🎓 PhD Student in Plant Evolution & Bioinformatics at the Max Planck Institute for Plant Breeding Research (Hancock Lab) / University of Cologne
🧬 Researching pangenomes, structural variation, and adaptation in Arabidopsis thaliana & Arabis alpina
💻 Passionate about computational biology, population level pangenomics, and genome assembly pipelines
- Comparative pangenome analysis of Arabidopsis thaliana and Arabis alpina from East Africa
- Investigating structural variations and their role in adaptation
- Developing bioinformatics tools for CNV/SV detection and pangenome integration
- Nextflow pipeline optimization and containerization for genomics and transciptomics
- Machine learning approaches for pangenomics
- Advanced data analysis, visualization and pipeline development for genomics
- ✉️ Email: ykaya@mpipz.mpg.de | yyasinkkaya@gmail.com
- 🌐 Bluesky
- 🧬 Hancock Lab Website
Programming:
•🐧 Linux •Python •R • C++ • Bash
Tools/Projects:
- 🔗 PanHOG – A phylogeny-aware toolkit for classifying and annotating Hierarchical Orthologous Groups (HOGs) in pangenomic datasets
- 🔗 Revelio – A lightweight C++ tool to identify cytosine contexts (CG/CHG/CHH) and assign sequence-based probabilities for methylation calling
- 🔗 AraFusion – A pipeline for building and improving hybrid T2T genome assembly
