Maryam Nabil Al‐Berry
Current Organizations / Institutes
The organizations/institutes from the scholar's latest article
Research Subjects
Maryam Nabil Al‐Berry has a total of 20 co-authors. Here are the top co-authors by number of shared publications:
- Mohamed Fahmy Tolba
Faculty of Computer and Information Sciences, Ain Shams University, Cairo, Egypt
14 shared publications - Hala Moushier Ebbied
Faculty of Computer and Information Sciences, Ain Shams University, Cairo, Egypt
13 shared publications - Mohammed Abdel Megeed Salem
German University in Cairo
9 shared publications - Ashraf Saad Hussein
Ain Shams University
4 shared publications - Mayar Aly Shafaey
Ain Shams University
4 shared publications - Moshira S. Ghaleb
Ain Shams University
4 shared publications
Latest Publications
- Open Access
- 28 May 2026
- Published by Springer Nature in BMC Medical Informatics and Decision Making
- Vol. 26 (1)
A multi-sequence MRI integration framework using SwinUNETR-v2 for multiple sclerosis lesion segmentation
Multiple Sclerosis (MS) is a chronic brain disease that affects the brain and spinal cord, where Magnetic Resonance Imaging (MRI) plays a key role in diagn
- 28 May 2026
- Published by Springer Nature in BMC Medical Informatics and Decision Making
- Vol. 26 (1)
Open AccessA multi-sequence MRI integration framework using SwinUNETR-v2 for multiple sclerosis lesion segmentation
Multiple Sclerosis (MS) is a chronic brain disease that affects the brain and spinal cord, where Magnetic Resonance Imaging (MRI) plays a key role in diagn
- Open Access
- 5 January 2026
- Published by Elsevier in Journal of Genetic Engineering and Biotechnology
- Vol. 24 (1) , 100639
AI based multiomics integration for cancer diagnosis and prognosis
- 5 January 2026
- Published by Elsevier in Journal of Genetic Engineering and Biotechnology
- Vol. 24 (1) , 100639
Open AccessAI based multiomics integration for cancer diagnosis and prognosis
- Open Access
- 17 December 2025
- Published by Springer Nature in BMC Medical Research Methodology
- Vol. 26 (1)
A novel statistical feature selection framework for biomarker discovery and cancer classification via multiomics integration
Background: Early cancer diagnosis is essential for improving prognosis and guiding treatment. However, the high dimensionality and complexity of omics data present major challenges. Computational approaches that extract stable biomarkers and enable reliable classification across cancer types and stages are needed. Methods: A novel feature selection method, sDCFE (synergistic Discriminative Cluster-based Feature Extraction), was developed by extending Fisher-like variance analysis with a median absolute deviation (MAD) regularization term and a cluster separation component to enhance robustness and interpretability. Features selected by sDCFE were compared with those obtained from XGBoost, and the intersected set of 82 genes was evaluated through functional enrichment (KEGG, Reactome, GO BP), survival analysis (Kaplan–Meier, Cox regression), and biomarker novelty assessment against six external resources. Hybrid classification models integrating XGBoost, sDCFE, and deep learning were applied to pancancer classification, and the framework was further extended to lung squamous cell carcinoma (LUSC) staging using RNA-seq and methylation data. Results: The overlap between sDCFE and XGBoost yielded 82 candidate biomarkers enriched in cancer-related pathways, including cell cycle regulation, immune signalling, and DNA repair. Novelty assessment stratified these genes into established, emerging, and novel categories. Six genes—HFE2, LOC339674, SERINC2, SFTA3, SOX2OT, and ACPP—emerged as the most promising candidates, supported by enrichment and survival associations across multiple cancers. The hybrid model achieved near-perfect pancancer classification on TCGA (accuracy = 99.3%, MCC = 0.992, AUC = 1.0) and demonstrated strong generalizability on PCAWG (accuracy = 94%, MCC = 0.929, AUC = 0.997). In the LUSC staging task, multiomics integration improved classification performance: the CNN-based model reached 84% accuracy, while logistic regression applied to sDCFE-ranked features achieved 88.5% accuracy with superior calibration, highlighting the robustness of the selected features. Conclusion: sDCFE provides a principled extension of Fisher-like methods, enabling stable and interpretable biomarker selection. When combined with XGBoost and deep learning, the framework achieves highly accurate and biologically grounded cancer classification across both cancer types and stages. The identification of novel and prognostic biomarkers, including HFE2, LOC339674, SERINC2, SFTA3, SOX2OT, and ACPP, underscores its translational potential. These results position the framework as a promising precision oncology tool to support early diagnosis, risk stratification, and treatment decision-making.
