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Solving biological mysteries with code
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Solving biological mysteries with code

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KurayiChawatama/README.md

Hi 👋, I'm Kurayi Chawatama

Sophomore Molecular Biology & Genetics Student with a Passion for Bioinformatics and Systems Biology

  • 🌍 Proudly Zimbabwean 🇿🇼, Studying in Türkiye 🇹🇷

  • 🎯 Experience and Projects:

    • Bioinformatics and Wet lab Research in Cancer Biology: I am currently supporting various bioinformatics and wet lab tasks in Prof. Berrin Tunca's cancer research lab while leading an extramurally funded project under her guidance titled "Characterizing Tumor Microenvironment Transcriptome Variations in NASH and Viral Hepatocellular Carcinomas for Targeted Therapy"
    • Erasmus+ Funded Summer Research Position: Conducted research in Prof. Vicente Pelechano Garcia's lab at Karolinska Institutet/Scilifelab in Sweden, focusing on cancer stem cell heterogeneity in hepatocellular carcinoma. Developed a regression-based method to score transitioning cells and identify molecular signatures using CITE-seq data. Validated these findings in the TCGA-LIHC dataset, linking cell plasticity and drug-resistant populations to relapse risk and patient outcomes.
    • EU-Funded SUSA Internship Program: Accepted to the SUSA internship program within an EU-funded project in Asst. Prof. Burçak Otlu's lab at Middle East Technical University. Over the next month, I will help develop reproducible Nextflow pipelines for cancer genomics analyses using the lab's SigProfiler suite of tools for mutational signature extraction, assignment, and topography analysis within digital health research workflows.
    • Open Source Nextflow Pipeline Development: Contributor and core team member of nf-core/scdownstream, enhancing scRNA-seq analysis by developing new doublet detection modules (scDblFinder) and multispecies cell type annotation support. Fixed runtime errors during the March 2025 Hackathon and contributed documentation, including a blog post and tutorial guide on running nf-core pipelines in Google Colab as part of the outreach team. (See pinned repos)
    • scRNASeq Data Analysis: Worked as a summer intern at Asst. Prof. Atakan Ekiz's lab, focusing on cancer immunology-based gene expression profiling and transcriptomic insights from bulk and scRNA-seq data
    • DNA Methylation Data Analysis: Contributed to the Comprehensive Analysis of Promoter Methylation Effects on the GPRC5A Methylation Profile Across Various Cancer Types, investigating the impact of promoter methylation on cancer-associated gene expression
    • Development of the ChemNose Platform: Led the development of an Arduino and R based gas detection and statistical analysis platform for Ulurover Team's competitive Mars Rover, integrating real-time data collection and analysis
  • 🌱 I’m currently learning machine and deep learning techniques for multiomics data integration.

  • 💬 Ask me about single cell transcriptomics

  • ⚡ Fun Fact: I have a strong interest in robotics (Arduino and Raspberry Pi) and enjoy developing them for biotech applications, inspired by my work leading the Science Team of Ulurover Team's competitive Mars Rover

  • ✉️ How to reach me: Explore my profiles on Linktree

Languages and Tools:

python r Bash Nextflow git Conda Docker Slurm Arduino Raspberry-Pi

KurayiChawatamaStats KurayiChawatama

Pinned Loading

  1. nf-core-March-2025-Hackathon-scdownstream-Pipeline-Improvement-Project nf-core-March-2025-Hackathon-scdownstream-Pipeline-Improvement-Project Public

    Development repository my nf-core March 2025 hackathon idea titled "Improving the scdownstream pipeline by increasing diversity of selectable tools"

    R 3 3

  2. scdownstream scdownstream Public

    Forked from nf-core/scdownstream

    Fork for me to help improve the pipeline, stating with Conda functionality then scDblFinder

    Nextflow

  3. ChemNose-An-Automated-Gas-Detection-and-Statistical-Analysis-Platform ChemNose-An-Automated-Gas-Detection-and-Statistical-Analysis-Platform Public

    ChemNose is a low-cost Arduino-based gas detection platform by me for ULUROVER 's Science Team for Mars and Moon research. Inspired by SENose, it features modular sensors and aims to enhance data a…

    C++ 4

  4. Primer_Design_Cow Primer_Design_Cow Public

    Python