Bio-Inspired Metaheuristics in Deep Learning for Brain Tumor Segmentation: A Decade of Advances and Future Directions
Abstract
1. Introduction
- A systematic literature collection and screening based on PRISMA criteria;
- A comparative evaluation of optimization methods in terms of segmentation metrics (e.g., Dice Similarity Coefficient, Jaccard Index, Hausdorff Distance);
- An exploration of algorithmic integration roles—from hyperparameter tuning to architecture search;
- A discussion on the limitations and future challenges, including generalization, interpretability, and clinical adaptation;
- A forward-looking synthesis on trends such as explainable AI, transformer optimization, and ensemble metaheuristics.
2. Search Methodology and Screening Strategy
2.1. Data Sources and Query Design
- Query 1: “brain tumor segmentation” AND (“PSO” OR “particle swarm optimization” OR “GA” OR “genetic algorithm”) AND (“deep learning” OR “U-Net” OR “CNN”).
- Query 2: “brain tumor segmentation” AND (“differential evolution” OR “DE” OR “ACO” OR “ant colony optimization” OR “ABC”) AND (“deep learning” OR “U-Net”).
- Query 3: “brain tumor segmentation” AND (“GWO” OR “grey wolf optimizer” OR “WOA” OR “whale optimization” OR “HHO” OR “SIO”) AND (“CNN” OR “U-Net”).
- Query 4: “brain tumor segmentation” AND (“hybrid metaheuristic” OR “neuroevolution” OR “bio-inspired optimization”) AND (“deep learning” OR “transformer”).
- Query 5: “brain tumor segmentation” AND (“metaheuristic” OR “bio-inspired algorithm”) AND (“deep learning” OR “CNN” OR “U-Net”).
- Query 1 focused on two of the most widely adopted metaheuristic algorithms—Particle Swarm Optimization (PSO) and Genetic Algorithm (GA)—commonly applied in hyperparameter tuning and architecture refinement of convolutional neural networks;
- Query 2 extended the coverage to include Differential Evolution (DE), Ant Colony Optimization (ACO), and Artificial Bee Colony (ABC)—noted for their application in feature selection, image enhancement, and adaptive control mechanisms;
- Query 3 emphasized more recent and biologically inspired algorithms such as Grey Wolf Optimizer (GWO), Whale Optimization Algorithm (WOA), Harris Hawks Optimization (HHO), and Swan-Inspired Optimization (SIO)—many of which have gained traction in the past five years;
- Query 4 targeted hybrid metaheuristics and neuroevolutionary strategies, particularly those integrated with transformer-based or attention-guided architectures, which require more dynamic and synergistic optimization techniques;
- Query 5 served as a general search filter to capture publications referring to broader terms like “metaheuristic” or “bio-inspired algorithm”, ensuring coverage of novel or unnamed optimization strategies.
2.2. Inclusion and Exclusion Criteria
2.2.1. Inclusion Criteria
2.2.2. Exclusion Criteria
2.2.3. Screening Procedure
2.3. Study Selection Process
3. Results and Analysis
3.1. Bibliometric Analysis
3.1.1. Publication Trend over Time
3.1.2. Leading Publication Venues
3.1.3. Author Collaboration Networks
3.1.4. Keyword Co-Occurrence Structure
3.2. Temporal and Geographic Trends
3.2.1. Temporal Trends in Research Activity
3.2.2. Geographic Trends via Journal Publishing Sources
3.2.3. Limitations and Considerations
3.3. Metaheuristic Approaches and Application Domains
3.3.1. Underlying Mechanisms of Metaheuristics
- PSO: Agents (particles) move through a solution space, updating velocity and position based on local and global best experiences—ideal for fast, low-cost optimization.
- GA: Population-based method using selection, crossover, and mutation to evolve solutions—effective in discovering optimal architectures and hyperparameters.
- DE: Relies on mutation from difference vectors of population candidates, offering robust exploration and convergence, particularly in continuous domains.
- ACO: Inspired by ant foraging behavior and pheromone trails—best used for thresholding or path selection in segmentation maps.
- GWO: Mimics hunting strategies and hierarchical behavior of grey wolves to balance exploration and exploitation in model refinement.
- WOA: Simulates spiral bubble-net hunting of humpback whales—effective for fine-tuning feature interactions and modality fusion.
- HHO: Models surprise-pounce behaviors, combining stochastic moves and adaptive transitions—ideal for deep layer tuning or complex structural adaptation.
3.3.2. Diversity and Evolution of Metaheuristic Techniques
3.3.3. Metaheuristic Usage Statistics
3.3.4. Optimization Targets in the Segmentation Pipeline
- Hyperparameter Tuning: Metaheuristics are widely applied to optimize learning rates, kernel sizes, and network depths in CNN and U-Net models, improving segmentation accuracy and training efficiency [52,121]. For instance, Harris Hawks Optimization (HHO) and Differential Evolution (DE) have been used to tune network parameters, resulting in improved accuracy and reduced error rates [121,122].
