Bioinformatician – Structural Proteomics & Integrative Modelling | EMBL-EBI

Job Description

EMBL-EBI is seeking a Bioinformatician with expertise in structural biology, proteomics, and integrative or hybrid structure modelling to join the Velankar team.

The successful candidate will contribute to the development of open scientific infrastructure connecting experimental proteomics evidence, structural restraints, predicted protein structures, integrative models, and molecular interaction data.

The role involves working with international collaborators and scientific resource providers to develop data standards, deposition workflows, validation methods, and tools that improve the discoverability, interoperability, and reuse of structural interactomics data.

Key Responsibilities

• Analyse existing XL-MS, CF-MS, AP-MS, and integrative modelling workflows to define data and metadata requirements.
• Contribute to the development and adoption of community standards for structural interactomics and integrative modelling data.
• Develop data models and interoperable software tools connecting proteomics and structural biology formats.
• Convert proteomics outputs into suitable representations for integrative modelling workflows.
• Develop and maintain tools, APIs, workflows, and documentation supporting standard-compliant data deposition and local validation.
• Implement cross-modality validation, identifier mapping, and provenance tracking between experimental evidence, structural restraints, and integrative models.
• Collaborate with PRIDE and PDB-IHM colleagues to establish linked data deposition, release, and access workflows.
• Contribute to integrated search, visualisation, and programmatic access services for structural interactomics data.
• Engage with researchers, analysis-tool developers, and standards communities to support testing and adoption.
• Contribute to scientific publications, technical documentation, training, and dissemination activities.

Qualifications

• Integrative or hybrid modelling, structure prediction, or macromolecular modelling.
• Mass-spectrometry-based proteomics, particularly XL-MS, CF-MS, or AP-MS.
• Community data standards such as IHM CIF, mmCIF, mzIdentML, and SDRF-Proteomics.
• Development of data validators, conversion tools, deposition systems, or scientific web services.
• REST APIs, databases, containerisation technologies, or workflow-management systems.
• Data visualisation and analysis.
• Responsible use of AI-assisted coding tools, including appropriate testing, code review, documentation, and validation.
• Experience working in international and interdisciplinary teams.
• Experience reporting and presenting scientific topics.
• EMBL-EBI encourages applications from candidates who may not meet every listed requirement but can demonstrate relevant skills, transferable experience, and a strong interest in the role. Applicants should explain their suitability and motivation in their cover letter.

Additional Information

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