{"id":2516482,"url":"https://alion.io/job/embl-bioinformatician-structural-proteomics-integrative-modelling","title":"Bioinformatician – Structural Proteomics & Integrative Modelling","company":{"id":6973,"name":"EMBL","domain":"embl.org","url":"https://alion.io/company/embl","size_band":"1001-5000","is_staffing_agency":false,"employer_type":"direct","is_intermediary":false,"listed_via":null,"ats_vendor":"Workday","truth_index":null},"role":"Data Science","role_family":"Data Science","seniority":null,"employment_type":"full_time","work_mode":"hybrid","remote_scope":null,"remote_scope_basis":null,"remote_working_hours":null,"hiring_geo_confidence":"structured","locations":["Hinxton, United Kingdom"],"countries":["GB"],"hiring_countries":[],"hiring_countries_total":0,"salary":null,"salary_estimate":{"min_usd":56000,"max_usd":127000,"period":"year","method":"role_country_seniority_unknown","sample_n":159},"experience_years_min":null,"visa_sponsorship":false,"relocation_package":false,"has_equity":false,"technologies":[{"name":"Git","optional":false},{"name":"Linux","optional":false},{"name":"Python","optional":false},{"name":"Rest API","optional":false}],"status":"live","first_seen_at":"2026-10-13T00:00:00Z","employer_posted_date":"2026-10-13","last_verified_at":"2026-10-14T14:22:45Z","board_verified":true,"closed_at":null,"days_open":2,"trust":{"level":"ok","repost_count":null,"flags":[],"days_open":2},"description":"About the team/job\nWe are seeking a Bioinformatician with expertise in structural biology, proteomics and integrative/hybrid structure modelling to join the Velankar team at the European Bioinformatics Institute (EMBL-EBI).\nThe Protein Data Bank in Europe (PDBe) team develops essential macromolecular structure resources and tools for biologists and other life scientists. As a founding partner of the Worldwide Protein Data Bank, we maintain the global archive of experimentally determined macromolecular structures, the Protein Data Bank (PDB). We also manage the community-led PDBe Knowledge Base (PDBe-KB) and the AlphaFold Protein Structure Database (AFDB), a collaboration with Google DeepMind. The team brings together scientists, software engineers and data engineers to develop tools and services for structure deposition, data integration, advanced search and biological interpretation.\nThis is an exciting opportunity to develop FAIR infrastructure for structural interactomics and integrative/hybrid modelling. The project will connect experimental proteomics evidence, including crosslinking mass spectrometry (XL-MS), co-fractionation mass spectrometry (CF-MS) and affinity-purification mass spectrometry (AP-MS), with structural restraints, predicted structures, integrative models and molecular interaction data.\nWorking in close partnership with colleagues in PRIDE and wwPDB, you will help establish the data standards, deposition workflows, validation approaches and access services needed to make these interconnected datasets discoverable, interpretable and reusable. The role is ideal for a scientist who enjoys working across disciplines and wants to make a lasting contribution to open scientific infrastructure.\nYour role\nYou will contribute to the development of standards and infrastructure that connect structural interactomics experiments, proteomics evidence and integrative structure models. You will work at the interface of structural biology, proteomics and scientific software development, applying both biological understanding and technical expertise to improve the interoperability, provenance and reuse of these data.\nA central component of the role will be developing practical approaches for representing experimental context and linking evidence across repositories to streamline data deposition. You will contribute to the extension and adoption of established community standards, including those for proteomics metadata and identifications, and develop tools that support the conversion, validation and deposition of standard-compliant data.\nYou will work closely with international collaborators, community standards organisations, data-resource providers and developers of analysis tools. The resulting infrastructure will enable researchers to move transparently from proteomics evidence and structural restraints to integrative models, molecular interactions and biological annotation.\nYour main responsibilities will include:\nAnalyse current XL-MS, CF-MS, AP-MS and integrative modelling workflows to define data and metadata requirements.\nContribute to the extension and adoption of community standards for structural interactomics and integrative modelling data.\nDevelop data models and interoperable software tools that connect proteomics and structural biology formats, including suitable conversion of proteomics outputs into integrative modelling representations.