- Preprocessing and Image Enhancement: Algorithms such as PSO, ACO, and ABC are used to optimize image contrast and segmentation thresholds, resulting in improved tumor boundary delineation [121,123,124]. These approaches enhance image quality through optimized preprocessing, leading to sharper and more accurate segmentations [22,34,125].
- Architecture Search and Layer Adaptation: Evolutionary algorithms, including Genetic Algorithms and neuroevolutionary strategies, are employed to discover optimal encoder–decoder structures, enhancing model generalizability and robustness, especially in cross-dataset and multimodal scenarios [29,122,126,127,128].
- Multimodal Data Fusion and Attention Optimization: Some studies utilize metaheuristics to tune fusion weights in multimodal MRI or optimize attention modules, supporting better segmentation performance in heterogeneous datasets [105,129,130]. Hybrid metaheuristic–deep learning frameworks have demonstrated improved tumor delineation and segmentation quality in complex imaging tasks [131].
3.3.5. Algorithm-Specific Achievements
- PSO: Widely applied due to its low computational cost and fast convergence. PSO-based brain tumor segmentation methods have consistently achieved Dice Similarity Coefficients (DSC) above 92% in numerous studies, particularly when combined with preprocessing or learning rate tuning. For example, Saifullah and Dreżewski (2025) reported DSCs of 95.78% and 95.23% on BraTS 2019 using PSO-optimized U-Net models [16]. Other works confirm DSC values exceeding 92% across various MRI datasets [23,24,132,133].
- GA: Known for robust search capabilities in neural architecture evolution and hyperparameter tuning. Several GA-based studies report improved accuracy above 0.90 on unseen datasets, with minimized overfitting. For instance, Genetic Algorithm-enhanced CNNs achieved classification accuracies exceeding 90% on BRATS datasets [25,26,121].
- GWO and HHO: Grey Wolf Optimizer (GWO) and Harris Hawks Optimization (HHO) have demonstrated stable and reliable optimization results in attention-guided segmentation frameworks. GWO, in particular, has shown consistent boundary preservation for irregular tumor shapes, improving segmentation robustness in multi-modal MRI [45,57,88,134]. HHO-based CNNs have achieved up to 98% accuracy and improved edge detail retention [135,136].
- Hybrid Approaches: Emerging studies combining metaheuristics (e.g., PSO-GA, DE-ABC) report synergistic gains by leveraging GA’s crossover operations alongside PSO’s velocity updates. These hybrids have improved DSC by 3–6 p.p. (percentage points) compared to single-method approaches, enhancing both segmentation accuracy and convergence speed [71,124,137,138].
3.3.6. Recent Advancements in Metaheuristic-Optimized Segmentation Models
3.3.7. Application Domains and Dataset Usage
3.3.8. Summary
3.4. Evaluation Metrics and Model Performance
3.5. Emerging Trends and Gaps in Metaheuristic Brain Tumor Segmentation
3.5.1. Emerging Trends
- Hybrid Metaheuristics and Ensemble Learning: A notable shift toward combining multiple optimization strategies (e.g., PSO-GA, DE-ABC, WOA-GWO) has been observed to improve convergence robustness, solution diversity, and global search behavior. These hybrids often yield superior DSC and JI metrics compared to single algorithms, particularly in datasets with complex or imbalanced tumor patterns [28,93,109,116].
- Transformer and Attention Integration: Recent studies increasingly embed metaheuristics into attention-driven architectures (e.g., transformer-based U-Nets), tuning spatial attention modules or optimizing attention maps in multimodal MRI segmentation tasks. This integration leads to better delineation of tumor substructures [54,58].
- Multi-Objective Optimization (MOO): Several frameworks now adopt MOO to simultaneously optimize trade-offs such as accuracy vs. training cost, or DSC vs. boundary error. This trend reflects a more realistic modeling of clinical demands, where multiple objectives must be satisfied concurrently [65,139,140].
- Self-Adaptive Mechanisms and Online Optimization: A small but growing number of algorithms incorporate dynamic parameter tuning, allowing learning rates, population sizes, or search space bounds to evolve during training. These methods improve adaptability to diverse datasets and reduce the need for manual configuration [16].
- Integration with Federated and Distributed Learning: As MRI datasets become larger and privacy-sensitive, metaheuristics are being investigated in federated learning settings where local model updates are optimized at client nodes, with metaheuristics ensuring consistency and global convergence [141,142].
3.5.2. Current Gaps and Research Opportunities
- Reproducibility and Benchmarking: A significant number of studies lack publicly available code or standard validation protocols, making reproducibility difficult. Benchmark datasets such as BraTS are underused in some studies, limiting cross-study comparisons.
