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- # Detailed Publications and Research Contributions
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- ## BioFusionNet (2024)
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- **Full Title**: "BioFusionNet: Deep Learning-Based Survival Risk Stratification in ER+ Breast Cancer Through Multifeature and Multimodal Data Fusion"
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- **Journal**: IEEE Journal of Biomedical and Health Informatics
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- **Key Contributions**:
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- - Novel multimodal fusion architecture combining histopathology, genomics, and clinical data
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- - Attention-based feature selection for interpretability
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- - Superior performance compared to existing methods
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- - Clinical validation on large patient cohorts
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- **Technical Details**:
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- - Uses ResNet-based feature extraction for histopathology images
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- - Implements cross-attention mechanisms for data fusion
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- - Employs survival analysis with Cox proportional hazards
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- - Achieves C-index of 0.78 on validation datasets
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- **Impact**: This work provides clinicians with a comprehensive tool for patient risk assessment, enabling personalized treatment planning.
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- <!-- This is code for this paper -->
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- **GitHub**: [raktim-mondol/BioFusionNet](https://github.com/raktim-mondol/BioFusionNet)
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- ## hist2RNA (2023)
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- **Full Title**: "hist2RNA: An Efficient Deep Learning Architecture to Predict Gene Expression from Breast Cancer Histopathology Images"
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- **Journal**: Cancers
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- **Key Contributions**:
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- - Direct prediction of gene expression from tissue images
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- - Efficient architecture suitable for clinical deployment
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- - Identification of morphology-gene expression relationships
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- - Validation across multiple cancer datasets
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- **Technical Details**:
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- - Custom CNN architecture optimized for gene expression prediction
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- - Multi-task learning framework
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- - Attention mechanisms for spatial feature importance
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- - Correlation analysis with known biological pathways
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- **Impact**: Enables gene expression profiling without expensive molecular assays, making personalized medicine more accessible.
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- <!-- This is code for this paper -->
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- **GitHub**: [raktim-mondol/hist2RNA](https://github.com/raktim-mondol/hist2RNA)
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- ## AFExNet (2021)
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- **Full Title**: "AFExNet: An Adversarial Autoencoder for Differentiating Breast Cancer Sub-types and Extracting Biologically Relevant Genes"
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- **Journal**: IEEE/ACM Transactions on Computational Biology and Bioinformatics
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- **Key Contributions**:
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- - Adversarial training for robust feature learning
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- - Automatic biomarker discovery
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- - Cancer subtype classification
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- - Biologically interpretable features
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- **Technical Details**:
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- - Adversarial autoencoder architecture
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- - Gene selection based on reconstruction importance
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- - Validation on TCGA datasets
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- - Pathway enrichment analysis
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- **Impact**: Provides insights into cancer biology while achieving high classification accuracy.
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- <!-- This is code for this paper -->
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- **GitHub**: [raktim-mondol/breast-cancer-sub-types](https://github.com/raktim-mondol/breast-cancer-sub-types)
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- ## Ongoing Research
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- ### Multimodal Foundation Models
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- - Developing foundation models for medical imaging
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- - Pre-training on large-scale medical datasets
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- - Transfer learning for rare diseases
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- ### Ongoing Research
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- - Large Language Models (LLMs)
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- - Retrieval-Augmented Generation (RAG)
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- - Fine-tuning and domain adaptation
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- ### AI Ethics in Healthcare
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- - Bias detection and mitigation
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- - Fairness in medical AI
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- - Regulatory compliance frameworks