Batuhan Cakir

Senior Bioinformatician

I am a bioinformatician specialising in single-cell RNA-seq analysis. My work focuses on processing large-scale single-cell datasets, with expertise in clustering, trajectory inference, and lineage tracing.

I earned my BSc in Bioengineering from Yildiz Technical University in 2016 and an MSc in Bioinformatics and Systems Biology from Gebze Technical University in 2021. During my MSc, my research focused on next-generation sequencing (NGS) and single-cell RNA-seq analysis. My thesis aimed to analyze time-series single-cell RNA-seq data from differentiation and reprogramming processes, using clustering and trajectory inference methods to identify key genes involved in these biological transitions.

In 2019, I interned with the Cellular Genetics Informatics team, where I benchmarked scRNA-seq data visualisation tools to provide publication-ready support websites. I began my PhD in Bioinformatics and Systems Biology at Gebze Technical University, where my thesis will focus on developing a pipeline for processing and analysing lineage tracing datasets.

Since October 2021, I’ve been working as a bioinformatician with the Cellular Genetics Informatics team. In my first year, I contributed to the curation of scRNA-seq datasets (COVID-19 Cell Atlas) for CELLxGENE Discover portal by the Chan Zuckerberg Initiative. I continue to support various projects and collaborations within the CellGen programme.

My timeline

• Joined the Cellular Genetics Informatics team as bioinformatician

• Graduated with MSc and began PhD in Bioinformatics and Systems Biology, Gebze Technical University

• Completed an internship with the Cellular Genetics Informatics team

• Graduated with BSc from Bioengineering, Yildiz Technical University