Scientific Developer - Chemogenomics Data Pipelines

European Bioinformatics Institute (EMBL-EBI); Saffron Walden; On-site; GBP 39,000 - 43,000; Full time

Benefits offered by this job

Hybrid working patterns

Private medical insurance for you and/

30 days annual leave

Relocation package

On-site gym and cafeteria

Job summary

EMBL-EBI is seeking a Scientific Developer to join the Chemical Biology Resources team on the Wellcome Genome Campus near Cambridge, UK. You will develop and maintain software infrastructure for ChEMBL data releases and data pipelines combining Python and Java, coordinating with international teams and external databases.

The role involves building scalable workflows, validating data quality, and integrating cheminformatics resources like RDKit/Open Babel, with Docker-based deployment and

Qualifications

• PhD or equivalent in Chemistry, CS, Bioinformatics, Data Science, or related field.
• Experience in cheminformatics or data engineering applied to life sciences.
• Proficiency in Python with cheminformatics libraries and topics (RDKit, Open Babel, InChI, SMILES/SMARTS).
• Experience working with relational (SQL) databases.
• Familiarity with a structured collaborative data and software development environment (git, GitHub/GitLab).
• Proficient in Linux.
• Strong communication skills and willingness to collaborate internationally.
• Can-do attitude and problem-solving mindset.
• Advanced English language and strong interpersonal skills.
• Familiarity with containerization (Docker).
• Basic understanding of Java with willingness to develop expertise for pipelines.

Responsibilities

• Develop and maintain software infrastructure for robust ChEMBL data releases and pipelines.
• Develop and maintain scientific workflows for data curation, integration and dissemination.
• Collaborate with ChEMBL, SureChEMBL and ChEBI teams to resolve data quality issues.
• Integrate external chemical and bioactivity databases into the ChEMBL ecosystem.
• Document workflows to improve maintainability and reproducibility.
• Participate in cross-functional meetings with partners and stakeholders.
• Contribute to training activities and scientific meetings.

Skills

Python programming

RDKit

Open Babel

InChI/SMILES

SQL databases

Linux

Docker (containerization)

Java basics

Git (GitHub/GitLab)

NLP / LLM methods

Education

PhD or equivalent in Chemistry, CS, Bioinformatics, Data Science

Tools

Docker

GitHub/GitLab

Relational databases

Job description

EMBL-EBI is seeking a Scientific Developer to join the Chemical Biology Resources team on the Wellcome Genome Campus near Cambridge, UK. You will develop and maintain software infrastructure for ChEMBL data releases and data pipelines combining Python and Java, coordinating with international teams and external databases.

The role involves building scalable workflows, validating data quality, and integrating cheminformatics resources like RDKit/Open Babel, with Docker-based deployment and