Skills

R-cran

For daily statistics and modelling. I mostly use functional programming and tidyverse syntax.

Python

For pipelines and tools required in bioinformatics. I use snakemake to generate re-usable pipelines.

Linux

I use Bash for other scripting requirements.

Experience

 
 
 
 
 
October 2016 – Present
Oslo

Postdoc

Cancer Registry of Norway (Kreftregisteret)

Responsibilities include:

  • Serum RNA-seq analyses
  • Bioinformatics pipeline development
  • HPV systems
 
 
 
 
 
November 2012 – August 2016
Christchurch

PhD candidate

University of Canterbury

I was a PhD candidate under supervision of Paul P. Gardner and Anthony M. Poole.
 
 
 
 
 
August 2006 – October 2012
Ankara

Research Assistant

Department of Chemistry, METU

Responsibilities include:

  • IT responsibilities
  • Web design
  • Network administrator

Selected Publications

A critical assumption of gene expression analysis is that mRNA abundances broadly correlate with protein abundance, but these two are …

Recent Publications

. TaME-seq: An efficient sequencing approach for characterisation of HPV genomic variability and chromosomal integration. Scientific Reports, 2019.

PDF Source Document

. Circulating small non-coding RNAs associated with age, sex, smoking, body mass and physical activity. Scientific Reports, 2018.

PDF Project Source Document

. A high-resolution map of the human small non-coding transcriptome. Bioinformatics, 2017.

Project DOI

. A comprehensive profile of circulating RNAs in human serum. RNA biology., 2017.

PDF Project

. Robust Identification of Noncoding RNA from Transcriptomes Requires Phylogenetically-Informed Sampling. PLOS Computational Biology, 2014.

PDF Project

. A probabilistic approach to microRNA-target binding. BBRC, 2011.

PDF DOI

Recent Posts

Projects

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Serum RNA bio-markers of Cancer

We want to find early prediction biomarkers of cancer.

RNA-RNA interactions and Avoidance

This project includes RNA-RNA interaction prediction benchmark and Avoidance project.

Contact