- 17 December 2025
- Published by Springer Nature in BMC Medical Research Methodology
- Vol. 26 (1)
Open AccessA novel statistical feature selection framework for biomarker discovery and cancer classification via multiomics integration
Background: Early cancer diagnosis is essential for improving prognosis and guiding treatment. However, the high dimensionality and complexity of omics data present major challenges. Computational approaches that extract stable biomarkers and enable reliable classification across cancer types and stages are needed. Methods: A novel feature selection method, sDCFE (synergistic Discriminative Cluster-based Feature Extraction), was developed by extending Fisher-like variance analysis with a median absolute deviation (MAD) regularization term and a cluster separation component to enhance robustness and interpretability. Features selected by sDCFE were compared with those obtained from XGBoost, and the intersected set of 82 genes was evaluated through functional enrichment (KEGG, Reactome, GO BP), survival analysis (Kaplan–Meier, Cox regression), and biomarker novelty assessment against six external resources. Hybrid classification models integrating XGBoost, sDCFE, and deep learning were applied to pancancer classification, and the framework was further extended to lung squamous cell carcinoma (LUSC) staging using RNA-seq and methylation data. Results: The overlap between sDCFE and XGBoost yielded 82 candidate biomarkers enriched in cancer-related pathways, including cell cycle regulation, immune signalling, and DNA repair. Novelty assessment stratified these genes into established, emerging, and novel categories. Six genes—HFE2, LOC339674, SERINC2, SFTA3, SOX2OT, and ACPP—emerged as the most promising candidates, supported by enrichment and survival associations across multiple cancers. The hybrid model achieved near-perfect pancancer classification on TCGA (accuracy = 99.3%, MCC = 0.992, AUC = 1.0) and demonstrated strong generalizability on PCAWG (accuracy = 94%, MCC = 0.929, AUC = 0.997). In the LUSC staging task, multiomics integration improved classification performance: the CNN-based model reached 84% accuracy, while logistic regression applied to sDCFE-ranked features achieved 88.5% accuracy with superior calibration, highlighting the robustness of the selected features. Conclusion: sDCFE provides a principled extension of Fisher-like methods, enabling stable and interpretable biomarker selection. When combined with XGBoost and deep learning, the framework achieves highly accurate and biologically grounded cancer classification across both cancer types and stages. The identification of novel and prognostic biomarkers, including HFE2, LOC339674, SERINC2, SFTA3, SOX2OT, and ACPP, underscores its translational potential. These results position the framework as a promising precision oncology tool to support early diagnosis, risk stratification, and treatment decision-making.
- Open Access
- 28 May 2025
- Published by Springer Nature in Artificial Intelligence Review
- Vol. 58 (8) , 1-49
Multiple sclerosis classification and segmentation in neuroimaging MRI using different machine and deep learning techniques: a review
Multiple Sclerosis (MS) is a type of brain disease that affects both the brain and spinal cord. In order to diagnose MS, many modalities are used, including Magnetic Resonance Imaging (MRI). MRI modalities are noninvasive medical tests that provide physicians with detailed images containing essential details on the anatomy and physiology of the brain. Diagnosing with MRI of the brain is crucial since it is laborious, time-consuming, and, above all, prone to manual or human error. In the past ten years, Artificial Intelligence (AI)- based Computer Aided Diagnostic (CAD) tools have been increasingly popular due to their low manual error rate and ability to produce accurate and dependable findings for diagnosing Multiple Sclerosis (MS) using MRI neuroimaging modalities. Automated MS diagnosis in AI is performed using both traditional and contemporary AI. Machine Learning (ML) approaches, which rely on selecting and extracting features through trial and error, were utilized in classical AI. Meanwhile, modern AI uses Deep Learning (DL) techniques, which extract and select suitable features automatically, save time and are more efficient than standard classical ML approaches. In this work, we give a summary of recent automated MS diagnosis approaches that combine MRI neuroimaging modalities with ML and DL algorithms. Segmentation and classification are two of the main categories into which AI techniques for MS medical diagnosis can be roughly divided, where each one of them is divided based on whether a supervised learning, un-supervised learning or both are used together to get better analysis for MS diagnosis. We briefly discuss the related work in each category, and finally, we present the important drawbacks and challenges for each work as well as some proposed ideas that can solve the drawbacks and challenges faced.
