A. (Aysun) Urhan
A. (Aysun) Urhan
Profile
Expertise
Statistics, bioinformatics, genomics, bioinformatics pipelines, machine learning, Python, Matlab
Bio
I am a Research Software Engineer at the Digital Competence Center.
I have a background in Chemical Engineering and Bioinformatics. During my masters studies, I gained hands-on experience in time series analysis, statistics and machine learning. I joined the Delft Bioinformatics laboratory in 2019 for my doctoral studies, where I explored antimicrobial resistance in pathogenic bacteria, novel gene function prediction and comparative genomics using pan-genome graphs.
After my PhD I have joined the Digital Competence Center as a Research Software Engineer. Today, with my scientific background and experience in research software development, I provide support to researchers to make their analysis workflows reproducible, easy to follow and adopt by the research community.
Expertise
Publications
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2024
Global diversity of enterococci and description of 18 previously unknown species
Julia A. Schwartzman / Francois Lebreton / Rauf Salamzade / Terrance Shea / Melissa J. Martin / Katharina Schaufler / Aysun Urhan / Thomas Abeel / Ilana L.B.C. Camargo / More Authors
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2024
SAFPred
Synteny-aware gene function prediction for bacteria using protein embeddings
Aysun Urhan / Bianca-Maria Cosma / Ashlee M. Earl / Abigail L. Manson / Thomas Abeel -
2024
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2023
SHIP
identifying antimicrobial resistance gene transfer between plasmids
Marco Teixeira / Stephanie Pillay / Aysun Urhan / Thomas Abeel -
2022
HAT
haplotype assembly tool using short and error-prone long reads
Ramin Shirali Hossein Zade / Aysun Urhan / Alvaro Assis de Souza / Akash Singh / Thomas Abeel -