aimed to develop an automated early warning system using a large language model (LLM) to identify acute to subacute brain infarction from free-text computed tomography (CT) or magnetic resonance imaging (MRI) radiology reports. In this retrospective study, 5,573, 1,883, and 834 patients were included in the training (mean age, 67.5 ± 17.2 years; 2,831 males), validation (mean age, 61.5 ± 18.3 years; 994 males), and test (mean age, 66.5 ± 16.1 years; 488 males) datasets. An LLM (Japanese Bidirectional Encoder Representations from Transformers model) was fine-tuned to classify the CT and MRI reports into three groups (group 0, newly identified acute to subacute infarction; group 1, known acute to subacute infarction or old infarction; group 2, without infarction). The training and validation processes were repeated 15 times, and the best-performing model on the validation dataset was selected to further evaluate its performance on the test dataset. The best fine-tuned model exhibited sensitivities of 0.891, 0.905, and 0.959 for groups 0, 1, and 2, respectively, in the test dataset. The macrosensitivity (the average of sensitivity for all groups) and accuracy were 0.918 and 0.923, respectively. The model's performance in extracting newly identified acute brain infarcts was high, with an area under the receiver operating characteristic curve of 0.979 (95% confidence interval, 0.956-1.000). The average prediction time was 0.115 ± 0.037 s per patient. A fine-tuned LLM could extract newly identified acute to subacute brain infarcts based on CT or MRI findings with high performance.

Radiogenomics and Radiomics of Skull Base Chordoma: Classification of Novel Radiomic Subgroups and Prediction of Genetic Signatures and Clinical Outcomes.

Gersey ZC, Zenkin S, Mamindla P, Amjadzadeh M, Ak M, Plute T, Peddagangireddy V, Abdallah H, Muthiah N, Wang EW, Snyderman C, Gardner PA, Colen RR, Zenonos GA

pubmed logopapersJun 2 2025
Chordomas are rare, aggressive tumors of notochordal origin, commonly affecting the spine and skull base. Skull Base Chordomas (SBCs) comprise approximately 39% of cases, with an incidence of less than 1 per million annually in the U.S. Prognosis remains poor due to resistance to chemotherapy, often requiring extensive surgical resection and adjuvant radiotherapy. Current classification methods based on chromosomal deletions are invasive and costly, presenting a need for alternative diagnostic tools. Radiomics allows for non-invasive SBC diagnosis and treatment planning. We developed and validated radiomic-based models using MRI data to predict Overall Survival (OS) and Progression-Free Survival following Surgery (PFSS) in SBC patients. Machine learning classifiers, including eXtreme Gradient Boosting (XGBoost), were employed along with feature selection techniques. Unsupervised clustering identified radiomic-based subgroups, which were correlated with chromosomal deletions and clinical outcomes. Our XGBoost model demonstrated superior predictive performance, achieving an area under the curve (AUC) of 83.33% for OS and 80.36% for PFSS, outperforming other classifiers. Radiomic clustering revealed two SBC groups with differing survival and molecular characteristics, strongly correlating with chromosomal deletion profiles. These findings indicate that radiomics can non-invasively characterize SBC phenotypes and stratify patients by prognosis. Radiomics shows promise as a reliable, non-invasive tool for the prognostication and classification of SBCs, minimizing the need for invasive genetic testing and supporting personalized treatment strategies.

Advancing Intracranial Aneurysm Detection: A Comprehensive Systematic Review and Meta-analysis of Deep Learning Models Performance, Clinical Integration, and Future Directions.

Delfan N, Abbasi F, Emamzadeh N, Bahri A, Parvaresh Rizi M, Motamedi A, Moshiri B, Iranmehr A

