Welcome to my GitHub profile! I'm a computational biologist specializing in RNA biology, ribosome profiling, and translational regulation in pediatric cancer at the Prinses Máxima Centrum (Princess Máxima Center for Pediatric Oncology) in Utrecht, Netherlands.
- Ribosome Biology & Heterogeneity: Investigating specialized ribosome populations and their roles in cancer
- Microprotein Identification: Discovering and characterizing microproteins in pediatric cancer using Ribo-seq
- RNA Interactions: Large-scale computational prediction and analysis of RNA-RNA interactions
- Translational Regulation: Understanding protein synthesis control in cancer cells and immunotherapy
- CRISPR Systems: Off-target prediction and optimization for genome editing and therapeutic applications
- Bioinformatics Tool Development: Creating open-source software for the research community
📄 View My Complete Academic CV
- 📚 Google Scholar
- 🆔 ORCID: 0000-0001-6709-9605
- 🔬 ResearchGate
- 💼 Prinses Máxima Centrum Profile
- 📧 Email: f.alkan-2@prinsesmaximacentrum.nl
- Ribo-ODDR: Oligo design pipeline for rRNA depletion in ribosome profiling
- RIsearch2: Ultra-fast RNA-RNA interaction prediction tool
- dricARF: Differential ribosome collision detection in Ribo-seq data
- RAIN Database: RNA-protein association and interaction networks
- BEAMS: Protein-protein interaction network alignment algorithm
- CRISPRoff & CRISPRspec: CRISPR-Cas9 off-target assessment tools
- 737 Total Citations
- 41 Peer-Reviewed Publications
- Published in: Cell, NAR Cancer, NAR Genomics & Bioinformatics, Genome Biology, Bioinformatics, Phil. Trans. R. Soc. B
Python R C/C++ Machine Learning NGS Analysis RNA-seq Ribo-seq Multi-omics Integration Algorithm Development CRISPR Design
Currently at: Prinses Máxima Centrum (Princess Máxima Center for Pediatric Oncology), Van Heesch Group