Research Data Engineers (RE1-RE2) – Biomedical data integration and FAIR data management

8 Feb 2024
Job Information

Organisation/Company

BARCELONA SUPERCOMPUTING CENTER

Research Field

Computer science » Database management

Researcher Profile

First Stage Researcher (R1)
Recognised Researcher (R2)

Country

Spain

Application Deadline

31 Mar 2024 - 23:59 (Europe/Madrid)

Type of Contract

Permanent

Job Status

Full-time

Hours Per Week

37,5

Offer Starting Date

8 Feb 2024

Is the job funded through the EU Research Framework Programme?

Not funded by an EU programme

Reference Number

31_24_LS_INB_RE1-2

Is the Job related to staff position within a Research Infrastructure?

No

Offer Description
Context And Mission

 

The Life Sciences Department from the Barcelona Supercomputing Center is establishing a new team on Health Data Research within the Life Sciences Department that will collaborate closely with the INB/ELIXIR-ES unit. The Spanish National Bioinformatics Institute (INB) is the major bioinformatics platform in Spain, and the Spanish representative in the European bioinformatics infrastructure ELIXIR. INB is fully oriented to complete a solid integration with International Bioinformatics and Health Research Data infrastructures, including the ELIXIR consortium.

This new team has its focus on the massive amount of health data available for research in the last years and the recent efforts at national and European levels to tap on those data to benefit patients. Using such data helps scientists to understand diseases and health conditions better and provides new ways of identifying patients at higher risk. It also helps to prevent illness and to provide better treatments. This, in turn, improves the health services' efficiency, optimising their resources where they matter the most.

The selected candidate will work on the acquisition, normalisation and standardisation of Health Research Data, and will collaborate with the rest of the Health Research Data team in analysing and understanding data sources, participating in the design, and providing insights and guidance on database technologies, data modelling and data publication under FAIR best practices of biomedical research relevant datasets, working in a highly sophisticated HPC environment. The candidate will have access to state-of-the-art systems and computational infrastructures and establish collaborations with experts in different areas both at international and local levels.

Female candidates are especially encouraged to apply.

 

Key Duties

 

• Data processing pipelines
• Data model transformations and standardisation (OMOP, etc.)
• Components of a multi-modal distributed database.
• Query, model and deploy with PostgreSQL, Redis, RabbitMQ.
• ETL with SQL and Python.
• Design, implement & test microservices.
• Integrate our developments with external APIs.
• Development and testing of our core products and frameworks.
• Testing, logging, measuring and alerting of the deployed services.
• Monitor the existing metrics, analyse data, and collaborate with other teams in an effort to identify and implement a system and process improvements.
• Ensure that the collected data is of high quality and optimal for use across the team and the research community at large.
• Oversee activities of the junior team members, ensuring proper execution of their duties and alignment with business vision and objectives.
• Document and publish data and software under FAIR standards.

Requirements

Research Field

Computer science

Education Level

Master Degree or equivalent

Skills/Qualifications
Requirements

 

• Education
  • MSc in computer science, data science or bioinformatics.
  • Alternatively, an engineering degree, with a strong computer science background, with demonstrated experience in data engineering applications.
• Essential Knowledge and Professional Experience
  • Experience in data engineering methodologies.
  • Programming: SQL and Python will be your main tools of the trade.
  • Be comfortable with container development with Docker and or kubernetes.
  • Work experience in a collaborative software development environment (git, CI/CD, documentation, etc).
  • Interest in computer science applications for biomedical sciences.
• Additional Knowledge and Professional Experience
  • Knowledge and experience in biomedical research.
  • Experience with good data management practices (FAIR data, data quality, etc.).
  • Fluency in spoken and written English.
• Competences
  • Capacity to explore new technologies.
  • Good communication and presentation skills.
  • Ability to work both independently and within a team.

Languages

ENGLISH

Level

Good

Additional Information
Work Location(s)

Number of offers available

1

Company/Institute

Barcelona Supercomputing Center

Country

Spain

Geofield

Where to apply

Website

https://www.bsc.es/join-us/job-opportunities/3124lsinbre1-2

Contact

City

Barcelona

Website

http://www.bsc.es/

Street

c/ Jordi Girona nº31

Postal Code

08034

STATUS: EXPIRED