pubmed logopapersJun 1 2025
Cerebral aneurysms pose a significant risk to patient safety, particularly when ruptured, emphasizing the need for early detection and accurate prediction. Traditional diagnostic methods, reliant on clinician-based evaluations, face challenges in sensitivity and consistency, prompting the exploration of deep learning (DL) systems for improved performance. This systematic review and meta-analysis assessed the performance of DL models in detecting and predicting intracranial aneurysms compared to clinician-based evaluations. Imaging modalities included CT angiography (CTA), digital subtraction angiography (DSA), and time-of-flight MR angiography (TOF-MRA). Data on lesion-wise sensitivity, specificity, and the impact of DL assistance on clinician performance were analyzed. Subgroup analyses evaluated DL sensitivity by aneurysm size and location, and interrater agreement was measured using Fleiss' κ. DL systems achieved an overall lesion-wise sensitivity of 90 % and specificity of 94 %, outperforming human diagnostics. Clinician specificity improved significantly with DL assistance, increasing from 83 % to 85 % in the patient-wise scenario and from 93 % to 95 % in the lesion-wise scenario. Similarly, clinician sensitivity also showed notable improvement with DL assistance, rising from 82 % to 96 % in the patient-wise scenario and from 82 % to 88 % in the lesion-wise scenario. Subgroup analysis showed DL sensitivity varied with aneurysm size and location, reaching 100 % for aneurysms larger than 10 mm. Additionally, DL assistance improved interrater agreement among clinicians, with Fleiss' κ increasing from 0.668 to 0.862. DL models demonstrate transformative potential in managing cerebral aneurysms by enhancing diagnostic accuracy, reducing missed cases, and supporting clinical decision-making. However, further validation in diverse clinical settings and seamless integration into standard workflows are necessary to fully realize the benefits of DL-driven diagnostics.

Development and validation of a combined clinical and MRI-based biomarker model to differentiate mild cognitive impairment from mild Alzheimer's disease.

Hosseini Z, Mohebbi A, Kiani I, Taghilou A, Mohammadjafari A, Aghamollaii V

pubmed logopapersJun 1 2025
Two of the most common complaints seen in neurology clinics are Alzheimer's disease (AD) and mild cognitive impairment (MCI), characterized by similar symptoms. The aim of this study was to develop and internally validate the diagnostic value of combined neurological and radiological predictors in differentiating mild AD from MCI as the outcome variable, which helps in preventing AD development. A cross-sectional study of 161 participants was conducted in a general healthcare setting, including 30 controls, 71 mild AD, and 60 MCI. Binary logistic regression was used to identify predictors of interest, with collinearity assessment conducted prior to model development. Model performance was assessed through calibration, shrinkage, and decision-curve analyses. Finally, the combined clinical and radiological model was compared to models utilizing only clinical or radiological predictors. The final model included age, sex, education status, Montreal cognitive assessment, Global Cerebral Atrophy Index, Medial Temporal Atrophy Scale, mean hippocampal volume, and Posterior Parietal Atrophy Index, with the area under the curve of 0.978 (0.934-0.996). Internal validation methods did not show substantial reduction in diagnostic performance. Combined model showed higher diagnostic performance compared to clinical and radiological models alone. Decision curve analysis highlighted the usefulness of this model for differentiation across all probability levels. A combined clinical-radiological model has excellent diagnostic performance in differentiating mild AD from MCI. Notably, the model leveraged straightforward neuroimaging markers, which are relatively simple to measure and interpret, suggesting that they could be integrated into practical, formula-driven diagnostic workflows without requiring computationally intensive deep learning models.

Efficient slice anomaly detection network for 3D brain MRI Volume.

Zhang Z, Mohsenzadeh Y

pubmed logopapersJun 1 2025
Current anomaly detection methods excel with benchmark industrial data but struggle with natural images and medical data due to varying definitions of 'normal' and 'abnormal.' This makes accurate identification of deviations in these fields particularly challenging. Especially for 3D brain MRI data, all the state-of-the-art models are reconstruction-based with 3D convolutional neural networks which are memory-intensive, time-consuming and producing noisy outputs that require further post-processing. We propose a framework called Simple Slice-based Network (SimpleSliceNet), which utilizes a model pre-trained on ImageNet and fine-tuned on a separate MRI dataset as a 2D slice feature extractor to reduce computational cost. We aggregate the extracted features to perform anomaly detection tasks on 3D brain MRI volumes. Our model integrates a conditional normalizing flow to calculate log likelihood of features and employs the contrastive loss to enhance anomaly detection accuracy. The results indicate improved performance, showcasing our model's remarkable adaptability and effectiveness when addressing the challenges exists in brain MRI data. In addition, for the large-scale 3D brain volumes, our model SimpleSliceNet outperforms the state-of-the-art 2D and 3D models in terms of accuracy, memory usage and time consumption. Code is available at: https://github.com/Jarvisarmy/SimpleSliceNet.

AO Spine Clinical Practice Recommendations for Diagnosis and Management of Degenerative Cervical Myelopathy: Evidence Based Decision Making - A Review of Cutting Edge Recent Literature Related to Degenerative Cervical Myelopathy.

