Jakob Jersild Nielsen

Bioinformatician & Data Scientist

Hi! I'm a graduate bioinformatician with a passion for unravelling the complexities of biological data. Both my Bachelor's and Master's projects have been focused on exploring and analysing next-generation sequencing data, which has laid the foundation to my technical abilities and sparked an immense interest and curiosity in the field. I believe in continuous learning and I dedicate time daily to further refine my skills and stay updated with the latest tools and technologies.

Experience

Clinical Bioinformatician

Department of Molecular Medicine,
Aarhus University Hospital

  • Apr, 2024 — Present
  • Aarhus, Denmark
  • Limited-term, Full-time
  • Development of bioinformatic pipelines for clinical sequencing data.

Software Developer

PentaBase

  • May, 2020 — Aug, 2020
  • Odense, Denmark
  • Freelance
  • Development of software for scanning and organizing PCR samples.

Consultant

iGEM Competition

  • Sep, 2019
  • Odense, Denmark
  • Freelance
  • Guidance for the University of Southern Denmark's 2019 iGEM team in mathematical modeling of bacterial conjugation.

Education

MSc, Computational Biomedicine

University of Southern Denmark

  • Sep, 2019 — Aug, 2023
  • Odense, Denmark
  • Thesis title: "Detection of circulating tumor DNA by recalling patient-specific somatic variants in plasma samples using whole-exome sequencing."
  • Thesis supervisors: Prof. Torben A. Kruse, Prof. Mads Thomassen, Post Doc. Lars Andersen & Post Doc. Kristina M. Koldby.

BSc, Biomedicine

University of Southern Denmark

  • Sep, 2016 — Aug, 2019
  • Odense, Denmark
  • Thesis title: "Characterisation of fibrotic transcriptional signatures in mouse adipose tissue using RNA-Seq."
  • Thesis supervisors: Prof. Susanne Mandrup & Ph.D. Elvira Laila Van Hauwaert.

Skills

Programming & Scripting Languages

Python

R

Java

JavaScript

Bash

Markup, Styling, & Templating Languages

HTML

Liquid

Markdown

CSS

LaTeX

Development Tools & Platforms

Snakemake

Jekyll

Conda

Slurm

Docker

TailwindCSS

Git

jQuery

SQLite

PostgreSQL

Operating Systems

Windows

Linux