Please join my team of world-leading bioinformaticians working across the globe in Mount Sinai Hospital in New York to Karolinska Institutet in Sweden and Tartu University Hospital in Estonian. Our main source of systems genetics analyses is the cardiovascular disease (CVD) STARNET (Stockholm-Tartu Atherosclerosis Reverse Network Engineering Task) study - a high-dimensional, multi-tissue genetics-of-gene/protein-expression database of >1500 patients with and without CVDs. We study the network biology within and across organs to individual cells to better understand the complex etiologies of CVDs.
Your mission
You will take on the main responsibility of STARNET data within my lab at Karolinska Institutet and in collaborations within the EU and elsewhere. You will not require to develop new bioinformatic tools but to use state-of-the-art methodologies for QC, normalization, correlation and differential expression analyses, protein and gene expression quantitative trait loci (QTLs), co-expression network analysis like WGCNA, directed network analysis using probabilistic and machine learning (e.g., GENIE3) analyses as well as other deep and machine learning methods for data mining and statistical pattern recognition. Examples of integrative analyses, with for instance GWAS, are colocalization, mendelian randomization and transcriptome-wide analyses (TWAS such as SMR, MetaXcan and Coloc). Other roles will include data protection, sharing and cloud storage. You are also expected to help draft manuscripts and grants with emphasis on data illustrations and visualization.
Your profile
We are looking for an experienced person with extensive bioinformatical knowledge in the field of systems genetics - integrating DNA and RNA sequencing with proteomics and clinical information from one or more datasets (e.g., GWAS). The applicant should have substantial proficiency working in a Linux environment, as well as possess expertise in the coding languages of Python and R. Experience of working with a computing server is required.
To be eligible for employment as a postdoctor a doctoral degree or a foreign degree deemed to be equivalent to a doctoral degree is required. This eligibility requirement must be fulfilled at the latest at the time of the employment decision. 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.
The candidate should have been trained in computer science, bioinformatics, or computational biology during her/his Ph.D. studies. The candidate should fully master (requirement) Python (Python Data Stack tools such as NymPY, SciPY, Pandas, scikit), be proficient in R, and have solid Unix/Linux experience and statistical knowledge. Experience working with high-performance computing is an advantage. The candidate should have experience in genome-wide NGS data analysis, particularly in working with bulk-RNAseq, scRNAseq and scATACseq from FASTQ to analyze data with 10x and other formats such as SmartSeq2. Other merits include the ability to formalize biological questions into computational models to drive projects forward and provide advice on the experimental design before data generation. The candidate should be self-motivated, have good communication skills, and have a proven ability to interact effectively and work productively in an interdisciplinary team. Fluency in English is a requirement.
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. At Karolinska Institutet, we conduct successful medical research and hold the largest range of medical education in Sweden. At KI, you get to meet researchers working with a wide range of specialisms and methods, giving you ample opportunity to exchange knowledge and experience with the various scientific fields within medicine and health. It is the crossover collaborations, which have pushed KI to where it is today, at the forefront of global research. Several of the people you meet in healthcare are educated at KI. A close relationship with the health care providers is important for creating groundbreaking top quality education and research. Karolinska Institutet is also a state university, which entitles you to several benefits through our collective agreement.
Location: Flemingsberg
Choose to work at KI – Ten reasons why
Department of Medicine (MedH) conducts graduate and post-graduate education, as well as research, within a wide range of the medical field, covering all internal medicine specialties, infectious diseases and dermatology. The department consists of seven units with a total of nearly 60 research groups. Our ambition is to be the leading department for medical research and education.
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 2023-04-07
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
| Type of employment | Temporary position |
|---|---|
| Contract type | Full time |
| First day of employment | According to agreement |
| Salary | Monthly salary |
| Number of positions | 1 |
| Full-time equivalent | 100% |
| City | Stockholm |
| County | Stockholms län |
| Country | Sweden |
| Reference number | STÖD 2-986/2023 |
| Contact |
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| Union representative |
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| Published | 07.Mar.2023 |
| Last application date | 07.Apr.2023 11:59 PM CEST |