Fehlings MG, Evaniew N, Ter Wengel PV, Vedantam A, Guha D, Margetis K, Nouri A, Ahmed AI, Neal CJ, Davies BM, Ganau M, Wilson JR, Martin AR, Grassner L, Tetreault L, Rahimi-Movaghar V, Marco R, Harrop J, Guest J, Alvi MA, Pedro KM, Kwon BK, Fisher CG, Kurpad SN

pubmed logopapersJun 1 2025
Study DesignLiterature review of key topics related to degenerative cervical myelopathy (DCM) with critical appraisal and clinical recommendations.ObjectiveThis article summarizes several key current topics related to the management of DCM.MethodsRecent literature related to the management of DCM was reviewed. Four articles were selected and critically appraised. Recommendations were graded as Strong or Conditional.ResultsArticle 1: The Relationship Between pre-operative MRI Signal Intensity and outcomes. <b>Conditional</b> recommendation to use diffusion-weighted imaging MR signal changes in the cervical cord to evaluate prognosis following surgical intervention for DCM. Article 2: Efficacy and Safety of Surgery for Mild DCM. <b>Conditional</b> recommendation that surgery is a valid option for mild DCM with favourable clinical outcomes. Article 3: Effect of Ventral vs Dorsal Spinal Surgery on Patient-Reported Physical Functioning in Patients With Cervical Spondylotic Myelopathy: A Randomized Clinical Trial. <b>Strong</b> recommendation that there is equipoise in the outcomes of anterior vs posterior surgical approaches in cases where either technique could be used. Article 4: Machine learning-based cluster analysis of DCM phenotypes. <b>Conditional</b> recommendation that clinicians consider pain, medical frailty, and the impact on health-related quality of life when counselling patients.ConclusionsDCM requires a multidimensional assessment including neurological dysfunction, pain, impact on health-related quality of life, medical frailty and MR imaging changes in the cord. Surgical treatment is effective and is a valid option for mild DCM. In patients where either anterior or posterior surgical approaches can be used, both techniques afford similar clinical benefit albeit with different complication profiles.

Extracerebral Normalization of <sup>18</sup>F-FDG PET Imaging Combined with Behavioral CRS-R Scores Predict Recovery from Disorders of Consciousness.

Guo K, Li G, Quan Z, Wang Y, Wang J, Kang F, Wang J

pubmed logopapersJun 1 2025
Identifying patients likely to regain consciousness early on is a challenge. The assessment of consciousness levels and the prediction of wakefulness probabilities are facilitated by <sup>18</sup>F-fluorodeoxyglucose (<sup>18</sup>F-FDG) positron emission tomography (PET). This study aimed to develop a prognostic model for predicting 1-year postinjury outcomes in prolonged disorders of consciousness (DoC) using <sup>18</sup>F-FDG PET alongside clinical behavioral scores. Eighty-seven patients with prolonged DoC newly diagnosed with behavioral Coma Recovery Scale-Revised (CRS-R) scores and <sup>18</sup>F-FDG PET/computed tomography (18F-FDG PET/CT) scans were included. PET images were normalized by the cerebellum and extracerebral tissue, respectively. Images were divided into training and independent test sets at a ratio of 5:1. Image-based classification was conducted using the DenseNet121 network, whereas tabular-based deep learning was employed to train depth features extracted from imaging models and behavioral CRS-R scores. The performance of the models was assessed and compared using the McNemar test. Among the 87 patients with DoC who received routine treatments, 52 patients showed recovery of consciousness, whereas 35 did not. The classification of the standardized uptake value ratio by extracerebral tissue model demonstrated a higher specificity and lower sensitivity in predicting consciousness recovery than the classification of the standardized uptake value ratio by cerebellum model. With area under the curve values of 0.751 ± 0.093 and 0.412 ± 0.104 on the test sets, respectively, the difference is not statistically significant (P = 0.73). The combination of standardized uptake value ratio by extracerebral tissue and computed tomography depth features with behavioral CRS-R scores yielded the highest classification accuracy, with area under the curve values of 0.950 ± 0.027 and 0.933 ± 0.015 on the training and test sets, respectively, outperforming any individual mode. In this preliminary study, a multimodal prognostic model based on <sup>18</sup>F-FDG PET extracerebral normalization and behavioral CRS-R scores facilitated the prediction of recovery in DoC.

