Data Engineer

The Institute

The Centro Nacional de Análisis Genómico (CNAG-CRG) is one of the largest Genome Sequencing Centres in Europe.

With the increasing demand in genomic tests on rare diseases, cancer and other diseases, genomic data management, analysis and interpretation is a real bottleneck in the healthcare systems. The Bioinformatics Unit at CNAG-CRG designs and develops innovative platforms and solutions to analyse large amounts of genomics and clinical data, with the ultimately goal of improving the implementation of data-driven and high-quality personalised medicine in the Healthcare System. Resources developed by the Unit are currently used by hundreds of clinical researchers in Europe and are part of major International genomic initiatives such as the Global Alliance for Genomics and Health (GA4GH), the European Infrastructure for life-science information (ELIXIR) and the 1+ Million Genomes Initiative (1+MG). The Unit includes bioinformaticians, engineers, software developers and biologists highly experienced on genomic data management, analysis and interpretation.

It is integrated with the Centre for Genomic Regulation (CRG), an international biomedical research institute of excellence, based in Barcelona, Spain, with more than 400 scientists from 44 countries. The CRG is composed by an interdisciplinary, motivated and creative scientific team which is supported both by a flexible and efficient administration and by high-end and innovative technologies.

In April 2021, the Centre for Genomic Regulation (CRG) received the renewal of the 'HR Excellence in Research' logo from the European Commission. This is a recognition of the Institute's commitment to developing an HR Strategy for Researchers, designed to bring the practices and procedures in line with the principles of the European Charter for Researchers and the Code of Conduct for the Recruitment of Researchers (Charter and Code).

Please, check out our Recruitment Policy

The role

We have an opening for a Data Engineer to play a key role in Instand-NGS4P (https://www.instandngs4p.eu/). The aim is to develop a standardised Next Generation Sequencing (NGS) workflow from NGS data analysis to medical-decision making for common and rare adult and paediatric cancer. The workflow will leverage, among other, the current RD-Connect Genome Phenome Analysis Platform (https://platform.rd-connect.eu/), with the objective to cover data management, clinical and genome data integration, genome analysis pipelines, variant annotation, interpretation and reporting. With the supervision of the lead of the Data Platforms and Tools Development team and in collaboration with cancer specialists, bioinformaticians and software engineers, the successful candidate will implement the data infrastructure and back-end of the product for the cancer platform.

His/ Her responsibilities include:

1. Implement pipelines in Apache Spark
2. Integrate pipelines in Jenkins pipeline or NextFlow workflow manager systems
3. Collaborate with back-end developers and bioinformaticians to integrate data into the cancer platform
4. Implement and improve queries in SQL (Postgres) and NoSQL databases (Elasticsearch, MongoDB, etc.)
5. Gather and address technical and design requirements
6. Follow emerging technologies

About the team

The successful candidate will join the Data Platforms and Tools Development team, coordinated by Dr. Davide Piscia (https://www.cnag.crg.eu/teams/bioinformatics-unit/data-platforms-and-too...). The team is part of the CNAG-CRG Bioinformatics Unit (led by Dr. Sergi Beltran), which has over 30 members and offers continuous growth and support on a professional level. The team works in a stimulating scientific environment, applying state-of-the-art technologies to breakthrough research projects in Genomics that have an impact on people’s health.