This repository contains my personal notes, analysis reports, project materials, and summariesfrom three research major training events in 2024. It highlights hands-on experience in bioinformatics for neuro-oncology, neurotechnology, and biodiversity genomics, developed alongside my M.Sc. in Biochemistry and Molecular Biology.
| Training/Event | Institution / Organizer | Dates | Folder Link |
|---|---|---|---|
| BioHack I Hackathon 2024 | German International University (GIU), Cairo, Egypt | June 2024 | Folder |
| Ibn Sina Neurotech Summer School 2024 | The American University in Cairo, School of Sciences & Engineering | September 2024 | Folder |
| African BioGenome Project 2024 | Mohammed V University & Nile University, North Africa | November 2024 | Folder |
Research-Trainings-2024/
│
├── README.md # Main repository README: overview of all trainings, projects, and skills gained
│
├── BioHack-I-Hackathon-2024/
│ ├── README.md # Overview of the hackathon, challenges, objectives, and key skills acquired
│ ├── Event-Notes.md # Detailed session notes, highlights from lectures, mentorship, and workshops
│ └── Challenge/ # Contains files related to the main hackathon challenge
│ ├── README.md # Overview of the challenge
│ ├── Challenge12_Analysis_Report.md # challenge analysis report
│ └── Challenge12_Project.pdf # Final presentation summarizing methods, results, and conclusions
│
├── Ibn-Sina-Neurotech-Summer-School-2024/
│ ├── README.md # Overview of the summer school, project description, and skills gained
│ ├── Event-Notes/ # Day-wise detailed session notes
│ │ ├── README.md # Summary of all event notes
│ │ ├── Event-Notes-Day1.md # Day 1: Introduction to neurotechnology, EEG basics, SSVEP, P300
│ │ ├── Event-Notes-Day2.md # Day 2: EEG preprocessing, ICA, artifact removal
│ │ ├── Event-Notes-Day3.md # Day 3: Feature extraction, ERP & SSVEP analysis
│ │ ├── Event-Notes-Day4.md # Day 4: Machine learning (CCA, SVM) on EEG data
│ │ └── Event-Notes-Day5.md # Day 5: Ethics, future directions, project presentations
│ └── Project/ # EEG analysis project folder with reproducible workflow
│ ├── README.md # Overview of the project
│ ├── SSVEP-CCA-Analysis-Report.md # Main EEG project report: preprocessing, CCA analysis, results
│ ├── presentation/ # Folder containing project presentation slides
│ │ └── SSVEP-CCA-Project-Presentation.pdf
│ ├── scripts/ # Analysis scripts and notebooks
│ │ └── SSVEP_CCA_Analysis_Project_Notebook.ipynb
│ ├── results/ # Final analysis results in tabular form
│ │ └── cca_ssvep_results.xls
│ ├── figures/ # Visualizations supporting analysis and results
│ │ ├── accuracy_boxplot.png # Accuracy comparison across subjects
│ │ ├── accuracy_per_subject.png # Accuracy per individual subject
│ │ ├── confusion_matrix_last_subject.png # Confusion matrix for last subject
│ │ ├── max_cca_corr_hist_last_subject.png # Histogram of max CCA correlation values
│ │ ├── sample_eeg_signal.png # Example EEG signal from dataset
│ │ └── true_vs_predicted_labels.png # Plot comparing true vs predicted labels
│ └── data/ # EEG data for all subjects (MATLAB .mat files)
│ ├── s1.mat
│ ├── s2.mat
│ ├── s3.mat
│ ├── s4.mat
│ ├── s5.mat
│ ├── s6.mat
│ ├── s7.mat
│ ├── s8.mat
│ ├── s9.mat
│ └── s10.mat
│
└── African-BioGenome-Training-2024/
├── README.md # Overview of the workshop, key insights, and skills acquired
└── Event-Notes/ # Detailed session notes from both online and onsite sessions
├── MohammedV-University-Workshop-EventNotes.md # Notes from online sessions at Mohammed V University, Rabat, Morocco
└── Nile-University-Workshop-EventNotes.md # Notes from onsite sessions at Nile University, Giza, Egypt
Contains notes, multi-omics analysis reports, and project presentation from the BioHack I Hackathon.
