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Hello there 👋

I am a senior bioinformatics research scientist at Department of Pathology, Institute of Clinical Medicine, University of Oslo, Norway and working in the Jahnsen lab.

  • ⚡ I have been developing open-source bioinformatics tools downloaded by thousands including MirMachine and cellsnake.

  • 🔭 My research interests include biostatistics, bioinformatics, molecular epidemiology, spatial transcriptomics, single and bulk RNA sequencing, early detection of cancer using ML and AI, RNA biology of cancer and RNA-RNA interactions.

  • 🌱 I completed my doctoral studies in the fields of Biotechnology and Bioinformatics at the University of Canterbury in New Zealand. My research concentrated on the non-coding RNAs in prokaryotic organisms. The primary emphasis of my dissertation was on the interactions between non-coding RNAs and messenger RNAs within the genomes of bacteria and archaea.

Sinan U. Umu's Projects

doubletfinder icon doubletfinder

R package for detecting doublets in single-cell RNA sequencing data

lcscripts icon lcscripts

Lung Cancer scripts for XGBoost training/testing

markdown-here icon markdown-here

Google Chrome, Firefox, and Thunderbird extension that lets you write email in Markdown and render it before sending.

mg2sc icon mg2sc

Analyzing metagenomics of single cell RNA-seq

mintmap icon mintmap

This is the code repository, to download MINTmap for basic usage please visit our website at

mirmachine icon mirmachine

MirMachine, a command line tool to detect microRNA homologs in genome sequences.

mirtop icon mirtop

command lines tool to annotate miRNAs with a standard mirna/isomir naming

mkdocs icon mkdocs

Project documentation with Markdown.

multikparallel icon multikparallel

MultiK is a data-driven tool that objectively assesses the optimal number(s) of clusters based on the concept of consensus clustering via a multi-resolution perspective.

sinanugur.github.io icon sinanugur.github.io

Github Pages template for academic personal websites, forked from mmistakes/minimal-mistakes

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