Veterinarian (DVM, PhD) working in microbiology and bioinformatics at Ankara University, Faculty of Veterinary Medicine (Department of Microbiology). My work sits where clinical and veterinary microbiology meets genomics: bacteriophage genomics, antimicrobial resistance surveillance, and whole-genome sequencing of bacterial isolates — mostly as reproducible Nextflow and Snakemake pipelines.
Nextflow DSL2 pipeline for bacteriophage discovery and characterisation — fastp, Kraken2, SPAdes, VirSorter2, CheckV, BACPHLIP, Pharokka, vContact2
Pipelines & tools — 4 repositories
gelidonyamr ⭐2
Nextflow pipeline for Salmonella Infantis: assembly, AMR profiling, plasmid detection, MLST/cgMLST typing
Reference-free AMR GWAS — unitig-based pyseer mixed model that flags novel resistance determinants and scores their phylogenetic mobility
Nanopore metagenomics for poultry gut microbiome (Nextflow DSL2 + Kraken2)
FastAPI platform running a bacterial genome analysis chain end to end, with AI-assisted reporting and PCR primer design (research use only)
Data & schemas — 3 repositories
chewBBACA-compatible core-genome MLST schema for Lactococcus garvieae — 1100 loci from 247 QC'd genomes
Supplementary data and figure code for the L. garvieae / rainbow trout characterisation paper
Assembly and characterisation outputs for S. aureus bacteriophage isolates
Teaching & outreach — 4 repositories
Bilingual (TR/EN) microbial bioinformatics training curriculum
Interactive WGS outbreak investigation built on a CRAB EQA exercise — teaching scenario
Browser game teaching kids the bioinformatics pipeline, DNA → genome
Turkish-language bioinformatics training material
No longer maintained — 4 repositories
2025_NGS_Exercise_Club 🛑 archived
NGS exercise club material. Archived — did not go past the outline.
consensus_printer 🛑 archived
Reference-based consensus caller for SARS-CoV-2. Archived — written in Nextflow DSL1, which Nextflow 22.12+ can no longer run.
WGS_Training 🛑 archived
Archived — placeholder that never got content.
python_kodlari 🛑 archived
Early Python practice files. Archived — superseded by inhouse-scripts.
| Page | URL |
|---|---|
| Training curriculum | https://cinnetcrash.github.io/ |
| CRAB outbreak investigation | https://cinnetcrash.github.io/EQA_demo/ |
| GenomeHunter | https://cinnetcrash.github.io/genomehunter/ |
Working with: Nextflow · Snakemake · Python · R · Docker / Singularity · Bakta · Prokka · chewBBACA · pyseer · Kraken2 · CheckV
📫 gultekinnunal@gmail.com · 🆔 ORCID 0000-0002-8996-7028
Türkçe
Ankara Üniversitesi Veteriner Fakültesi Mikrobiyoloji Anabilim Dalı'nda mikrobiyoloji ve biyoinformatik alanında çalışan bir veteriner hekimim (DVM, PhD). Çalışma alanlarım bakteriyofaj genomiği, antimikrobiyal direnç sürveyansı ve klinik bakteriyel tam genom dizileme — ağırlıklı olarak yeniden üretilebilir Nextflow ve Snakemake iş akışları biçiminde.
Türkçe biyoinformatik eğitim modülleri için cinnetcrash.github.io adresine bakabilirsiniz. Katkı, hata bildirimi ve iş birliği önerilerine açığım.
Generated by build_profile.py on 2026-08-17.