Research assistant in bioinformatics with a focus on tumor immunology

Updated: about 1 month ago

Do you want to contribute to top quality medical research?

Come join the Engblom lab! A research assistant position is available in the intersection of immunology, cancer, and spatial transcriptomics, with the ultimate goal to understand tumor-associated immune responses and harness these for therapy. The Engblom lab recently developed a new method to study B cells and B cell receptors within their tissue microenvironment using spatial transcriptomics. The candidate will contribute to cutting-edge research in spatially resolving immune responses during tumor progression and anti-cancer therapy.


Your mission

We are seeking a research assistant in bioinformatics for a short-term 6 months project. The main duties include:

  • run and streamline the lab’s computational/bioinformatics pipelines
  • perform data analysis for on-going projects in the lab, especially related to adapting Spatial VDJ to murine tissues
  • maintain and organize the lab’s code base (including data storage and notebooks for data sharing).
  • help with lab management

Your profile

The applicant will work in close collaboration with other PhD students, postdocs, and researchers. The applicant is expected to actively perform bioinformatics analysis of spatial transcriptomics and immune clone data, and present results to general and specialized audiences. The applicant is expected to be highly engaged, independent, curious, and a team player.

Our lab has an opening for a highly creative and motivated research assistant. We look for a candidate with proficiency and documented research experience particularly in immunology, spatial transcriptomics, single-cell RNA-seq and bioinformatics, as well as Python and R programming language (critical).We would also like to see that the candidate has documented experience in neural networks. Previous experience analyzing spatial VDJ/transcriptomics, long-read sequencing, and single-cell transcriptomics data will be considered a strong merit.  

Additionally, documented experience in doing “wet lab” experiments generating the data listed above will be considered a strong merit. The candidate is expected to work with pre-clinical and clinical data. A completed master’s degree is considered a merit.

The position will require independent work as well as extensive collaboration with other experimental groups. Fluency in both oral and written English is necessary. Documented ability to analyze and present results orally and written is important.


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

The position is located within the Department of Medicine, Solna . The department consists of eleven divisions and each division consists of several research groups. The position is located within division of Allergy and Immunology within the lab of Dr. Camilla Engblom (SciLifeLab Fellow), hosted by Dr. Eduardo Villablanca which is physically located at CMM and SciLifeLab. The overall goal for the lab is to understand fundamental mechanisms of B cell-related immune responses in cancer (and beyond) to identify new avenues for B-cell mediated therapy. To do this, we interrogate the spatial relationships between B cell clones and their immediate niches within tissues using our in-house developed spatial transcriptomics-based technology (Spatial VDJ). Using established and newly developed algorithms, we map B cell evolution within tissues, including class switching and somatic hypermutation, and identify putative candidate tumor-regulatory antibody sequences for functional testing. In addition to the lab’s focus area, our research group has national and international collaborative projects within host-microbe interactions, vaccine research, technological development, and mucosal immunology.  Our lab aims to foster a creative, diverse, and inclusive work environment with the goal for all lab members to answer ambitious and exciting scientific questions. The lab is located within a vibrant immunology community with expertise in inflammation, infection, allergy and autoimmune diseases

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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

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