Research data engineer for Chemical biology Consortium Sweden (CBCS)

The Chemical Biology Consortium Sweden (CBCS) is a Swedish Research Council-funded infrastructure that has been in operation since 2010. Initially comprising two nodes at KI and Umeå University, CBCS was expanded in 2022 with the addition of nodes at Lund, Uppsala, Linköping, and Gothenburg Universities.

As an infrastructure for chemical biology at Science for Life Laboratory's Chemical Biology and Genome Engineering platform, CBCS specializes in identifying bioactive small molecules or chemical tools for all fields of life sciences. We offer collaborative services and guidance in assay development, small-molecule screening, and hit to chemical probe optimization. We are also in the process of establishing additional service offerings in small-molecule profiling, including Cell Painting, and screening in primary and complex disease models. To learn more about CBCS, please visit our website at www.CBCS.se .

All screening data together with chemical structure data are today stored in a MySQL database. Insert and update of data is done through a set of webservices written in python. Extraction and data mining is done through Scarab, an interface from Molsoft.

We are seeking one individual for the position as research data engineer to support our projects. The role will be responsible for inserting and updating data and facilitating tools for extraction/datamining.

Insert/update of data flows through cheminformatics with registration of compounds and compound logistics to handling screening data and quality assurance of high throughput screening data.

The extraction/datamining requires maintaining and developing the Scarab interface and database that the researchers are using.

The position is a part time 50% permanent employment.

A successful candidate needs the following qualifications:

• Knowledge about Scarab from Molsoft
• Experience of creating and maintaining MySQL databases.
• Knowledge about registration of chemical structure and database cartridge (mol files, SMILES, etc.)
• Experience of implementing webservices in Python
• Linux system administration

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: Science for Life Laboratory, Solna

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

Welcome to apply at the latest 2023-04-10

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

Permanent position is initiated by a six months trial period.