\nDevelop and maintain tools, APIs, workflows and documentation that support standard-compliant data deposition and local validation.\nImplement approaches for cross-modality validation, identifier mapping and provenance tracking between experimental evidence, structural restraints and integrative models.\nWork with PRIDE and PDB-IHM colleagues to establish linked deposition, release and access workflows across relevant resources.\nContribute to integrated search, visualisation and programmatic access services for structural interactomics data.\nEngage with researchers, analysis-tool developers and standards communities to support testing, adoption and further development of the infrastructure.\nContribute to scientific publications, technical documentation, training and dissemination activities.\nYou have\nPhD in Bioinformatics, Computational Biology, Structural Biology, Proteomics, Computer Science or a related field.\nFamiliarity with structural biology, protein structure or molecular interaction data.\nExperience working with biological data, metadata, identifiers and scientific repositories.\nUnderstanding of sequence, structure and functional annotations of proteins.\nExperience in scientific software development, preferably using Python.\nExperience designing or implementing data-integration workflows, APIs or data-processing pipelines.\nFamiliarity with FAIR data principles, metadata standards and reproducible research practices.\nExperience with Linux environments, Git, testing and documentation practices.\nScientific publications relevant to structural biology, bioinformatics, proteomics or biological data resources.\nStrong communication, collaboration and problem-solving skills.\nYou might also have\nFamiliarity with integrative/hybrid modelling, structure prediction or macromolecular modelling.\nExperience with mass-spectrometry-based proteomics, particularly XL-MS, CF-MS or AP-MS.\nExperience with community data standards, such as IHMCIF, mmCIF, mzIdentML, SDRF-Proteomics.\nExperience developing data validators, conversion tools, deposition systems or scientific web services.\nFamiliarity with REST APIs, databases, containerisation technologies or workflow-management systems.\nExperience in data visualisation and analysis.\nExperience using AI-assisted coding tools responsibly, with appropriate testing, code review, documentation and validation.\nExperience working in international and interdisciplinary teams.\nExperience reporting and presenting scientific topics.\nIf you don't meet every requirement but believe you have the skills and are keen to develop your expertise, we encourage you to apply. Please use your cover letter to tell us how your skills and experience relate to the role, including any relevant transferable experience, and what interests you about this opportunity.\nContract length: 3 years fixed-term (grant based contract)\nSalary: Grade 5 or Grade 6, salary from £3,452 or £3,861 after tax, plus generous benefits and financial allowances based on individual circumstances. Excluding 12.99% personal pension and insurance contributions.\nInterviews: Initial interviews via Zoom are expected to take place in November 2026. Further details will be provided to shortlisted candidates.\nWhy join us\nDo something meaningful\nAt EMBL-EBI you can apply your talent and passion to accelerate science and tackle some of humankind's greatest challenges. EMBL-EBI, part of the European Molecular Biology Laboratory, is a worldwide leader in the storage, analysis and dissemination of large biological datasets. We provide the global research community with access to publicly available databases and tools which are crucial for the advancement of healthcare, food security, and biodiversity.\nJoin a culture of innovation\nWe are located on the Wellcome Genome Campus, alongside other prominent research and biotech organisations, and surrounded by beautiful Cambridgeshire countryside. This is a highly collaborative and inclusive community where our employees enjoy a relaxed atmosphere. We are committed to ensuring our employees feel valued, supported and empowered to reach their professional potential. Watch this video to see how EMBL-EBI makes an impact.\nEnjoy lots of benefits:\nFinancial incentives: Monthly family, child and non-resident allowances, annual salary review, pension scheme, death benefit, long-term care, accident-at-work and unemployment insurances\n\nFlexible working arrangements - including hybrid working patterns\n\nPrivate medical insurance for you and your immediate family (including all prescriptions and generous dental & optical cover)\n\nGenerous time off: 30 days annual leave per year, in addition public holidays\n\nRelocation package including installation grant (if required)\n\nCampus life: Free shuttle bus to and from work, on-site library, subsidised on-site gym and cafeteria, casual dress code, extensive sports and social club activities (on campus and remotely)\n\nFamily benefits: On-site nursery, 10 days of child sick leave, generous parental leave, holiday clubs on campus and monthly family and child allowances\n\nBenefits for non-UK residents: Visa exemption, education grant for private schooling, financial support to travel back to your home country every second year and a monthly non-resident allowance.