Researcher in spider silk genomics and transcriptomics

Researcher in spider silk genomics and transcriptomics

Karolinska Institutet (KI)

Huddinge, Sweden

The Department of Neurobiology, Care Sciences and Society (NVS) conducts world leading research in aging, dementia, epidemiology and care sciences. This research extends from basic molecular and cell levels to clinical research and societal studies. NVS educates almost a third of KI students at basic and advanced levels. The Department has approximately 450 employees and a revenue 2018 of 490 million SEK. It comprises seven divisions, located at Campus Flemingsberg and Campus Solna.

The division and research group
The research at the division of Neurogeriatrics is focused on neurodegenerative diseases, in particular Alzheimers disease and is strongly oriented towards translating findings from basic research into clinical practice.
We are currently five PhD students, two technicians, six post docs, two assistant professors, and two professors. We have developed the first biomimetic spinning method for production of artificial spider silk fibers. Now we aim to spin artificial silk fibers that match the native silk in terms of mechanical properties in a project that is funded by an ERC consolidator grant. To reach this goal we will use state-of -the art sequencing methods and protein engineering. We have recently published several articles in high ranked journals (Andersson et al. Nat Chem Biol. 2017; Kronqvist et al. Nat Commun. 2017; Rising&Johansson. Nat Chem Biol. 2015).
The research group is located at Karolinska Institutet, campus Flemingsberg, and at SLU in Uppsala.
We now want to expand the group with a researcher, 1 year with possibility of extension.

The project and duties
Spiders spin the toughest fiber known to man, but the understanding of the silk gland, silk genetics and composition of the silk fiber is poorly understood. In this project we will sequence the genome of a Swedish spider and use ScRNAseq to increase our understanding of function of the silk glands.
The successful candidate is expected to have a large interest in bioinformatics and previous analysis of genomes and/or transcriptomes is required. We will use single cell sequencing (10x chromium) in order to increase our understanding of the proteins involved in the spider silk spinning process and also do de novo assembly of the genome from a Swedish spider (PacBio and 10x). The applicant is expected to independently analyze, assemble and annotate sequence information that is generated at sequencing platforms at SciLife lab. Collection of spiders and isolation of DNA and RNA may be part of the duties. The applicant is also expected to supervise doctorial students and master students in the lab. We work in collaboration with other groups and very interdisciplinary, which demands the applicant to be independent, creative, have a positive attitude and be collaborative. The applicant is expected to work at both KI campuses as well as in Uppsala.

Entry requirements
A person is eligible to be appointed Researcher if he or she has been awarded a Degree of Doctor or has achieved the corresponding scientific competence, as well as documented research after publicly defending his or her doctoral thesis corresponding to qualification as Assistant professor.

The applicant should have a doctoral degree in medicine, cell biology, biomedicine,computer science, or similar topic. The applicant should also have done at least one PostDoc period and show a strong publication record. The successful candidate is expected to have a strong drive to pursue research, be organized and structured and have an ambitious and innovative attitude. The project is cross-disciplinery and pursued in collaboration with several research groups, and good collaborative skills are necessary. Previous documented experience of bioinformatic analyses of genomes and/or transcriptomes and ability to work efficiently in a Linux command-line are required. Good knowledge of the statistical method R is a merit. Emphasis will be put on personal skills and research expertise in the evaluation process. Very good ability to speak and write English is a requirement.

Bases of assessment
We stress research expertise when assessing applicants.

Application process
An application must contain the following documents in English: Curriculum vitae, qualifications and description of planned research, presented in accordance with Karolinska Institutet’s qualifications portfolio ( 

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

At Karolinska Institutet a 6-month trial period is required for all permanent appointments.

Karolinska Institutet is one of the world’s leading medical universities. Its vision is to significantly contribute to the improvement of human health. Karolinska Institutet accounts for the single largest share of all academic medical research conducted in Sweden and offers the country’s broadest range of education in medicine and health sciences. The Nobel Assembly at Karolinska Institutet selects the Nobel laureates in Physiology or Medicine.
Pursuant to the regulations of the Swedish National Archives, applications are kept on file for two years after the appointment has gained legal force. The regulations do not apply to attachments that have been printed or otherwise published.
Karolinska Institutet strives to provide a workplace that has approximately the same number of women and men, is free of discrimination and offers equal opportunity to everyone.

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Quote Reference: 256909