- Computational Efficiency: Metaheuristic optimization, particularly in deep networks, incurs high training costs due to repeated evaluations of large models. Future work should explore surrogate-assisted or gradient-informed metaheuristics to reduce computational demand.
- Clinical Validation and Interpretability: Few studies validate segmentation quality through radiologist interpretation or clinical outcomes. The interpretability of optimization decisions—why certain hyperparameters or layers are selected—also remains underexplored.
- Generalization Across Institutions: Most models are validated within single datasets, raising concerns about cross-site generalizability. Incorporating domain adaptation and robustness measures into the optimization pipeline is essential.
- Limited Use of 3D Volumetric Optimization: While many methods operate on 2D slices, fewer employ fully 3D metaheuristic-optimized pipelines, which are critical for capturing full tumor context and improving continuity across slices.
3.5.3. Computational Cost Considerations
3.5.4. Summary
3.6. Use-Case Guidelines and Applicability
- PSO is best suited for tasks requiring fast convergence and low computational overhead, such as learning rate tuning or contrast enhancement;
- GA is effective in architecture search and layer configuration, particularly when diversity in candidate solutions is essential;
- DE performs well in high-dimensional tuning and convergence-critical scenarios, such as multimodal fusion weight optimization;
- ACO and ABC are most applicable in discrete optimization tasks like thresholding and feature selection;
- GWO and HHO are better aligned with spatial refinement tasks, such as edge preservation and attention tuning in complex segmentation;
- Hybrid methods (e.g., PSO-GA, DE-ABC) are powerful when optimizing multiple objectives simultaneously, particularly in joint preprocessing-architecture workflows.
4. Discussion
4.1. Insights from the Literature Synthesis
4.2. Impact on the Field of Brain Tumor Segmentation
4.3. Potential Future Research Directions
- 3D Volumetric and Temporal Optimization: Extend current methods to fully volumetric and longitudinal data by optimizing 3D U-Net or time-series-based architectures using metaheuristics that preserve spatial–temporal continuity [143].
- Domain Adaptation and Cross-Institutional Generalization: Incorporate robustness-driven objective functions into metaheuristic pipelines to facilitate adaptation across imaging devices, protocols, or institutional datasets.
- Metaheuristic Benchmarking Frameworks: Establish standardized platforms for benchmarking metaheuristic-optimized segmentation pipelines using publicly available datasets, unified protocols, and open-source implementations.
- Neuromorphic and Bio-Plastic Algorithms: Explore brain-inspired models such as spiking neural networks or plasticity-driven search heuristics to model adaptive segmentation behavior in evolving imaging contexts.
4.4. Conclusions of the Discussion
5. Conclusions
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Conflicts of Interest
Abbreviations
AI | Artificial Intelligence |
ACO | Ant Colony Optimization |
ABC | Artificial Bee Colony |
ASSD | Average Symmetric Surface Distance |
CNN | Convolutional Neural Network |
CJHBA | Chronological Jaya Honey Badger Algorithm |
DE | Differential Evolution |
DSC | Dice Similarity Coefficient |
FLAIR | Fluid-Attenuated Inversion Recovery |
GA | Genetic Algorithm |
GWO | Grey Wolf Optimizer |
HD | Hausdorff Distance |
HHO | Harris Hawks Optimization |
MRI | Magnetic Resonance Imaging |
PSO | Particle Swarm Optimization |
PRISMA | Preferred Reporting Items for Systematic Reviews and Meta-Analyses |
RNN | Recurrent Neural Network |
SIO | Swan-Inspired Optimization |
TAO | Transformational Ant Optimization |
T1 | T1-weighted MRI |
T1CE/T1Gd | T1 Contrast-Enhanced/Gadolinium-enhanced MRI |
T2 | T2-weighted MRI |
U-Net | U-shaped Convolutional Neural Network |
WOA | Whale Optimization Algorithm |
HybWWoA | Hybrid Whale-Wasp Optimization Algorithm |
SLR | Systematic Literature Review |
JI | Jaccard Index |
Appendix A. Filtering Process and Article Selection Summary
Filtering Stage | Description | Articles Remaining |
---|---|---|
Initial Records Retrieved | Total articles retrieved from Scopus and Google Scholar using 5 structured queries | 3895 |
After Duplicate Removal | Duplicates removed based on normalized titles across datasets | 2553 |
Brain Tumor Segmentation in Title | Articles containing “brain tumor segmentation” in the title | 634 |
