Senior Data Engineer for Bioinformatics Solutions

1 day ago


Remote Wrocław Warszawa Kraków, Czech Republic Holisticon Connect Full time

We are looking for a Senior Data Engineer to support the operation and engineering needs of cBioPortal. In this role, you will impact the delivery of bioinformatics data engineering and visualizations to the Oncology R&D organization.

About Holisticon Connect

Holisticon Connect is a division within NEXER GROUP - a custom software development company. We have the opportunity to work with world-renowned brands from Scandinavia, the UK, and Western Europe.

Our goal is to grow stronger in competence rather than in numbers. If you like what we do, check out our offer to learn more about us.

Job Description

As a Senior Data Engineer, your primary focus will be on developing, executing, and maintaining ETL pipelines for extracting, transforming, and loading data for use in cBio and other bioinformatics analysis and visualizations.

You will ensure the reliability, scalability, and performance of ETL pipelines and data systems, as well as troubleshoot and resolve issues related to data loading and integration into downstream systems.

Collaboration with bioinformaticians, data scientists, and other stakeholders is essential to understand and meet the data needs and requirements of the organization.

Key Responsibilities
  • Develop, execute, and maintain ETL pipelines for extracting, transforming, and loading data for use in cBio and other bioinformatics analysis and visualizations.
  • Ensure the reliability, scalability, and performance of ETL pipelines and data systems.
  • Troubleshoot and resolve issues related to data loading and integration into downstream systems.
  • Collaborate with bioinformaticians, data scientists, and other stakeholders to understand and meet the data needs and requirements of the organization.
Requirements

To succeed in this role, you will need:

  • Expertise in SQL, Python, pandas, NumPy, HDFS, NoSQL, Unix, Linux, ETL, and data pipelines.
  • Familiarity with orchestration services like Airflow, Prefect, AWS Glue, Dagster, etc.
  • Experience using AWS services such as S3/EBS, EC2, CloudWatch, SNS, and Lambda.
  • Understanding of software development, testing, and quality processes with experience with testing frameworks and documentation.
  • Expertise with biological/health data, especially genomics and other omics technologies.
  • Ability to understand, map, integrate, and document complex data relationships and business rules.
Benefits

We offer a range of benefits to support your growth and well-being, including:

  • Sport subscription
  • Training budget
  • Private healthcare
  • Flat structure
  • Small teams
  • International projects
  • Free coffee and beverages
  • Modern office
  • No dress code


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