Postdoctoral position in bioinformatics – focused on single-cell immune transcriptomics

Do you want to contribute to improving human health?

We are looking for an ambitious postdoctoral fellow with solid genome-wide bioinformatics and computational biology skills to join our highly accomplished team. We offer a stimulating environment in a rapidly moving research frontier. The successful candidate will be part of a cluster of other bioinformaticians working on similar topics.

Your mission

The Buggert group conducts innovative studies of cell-mediated immunity in health, cancer and viral disease. These studies are translational in nature and involve the usage of cutting-edge bulk- and single-cell technologies including high-parameter flow cytometry, gene-expression, RNA-seq, ATAC-seq, TCR-seq and proteomics analysis to dissect the heterogeneity and function of memory T cell immunity. Through these platforms, we study different aspects of human memory T cell biology, with an overall aim to i) study the heterogeneity of circulating and resident memory T cells in human organ donors, ii) identify alternative functions of memory T cells in human tissues, and iii) understand how memory T cells maintain control of tumors and viral infections, such as HIV and SARS-CoV-2. The postdoctoral candidate will work in close collaboration with all members of the respective teams to continue the successful line of investigations utilizing single-cell RNA sequencing (scRNA-seq), scATAC-seq and other similar technologies to dissect human memory T cell biology in health and viral disease.

The postdoctoral candidate will be a part of the Center for Infectious Medicine (CIM), Karolinska Institutet, which is a nationally leading and internationally competitive center for human translational immunology and infectious diseases research. The center consists of 17 independent research groups. Importantly, the postdoctoral candidate will also be part of the Center for Bioinformatics and Biostatistics (CBB) at the Karolinska Flemingsberg Campus (https://ki.se/cbb) which aims at creating a cutting-edge world-leading bioinformatic hub. CBB offers mentoring and career-development support.

Your profile

Qualified to be employed as a postdoctor is one who has obtained a doctorate or has equivalent scientific competence. It is considered as an advantage if you have completed your doctoral degree within the last three years, if there are special reasons, your degree may have been completed earlier. Applicants who have not completed a doctorate at the end of the application period may also apply, provided that all requirements for a completed degree are met before the (intended) date of employment. This must be substantiated by the applicant's main supervisor, director or equivalent.

We are seeking one postdoctoral candidate with a PhD, who will work as an integrated bioinformatician in our team, being involved in several ongoing projects and drive his/her own project forward. We already have large sets of high-throughput sequencing data including scRNA-seq (10x Genomics) and ATAC-seq data as well as multicolor flow cytometry data of human T cells, which will be analyzed in close collaboration with our team members and other bioinformaticians at CBB. Hence, excellent communication skills and fluency in English is essential.

The candidate should have been trained in computer science, bioinformatics, or computational biology during her/his PhD studies. The candidate should fully master (requirement) R and be proficient in Python (Python Data Stack tools such as NymPY, SciPY, Pandas, scikit) and have solid Unix/Linux experience and statistical knowledge. The candidate should have experience in genome-wide NGS data analysis and in particular in working with scRNAseq from FASTQ to analyzed data, both with 10x and other formats. Experience working in version-controlled systems and high-performance computing for analysis are merits. Ability to formalize biological questions into computational models in order to drive projects forward and provide advise on experimental design before data generation are other merits. The candidate should be self-motivated, have good communications skills and a proven ability to interact effectively and work productively in an interdisciplinary team. Fluency in English is a requirement.

It is meritorious that the applicant has
- Laboratory molecular and cell biology skill sets (e.g. preparation of RNAseq libraries)
- Been trained in bioinformatics during her/his Bachelor or Master studies
- Possibility to formalize biological questions into computational models

What do we offer?

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 better health for all. At Karolinska Institutet, we conduct innovative medical research and provide the largest range of biomedical education in Sweden. Karolinska Institutet is a state university, which entitles employees to several benefits such as extended holiday and a generous occupational pension. Employees also have free access to our modern gym and receive reimbursements for medical care.

Location: Flemingsberg

Application

An employment application must contain the following documents in English or Swedish:

A complete resumé, including date of the thesis defence, title of the thesis, previous academic positions, academic title, current position, academic distinctions, and committee work
A complete list of publications
A summary of current work (no more than one page)

Welcome to apply at the latest 2022-02-24.

The application is to be submitted through the Varbi recruitment system.

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