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README.md — Overview of the hackathon, challenge topic, objectives, and skills acquired.
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Event-Notes.md — Detailed session notes, including key lectures, workshops, mentorship sessions, and hackathon activities.
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Challenge/ — Contains the Data Analysis challenge work:
Challenge12_Analysis_Report.md— Complete analysis report for ChIP-seq datasets.Challenge12_Project.pdf— Presentation summarizing methodology, results, and conclusions.
Contains notes, project materials, and EEG analysis reports from the summer school.
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README.md — Overview of the summer school, hands-on project, and skills acquired.
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Event-Notes/ — Notes from each day:
Event-Notes-Day1.mdtoEvent-Notes-Day5.md— Day-wise summaries covering lectures, workshops, and tutorials.
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Project/ — EEG-based BCI project:
SSVEP-CCA-Analysis-Report.md— Main project report with analysis of EEG data.presentation/— PDF slides summarizing the project.scripts/— Jupyter Notebook containing preprocessing, feature extraction, and analysis code.results/— Excel files or other outputs generated from the project.figures/— Plots and visualizations supporting the analysis.data/— Raw EEG datasets for all subjects in.matformat.
Contains personal notes and summaries from the African BioGenome Project North Africa Workshop.
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README.md — Overview of the workshop, hybrid format, key concepts, and relevance to research.
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Event-Notes/ — Detailed session notes:
MohammedV-University-Workshop-EventNotes.md— Notes from online sessions at Mohammed V University, Rabat.Nile-University-Workshop-EventNotes.md— Notes from onsite sessions at Nile University, Cairo.
This folder documents hands-on genomics training, bioinformatics workflows, biodiversity applications, and computational tools, with clear educational and research relevance.
These trainings were selected to:
- Gain hands-on experience in Data analysis, EEG-based neurotechnology, and genomics
- Apply computational methods to biological and biomedical datasets
- Integrate theoretical knowledge with practical project workflows
- Enhance skills in data analysis, visualization, and scientific reporting
- Build a strong foundation for future Neuro-Oncology/Bioinformatics projects
As an M.Sc. candidate in Biochemistry & Molecular Biology, specializing in Molecular Cancer Biology and Bioinformatics, these trainings provided experience in:
- Data analysis and integration
- EEG signal processing and machine learning for BCI applications
- Genomic workflows in biodiversity and bioinformatics pipelines
- Scientific documentation, reproducible workflows, and collaborative research
- Skills transferable to cancer biomarker discovery, neuro-oncology research, and computational biology
- Bioinformatics Analysis: ChIP-seq, peak annotation, functional enrichment, GRN construction
- Neurotechnology & EEG Analysis: Signal preprocessing, feature extraction, machine learning (CCA), visualization
- Genomics & Biodiversity: Sequencing workflows, OTU analysis, taxonomic classification, bioinformatics pipelines
- Programming & Data Analysis: R programming, Python/Jupyter, MATLAB for EEG data, reproducible workflows
- Scientific Reporting & Presentation: Clear documentation, structured project reports, project presentations
- Collaboration & Mentorship: Working in teams, applying feedback, and communicating scientific findings
Mohamed H. Hussein — MSc Candidate, Biochemistry & Molecular Biology, Ain Shams University
- Actively participated in all three research trainings, attending lectures, workshops, and practical sessions.
- Independently compiled detailed event notes, project reports, and analysis workflows.
- Executed Data analyses, EEG-based project workflows, and bioinformatics pipelines.
- Organized all materials into well-structured GitHub folders to ensure clarity and reproducibility.
This repository contains summaries, notes, and projects and is part of the Research Trainings 2024 documentation.
Citation: Hussein, Mohamed H. (2025). Research Training 2024 [ Summary, Notes,and Project]. GitHub repository: https://github.com/Mohamed-H-Hussein/Research-Trainings-2024
Usage: Materials are for educational and non-commercial use, with proper citation. Training-provided materials remain under the copyright of original organizers.
This repository is licensed under the Creative Commons Attribution-NonCommercial 4.0 International License (CC BY-NC 4.0). Full license: https://creativecommons.org/licenses/by-nc/4.0/legalcode
© 2025 Mohamed H. Hussein