Lead Semantic Data Engineer

Job Description

Our company is seeking a lead semantic data engineer to architect, build, and scale enterprise-grade knowledge graph solutions that power advanced analytics and decision-making in pharmaceutical research. This role will lead the design of semantic data layers that integrate heterogeneous scientific datasets, enabling end-to-end traceability, cross-domain insights, and AI/ML-driven discovery. The ideal candidate will combine deep expertise in knowledge graphs, ontology engineering, and data engineering, with strong domain awareness in pharmaceutical R&D.

Key responsibilities

• Design and implement scalable knowledge graph architectures to integrate multi-modal data (e.g., omics, process, analytical, lineage)

• Build and manage graph data models representing entities such as samples, processes, assays, targets, and biological relationships

• Drive adoption of graph technologies (e.g., RDF, property graphs, SPARQL/Cypher)

• Partner with platform teams to implement scalable infrastructure (e.g., Amazon Neptune, serverless pipelines)

• Ensure performance, scalability, and governance of knowledge graph platforms

• Collaborate with product managers, scientists, data engineers, and AI/ML teams to translate business needs into semantic models

• Define and execute the knowledge graph roadmap aligned with enterprise data product strategy

• Mentor engineers and establish best practices in ontology development, modeling, and graph engineering

• Drive adoption of knowledge graph capabilities across use cases and programs

Required experience and skills

• Semantic web technology stack (e.g., RDF data format, SPARQL query language)

• Amazon Web Services, particularly the serverless services (e.g., Lambda, Step Functions)

• Data engineering (e.g., SQL queries, ETL jobs)

• Programming in Python

• Experience with DevSecOps practices like continuous integration (CI) and continuous delivery (CD), source code version control (e.g., Git), infrastructure-as-code (e.g., CloudFormation, Terraform), and containers (e.g., Docker)

Desired experience and skills

• Cheminformatics and familiarity with the pharmaceutical research

• Exposure to AI/ML applications leveraging graph data

• Good communication and collaboration skills, and ability to collaborate with other teams to develop solutions

• Experience with Atlassian stack of tools for agile software development (e.g., Jira, Confluence)

• Demonstrate growth mindset and ability to work with enterprise teams

What We Offer

(Please note, the primary posting location is Prague, Czechia - benefits in other locations may differ)

• Exciting work in a great team, global projects, international environment

• Opportunity to learn and grow professionally within the company globally

• Pension and health (Canadian Medical) contributions

• Internal reward system plus referral program

• 5 weeks annual leave, 5 sick days, 15 days of certified sick leave paid above statutory requirements annually, 40 paid hours annually for volunteering activities, 12 weeks of parental contribution

• Cafeteria for tax free benefits according to your choice (meal vouchers, sport, culture, health, travel, etc.), Multisport card, Vodafone, Raiffeisen Bank and Foodora discount programs

• Up-to-date laptop and iPhone, parking in the garage, showers, refreshments

• Competitive salary, incentive pay, and many more

Ready to take up the challenge? Apply now!

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