Matched Brain Tumor MRI Keywords | Articles with MRI modality mentions (e.g., FLAIR, T1, T1CE/T1Gd, T2) in title/abstract | 634 |
Removed Review/Survey/Overview Articles | Excluded reviews, surveys, or non-experimental studies | 587 |
Removed Retracted and Non-Academic Sources | Excluded preprints and sources like arXiv, ResearchGate, Academia.edu | 586 |
Filtered for Bio-Inspired Metaheuristic Use | Articles referencing metaheuristics (e.g., PSO, GA, DE, ACO, GWO) in title/abstract | 184 |
Final Articles After Manual Screening | Final set of articles that explicitly applied bio-inspired metaheuristic optimization methods | 106 |
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Method | Accuracy (%) | F1-Score (%) | Precision (%) | Sensitivity (%) | JI (%) | ASSD (px) |
---|---|---|---|---|---|---|
BioSwarmNet [37] | 99.12 | – | – | 98.62 | – | – |
HybWWoA [38] | 92.1 | 97.0 | 98.5 | 92.1 | – | – |
TAO+ResUNet [39] | – | – | – | – | 89.95 | 2.08 |
CJHBA+DRN [40] | 92.10 | – | – | 93.13 | – | – |
Metaheuristic Algorithm | Optimization Role | Performance Highlights |
---|---|---|
PSO (Particle Swarm Optimization) | Hyperparameter tuning, contrast enhancement | DSC > 0.92 in 12+ studies |
GA (Genetic Algorithm) | Architecture evolution, layer configuration | Accuracy > 0.90 in generalization tests |
DE (Differential Evolution) | Learning rate and parameter fine-tuning | 40% training epoch reduction; DSC increase |
ACO (Ant Colony Optimization) | Threshold optimization, feature selection | 18% CNR gain; precise delineation |
ABC (Artificial Bee Colony) | Preprocessing and image enhancement | Improved contrast & segmentation clarity |
GWO (Grey Wolf Optimizer) | Attention tuning, boundary refinement | Stable core/edema segmentation with improved DSC |
WOA (Whale Optimization Algorithm) | Segmentation weight optimization | Enhanced multimodal segmentation fidelity |
HHO (Harris Hawks Optimization) | Core/edema region convergence improvement | Effective for complex tumor geometry |
Hybrid (e.g., PSO-GA) | Combined strengths of multiple methods | DSC increase by 3–6% over individual techniques |
Algorithm | Primary Role in Segmentation | Strengths | Best Used For | Computational Cost |
---|---|---|---|---|
PSO (Particle Swarm Optimization) | Hyperparameter tuning, image preprocessing | Fast convergence, simple to implement | Learning rate tuning, contrast enhancement | Low |
GA (Genetic Algorithm) | Architecture search, parameter tuning | Good global exploration via crossover | Network architecture design, dropout tuning | Medium |
DE (Differential Evolution) | Fine-grained optimization of parameters | Stable convergence in continuous spaces | Layer-wise filter tuning, fusion weight tuning | Medium |
ACO (Ant Colony Optimization) | Thresholding, feature selection | Good for discrete/ path problems | Preprocessing, segmentation thresholding | Medium–High |
GWO (Grey Wolf Optimizer) | Boundary refinement, attention tuning | Preserves spatial structure, robust search | Edema/tumor boundary segmentation | Medium |
WOA (Whale Optimization Algorithm) | Modality fusion, feature tuning | Effective spiral search strategy | Fusion layer parameterization, complex interactions | Medium |
HHO (Harris Hawks Optimization) | Global-local balance, deep tuning | Aggressive exploration/ exploitation mix | Deep encoder tuning, attention weight optimization | High |
Hybrid (e.g., PSO-GA, DE-ABC) | Ensemble optimization, adaptive learning | Combines strengths of multiple methods | Architecture + preprocessing joint optimization | High |
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Saifullah, S.; Dreżewski, R.; Yudhana, A.; Caesarendra, W.; Huda, N. Bio-Inspired Metaheuristics in Deep Learning for Brain Tumor Segmentation: A Decade of Advances and Future Directions. Information 2025, 16, 456. https://doi.org/10.3390/info16060456
Saifullah S, Dreżewski R, Yudhana A, Caesarendra W, Huda N. Bio-Inspired Metaheuristics in Deep Learning for Brain Tumor Segmentation: A Decade of Advances and Future Directions. Information. 2025; 16(6):456. https://doi.org/10.3390/info16060456
Chicago/Turabian StyleSaifullah, Shoffan, Rafał Dreżewski, Anton Yudhana, Wahyu Caesarendra, and Nurul Huda. 2025. "Bio-Inspired Metaheuristics in Deep Learning for Brain Tumor Segmentation: A Decade of Advances and Future Directions" Information 16, no. 6: 456. https://doi.org/10.3390/info16060456
APA StyleSaifullah, S., Dreżewski, R., Yudhana, A., Caesarendra, W., & Huda, N. (2025). Bio-Inspired Metaheuristics in Deep Learning for Brain Tumor Segmentation: A Decade of Advances and Future Directions. Information, 16(6), 456. https://doi.org/10.3390/info16060456