- 28 May 2025
- Published by Springer Nature in Artificial Intelligence Review
- Vol. 58 (8) , 1-49
Open AccessMultiple sclerosis classification and segmentation in neuroimaging MRI using different machine and deep learning techniques: a review
Multiple Sclerosis (MS) is a type of brain disease that affects both the brain and spinal cord. In order to diagnose MS, many modalities are used, including Magnetic Resonance Imaging (MRI). MRI modalities are noninvasive medical tests that provide physicians with detailed images containing essential details on the anatomy and physiology of the brain. Diagnosing with MRI of the brain is crucial since it is laborious, time-consuming, and, above all, prone to manual or human error. In the past ten years, Artificial Intelligence (AI)- based Computer Aided Diagnostic (CAD) tools have been increasingly popular due to their low manual error rate and ability to produce accurate and dependable findings for diagnosing Multiple Sclerosis (MS) using MRI neuroimaging modalities. Automated MS diagnosis in AI is performed using both traditional and contemporary AI. Machine Learning (ML) approaches, which rely on selecting and extracting features through trial and error, were utilized in classical AI. Meanwhile, modern AI uses Deep Learning (DL) techniques, which extract and select suitable features automatically, save time and are more efficient than standard classical ML approaches. In this work, we give a summary of recent automated MS diagnosis approaches that combine MRI neuroimaging modalities with ML and DL algorithms. Segmentation and classification are two of the main categories into which AI techniques for MS medical diagnosis can be roughly divided, where each one of them is divided based on whether a supervised learning, un-supervised learning or both are used together to get better analysis for MS diagnosis. We briefly discuss the related work in each category, and finally, we present the important drawbacks and challenges for each work as well as some proposed ideas that can solve the drawbacks and challenges faced.
- 13 October 2024
- Published by Springer Nature
- p. 42-52
Lung Cancer Stages Classification Based on Differential Gene Expression and Deep Learning
- 13 October 2024
- Published by Springer Nature
- p. 42-52
Lung Cancer Stages Classification Based on Differential Gene Expression and Deep Learning
- 1 January 2024
- Published by Springer Nature
- p. 13-22
Ovarian Cancer Proteome Analysis and Biomarker Discovery Using Machine Learning
- 1 January 2024
- Published by Springer Nature
- p. 13-22
Ovarian Cancer Proteome Analysis and Biomarker Discovery Using Machine Learning
- 18 November 2022
- Published by Springer Nature
- p. 812-823
Data Driven 3D Reconstruction from 2D Images: A Review
- 18 November 2022
- Published by Springer Nature
- p. 812-823
Data Driven 3D Reconstruction from 2D Images: A Review
- Open Access
- 1 August 2022
- Published by Institute of Advanced Engineering and Science in Bulletin of Electrical Engineering and Informatics
- Vol. 11 (4) , 1959-1969
High capacity video hiding based on multi-resolution stationary wavelet transform and hybrid-matrix decomposition techniqueset Transform and hybrid-matrix decomposition techniques
Internet simplified digital data transferring. This data needs to be secured; so securing digital data becomes an important concern. Steganography provides security for data by inserting it into a cover and concealing it. In this paper, a steganography algorithm was introduced. This algorithm used the stationary wavelet transform (SWT) and اhybrid-matrix decomposition techniques, singular value decomposition (SVD) and QR factorization to conceal a video in another video. The algorithm performance was measured with reference to the peak signal to noise ratio (PSNR) and structural similarity index measure (SSIM) for the cover and the secret videos. The algorithm successfully hid a video in another cover video and both are of the same size; the hiding capacity was 100%. The algorithm achieved a SSIM that reached 0.97 and a high PSNR value that reached 68.8 proving that the imperceptibility of the proposed algorithm is very high. The comparative analysis shows that the suggested algorithm achieved higher imperceptibility than the other state-of-the-art algorithms regarding the average PSNR. The enhanced version of the proposed method was more robust against different types of attacks.
- 1 August 2022
- Published by Institute of Advanced Engineering and Science in Bulletin of Electrical Engineering and Informatics
- Vol. 11 (4) , 1959-1969
Open AccessHigh capacity video hiding based on multi-resolution stationary wavelet transform and hybrid-matrix decomposition techniqueset Transform and hybrid-matrix decomposition techniques
Internet simplified digital data transferring. This data needs to be secured; so securing digital data becomes an important concern. Steganography provides security for data by inserting it into a cover and concealing it. In this paper, a steganography algorithm was introduced. This algorithm used the stationary wavelet transform (SWT) and اhybrid-matrix decomposition techniques, singular value decomposition (SVD) and QR factorization to conceal a video in another video. The algorithm performance was measured with reference to the peak signal to noise ratio (PSNR) and structural similarity index measure (SSIM) for the cover and the secret videos. The algorithm successfully hid a video in another cover video and both are of the same size; the hiding capacity was 100%. The algorithm achieved a SSIM that reached 0.97 and a high PSNR value that reached 68.8 proving that the imperceptibility of the proposed algorithm is very high. The comparative analysis shows that the suggested algorithm achieved higher imperceptibility than the other state-of-the-art algorithms regarding the average PSNR. The enhanced version of the proposed method was more robust against different types of attacks.
- 29 May 2021
- Published by Springer Nature
- p. 66-74
Review on Supervised and Unsupervised Deep Learning Techniques for Hyperspectral Images Classification
- 29 May 2021
- Published by Springer Nature
- p. 66-74
Review on Supervised and Unsupervised Deep Learning Techniques for Hyperspectral Images Classification