A Survey of Surrogates and Health Care Professionals Indicates Support of Cognitive Motor Dissociation-Assisted Prognostication.

Heinonen GA, Carmona JC, Grobois L, Kruger LS, Velazquez A, Vrosgou A, Kansara VB, Shen Q, Egawa S, Cespedes L, Yazdi M, Bass D, Saavedra AB, Samano D, Ghoshal S, Roh D, Agarwal S, Park S, Alkhachroum A, Dugdale L, Claassen J

pubmed logopapersJun 1 2025
Prognostication of patients with acute disorders of consciousness is imprecise but more accurate technology-supported predictions, such as cognitive motor dissociation (CMD), are emerging. CMD refers to the detection of willful brain activation following motor commands using functional magnetic resonance imaging or machine learning-supported analysis of the electroencephalogram in clinically unresponsive patients. CMD is associated with long-term recovery, but acceptance by surrogates and health care professionals is uncertain. The objective of this study was to determine receptiveness for CMD to inform goals of care (GoC) decisions and research participation among health care professionals and surrogates of behaviorally unresponsive patients. This was a two-center study of surrogates of and health care professionals caring for unconscious patients with severe neurological injury who were enrolled in two prospective US-based studies. Participants completed a 13-item survey to assess demographics, religiosity, minimal acceptable level of recovery, enthusiasm for research participation, and receptiveness for CMD to support GoC decisions. Completed surveys were obtained from 196 participants (133 health care professionals and 63 surrogates). Across all respondents, 93% indicated that they would want their loved one or the patient they cared for to participate in a research study that supports recovery of consciousness if CMD were detected, compared to 58% if CMD were not detected. Health care professionals were more likely than surrogates to change GoC with a positive (78% vs. 59%, p = 0.005) or negative (83% vs. 59%, p = 0.0002) CMD result. Participants who reported religion was the most important part of their life were least likely to change GoC with or without CMD. Participants who identified as Black (odds ratio [OR] 0.12, 95% confidence interval [CI] 0.04-0.36) or Hispanic/Latino (OR 0.39, 95% CI 0.2-0.75) and those for whom religion was the most important part of their life (OR 0.18, 95% CI 0.05-0.64) were more likely to accept a lower minimum level of recovery. Technology-supported prognostication and enthusiasm for clinical trial participation was supported across a diverse spectrum of health care professionals and surrogate decision-makers. Education for surrogates and health care professionals should accompany integration of technology-supported prognostication.

Alzheimer's disease prediction using 3D-CNNs: Intelligent processing of neuroimaging data.

Rahman AU, Ali S, Saqia B, Halim Z, Al-Khasawneh MA, AlHammadi DA, Khan MZ, Ullah I, Alharbi M

pubmed logopapersJun 1 2025
Alzheimer's disease (AD) is a severe neurological illness that demolishes memory and brain functioning. This disease affects an individual's capacity to work, think, and behave. The proportion of individuals suffering from AD is rapidly increasing. It flatters a leading cause of disability and impacts millions of people worldwide. Early detection reduces disease expansion, provides more effective therapies, and leads to better results. However, predicting AD at an early stage is complex since its clinical symptoms match with normal aging, mild cognitive impairment (MCI), and neurodegenerative disorders. Prior studies indicate that early diagnosis is improved by the utilization of magnetic resonance imaging (MRI). However, MRI data is scarce, noisy, and extremely diverse among scanners and patient populations. The 2D CNNs analyze 3D data slices separately, resulting in a loss of inter-slice information and contextual coherence required to detect subtle and diffuse brain alterations. This study offered a novel 3Dimensional-Convolutional Neural Network (3D-CNN) and intelligent preprocessing pipeline for AD prediction. This work uses an intelligent frame selection and 3D dilated convolutions mechanism to recognize the most informative slices associated with AD disease. This enabled the model to capture subtle and diffuse structural changes across the brain visible in MRI scans. The proposed model examined brain structures by recognizing small volumetric changes associated with AD and acquiring spatial hierarchies within MRI data. After conducting various experiments, we observed that the proposed 3D-CNNs are highly proficient in capturing early brain changes. To validate the model's performance, a benchmark dataset called AD Neuroimaging Initiative (ADNI) is used and achieves a maximum accuracy of 92.89 %, outperforming state-of-the-art approaches.
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