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ahmedhesham47/README.md

Hi there! 👋 I'm Ahmed Saadawy

Typing SVG

🧬 About Me

  • 🎓 PhD Student in Molecular & Computational Biology @ University of Southern California
  • 🔬 Graduate Research Assistant at CSI-Cancer — bridging liquid biopsy with computational biology
  • 🎓 BSc in Computational Biology & Genomics (Minor: Information Engineering) from Zewail City for Science and Technology
  • 🚀 Current research: Identifying rare cell populations in multiple myeloma using the HDSCA platform & developing multi-modal predictive models for clinical outcomes

🔍 Research Interests

  • 🧬 Liquid Biopsy — cfDNA, ctDNA, fragmentomics, circulating tumor cells
  • 🧠 AI for Biology — interpretable ML/DL methods for biological data
  • 🧪 Systems Biology — network biology, cellular self-organization, virtual cell modeling
  • 🩺 Cancer Biology & Immunology — multiple myeloma heterogeneity, immunotherapy, tumor immune microenvironments

📚 Publications & Projects

📖 Publication 📖 Journal 🧪 Repository
AI in Healthcare: Using Bayesian Networks to Predict Response to Immune Checkpoint Blockades IEEE Xplore Bayesian Networks for ICB
The landscape of cyclin-dependent kinase 4/6 inhibitors in solid malignancies: Emphasis on immunotherapy combinatorial strategies Medical Oncology CDK4_6-Inhibitors-In-silico-Analysis

💻 Languages

Python R C++ SQL MATLAB Bash

🛠️ Tech Tools

GitHub Jupyter VS Code SciPy Tmux SLURM HPC scikit-learn PyTorch

🗄️ Bioinformatics Databases

NCBI GEO KEGG 1000 Genomes ClinVar Protein Data Bank UniProt PubChem Human Protein Atlas GTEx The Cancer Genome Atlas

🔬 Bioinformatics Tools

PyMol Cytoscape STRING CIBERSORTx xCell BLAST COBRApy treeWAS maftools UCSC Genome Browser DESeq2 limma Bioconductor g:Profiler AlphaFold Waltz IUPred2A Escher AMDock Reactome

📈 Profile Visitors

Visitor Count

📊 GitHub Achievements

GitHub Achievements

🌍 Outside of Work

📫 Reach Me

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💡 “The best way to predict the future is to create it.”

Pinned Loading

  1. IMPACT IMPACT Public

    Forked from ComputationalBiologyLab/Predicting-Immune-Checkpoint-Blockade-Response-A-Multi-Omics-Based-Machine-Learning-Framework

    Repository for the publication: Integrative Multiomics Pipeline for Analysis of Checkpoint Therapy

    Jupyter Notebook 1

  2. Bayesian-Networks-for-Predicting-ICB-Response Bayesian-Networks-for-Predicting-ICB-Response Public

    Employing Bayesian Networks to quantify the probability of ICB response based on transcriptomic profiles

    Jupyter Notebook 2

  3. Genetic-Algorithms-for-Feature-Selection Genetic-Algorithms-for-Feature-Selection Public

    This project aims to utilize genetic algorithms for selecting a subset of features that maximize the classification accuracy for supervised machine learning tasks.

    Jupyter Notebook 2

  4. BreakHis-DL-Image-Classification BreakHis-DL-Image-Classification Public

    This project aims to classify breast cancer into one of eight subtypes based on the BreakHist dataset that contains around 8000 images using transfer learning techniques, Squeeze-and-Excite attenti…

    Jupyter Notebook 1 1

  5. PyAA PyAA Public

    A package that analyzes protein sequences, predicts secondary structure based on dihedral angles/Ramachandran plots and Chou and Fasman's statistical propensity method, among other cool things!

    Python 1

  6. PPIer PPIer Public

    Protein-Protein Interactions Network

    C++ 1