Sinan Uğur Umu

Postdoctoral Fellow

Research areas/interests:

Sinan U. Umu works as a postdoctoral fellow at Cancer Registry of Norway under supervision of Trine Rounge and Hilde langseth.

He is employed for 3 years on the project “Small non-coding RNA as early detector cancer biomarkers” funded by the Norwegian Research Council.

The research goal for this project is to find early detection biomarkers among serum RNA content and further understand progression of cancer using RNA biomarkers.

In this project, Sinan works with developing bioinformatics pipelines for analysing samples from Janus serum bank.

Education/background:

Umu has a BS in physics and MS in bioinformatics. He got his PhD from University of Canterbury, New Zealand.

His PhD thesis title is «Investigating prokaryotic transcriptomes and the impact of crosstalk between noncoding RNA and messenger RNA interactions».

Projects:

miRJanus (https://www.kreftregisteret.no/en/Research/Projects/Small-non-coding-RNA-as-early-detection-cancer-biomarkers/)

Selected publications:

Fehlmann T, Backes C, Alles J, Fischer U, Hart M, Kern F, Langseth H, Rounge T, Umu SU, Kahraman M, Laufer T, Haas J, Staehler C, Ludwig N, Hübenthal M, Meder B, Franke A, Lenhof HP, Meese E, Keller A (2018)
A high-resolution map of the human small non-coding transcriptome
Bioinformatics, 34 (10), 1621-1628
PubMed 29281000

Umu SU, Langseth H, Bucher-Johannessen C, Fromm B, Keller A, Meese E, Lauritzen M, Leithaug M, Lyle R, Rounge TB (2017)
A comprehensive profile of circulating RNAs in human serum
RNA Biol, 15 (2), 242-250
PubMed 29219730

Umu SU, Gardner PP (2017)
A comprehensive benchmark of RNA-RNA interaction prediction tools for all domains of life
Bioinformatics, 33 (7), 988-996
PubMed 27993777

Umu SU, Poole AM, Dobson RC, Gardner PP (2016)
Avoidance of stochastic RNA interactions can be harnessed to control protein expression levels in bacteria and archaea
Elife, 5
PubMed 27642845

Lindgreen S, Umu SU, Lai AS, Eldai H, Liu W, McGimpsey S, Wheeler NE, Biggs PJ, Thomson NR, Barquist L, Poole AM, Gardner PP (2014)
Robust identification of noncoding RNA from transcriptomes requires phylogenetically-informed sampling
PLoS Comput Biol, 10 (10), e1003907
PubMed 25357249

 

Github: https://github.com/sinanugur

Twitter: https://twitter.com/sinanugur

Researchgate: https://www.researchgate.net/profile/Sinan_Umu

Pubmed: https://www.ncbi.nlm.nih.gov/pubmed/?term=sinan+umu