Research engineer

Do you have a background in mathematics or physics and want to apply your skills and knowledge to model how the human genome is spatially folded in the cell nucleus?

A Research Engineer position in 3D Genome Modeling is immediately available in the Bienko-Crosetto Lab for Quantitative Genome Biology at the Science for Life Laboratory (SciLifeLab) in Stockholm.

The Bienko-Crosetto Lab is focused on developing and applying cutting-edge genomic technologies to map the spatial organization of chromatin in the nucleus of mammalian cells, with the long-term goal of understanding how DNA-RNA-protein interactions shape the higher-order chromatin architecture and orchestrate it under physiological and pathological conditions.

As a Research Engineer with a strong background in mathematics, you will contribute to our ongoing efforts to generate accurate reconstructions of the 3D genome architecture of single cells by leveraging a variety of omics assays and large omic datasets.

You will be embedded in a dynamic research environment (https://bienkocrosettolabs.org/) where you will work alongside experimentalists and analysts and have a unique opportunity to be trained in 3D genome biology while nurturing your creativity.

Your mission

Your main tasks will be:

Apply Topological Data Analysis (TDA) techniques to identify novel patterns in complex omic datasets, such as those generated by high-throughput chromosome conformation capture (Hi-C) and RNA-DNA interaction mapping methods such as RADICL-seq.
Further develop the Chromflock software that we previously established in our lab to generate single-cell 3D genome reconstructions by integrating Hi-C data with genome wide radial measurements obtained with the GPSeq method that we also previously developed (Girelli et al, Nat Biotechnol 2020).

Your profile

You have:

A master’s degree in Physics or Mathematics.
Proven knowledge and prior work with Topological Data Analysis (TDA) techniques.
Fluency in at least one of the following programming languages: Unix/Bash/Python/C++/ Matlab/R.
Ability to independently organize your own work routine and flexibly adapt your weekly schedule to emerging requests.
A problem-solving and forward-looking personality, i.e., you are motivated to solve obstacles that might present on the path to achieving a goal, you enjoy troubleshooting, you are not afraid of seeking for help, and you are able to find solutions even if this means revising the original goal/plan (never compromising scientific rigor and quality).
A strong collaborative attitude, i.e., you are a strong team player and want to contribute to the success of the whole team.
Fluency in oral and written English.

What do we offer?

A creative and inspiring environment with wide-ranging expertise and interests. Karolinska Institutet is one of the world's leading medical universities. Our vision is to pursue the development of knowledge about life and to promote a better health for all. At Karolinska Institutet, we conduct successful medical research and hold the largest range of medical education in Sweden. Karolinska Institutet is also a state university, which entitles you to several good benefits through our collective agreement. And you get to practice freely in our modern wellness facilities, where trained staff are on site.

Location: Solna, Scilifelab

Our labs are located at the Science for Life Laboratory (SciLifeLab) situated at the Karolinska Institute campus in Stockholm. SciLifeLab is an interdisciplinary center for molecular biosciences with focus on health and environmental research, bringing under the same roof groups from four universities: Karolinska Institutet, KTH Royal Institute of Technology, Stockholm University and Uppsala University. The center features state-of-the-art technology platforms, including next-generation sequencing, high-throughput histology, super-resolution microscopy, proteomics, image analysis, and bioinformatics.

Application

The application is to be submitted through the Varbi recruitment system.In this recruitment, you will apply with your CV without a personal letter. Instead, you will answer some questions about why you are applying for the job in the application form.

Want to make a difference? Join us and contribute to better health for all