\n\nFor detailed information please visit our employee benefits page here.\nWhat else you need to know\nInternational applicants: We recruit internationally and successful candidates are offered visa exemptions. Please take a look at our International Applicants page for further information.\n\nEMBL is a signatory of DORA. Find out how we apply DORA principles to our recruitment and performance assessment processes here.\n\nDiversity and inclusion: At EMBL, we believe that diverse teams drive innovation and scientific excellence. We encourage applications from candidates of all genders, identities, nationalities and/or any other diverse backgrounds.\n\nHow to apply: To apply please submit a cover letter and a CV through our online system. Applications will close at 23:59 CET on the date shown below. We aim to provide a response within two weeks after the closing date.\n\nClosing Date\n03/11/2026","description_format":"text","description_chars":9605,"description_truncated":false,"requirements":{"experience_years_min":null,"management_years_min":null,"team_size_min":null,"manages_managers":false,"education":{"level":"master","optional":false},"security_clearance":false,"languages":[]},"benefits":["Annual leave","Cafeteria","Flexible schedule","Health insurance","Hybrid work","Parental leave"],"hiring_locations":[{"name":"United Kingdom","iso":"GB","kind":"country"}],"hiring_excludes":[],"relocation_offered":true,"industries":["Bioinformatics","Research Institutes"],"lifecycle":[{"event":"open","at":"2026-10-14T09:56:35Z"}],"visa":[],"liveness":{"score":90,"band":"hot","label":"Hiring now","p_open":1,"p_active":0.903,"p_room":1,"age_days":2,"expected_fill_days":25,"reasons":["conf:15","velocity","win:early"],"computed_at":"2026-10-15T05:46:00Z"},"pay":null,"html_url":"https://alion.io/job/embl-bioinformatician-structural-proteomics-integrative-modelling","json_url":"https://alion.io/job/embl-bioinformatician-structural-proteomics-integrative-modelling.json","meta":{"generated_at":"2026-10-15T08:01:02Z","cache_seconds":300,"methodology":"https://alion.io/methodology","terms":"https://alion.io/terms","contact":"https://alion.io/contact","api":"https://alion.io/developers","about":"Alion is a live layer of people, companies and AI agents: who they are, whether they are real and active right now, what they do and how to work with them, readable by people and by agents and paid per call.","catalog":"https://alion.io/catalog.json","usage":{"tier":"crawler_verified","counted_by":"address","units_charged":1,"used_today":12200,"day_limit":null,"remaining_today":null,"minute_limit":300,"resets_at":"2026-10-16T00:00:00Z"}},"offers":[{"id":"company.slices","title":"One company in depth, by slice","status":"live","price":{"credits":0.02,"usd":0.002,"plus_per_slice":{"credits":0.05,"usd":0.005}},"unit":"per company, plus each slice with data","note":"the employer in depth","call":{"mcp_tool":"get_company","arguments":{"id":6973},"rest":"https://alion.io/mcp/rest/get_company?id=6973"},"human":"https://alion.io/catalog?offer=company.slices&for=job%2Fembl-bioinformatician-structural-proteomics-integrative-modelling"},{"id":"market.stats","title":"A market slice: pay, demand and time to fill","status":"live","price":{"credits":1,"usd":0.1},"unit":"per slice","note":"pay, demand and time to fill for this role and place","call":{"mcp_tool":"market_stats"},"human":"https://alion.io/catalog?offer=market.stats&for=job%2Fembl-bioinformatician-structural-proteomics-integrative-modelling"},{"id":"job.search","title":"Open jobs by role, technology, place, pay and visa","status":"live","price":{"credits":0.02,"usd":0.002},"unit":"per posting in a list","note":"similar open postings","call":{"mcp_tool":"search_jobs"},"human":"https://alion.io/catalog?offer=job.search&for=job%2Fembl-bioinformatician-structural-proteomics-integrative-modelling"},{"id":"company.verify","title":"Is this company real and active right now","status":"pilot","price":null,"unit":"per company","request":{"url":"https://alion.io/catalog/request","method":"POST","body":"{\"offer\": \"company.verify\", \"for\": \"job/embl-bioinformatician-structural-proteomics-integrative-modelling\", \"note\": \"what you need it for\"}"},"human":"https://alion.io/catalog?offer=company.verify&for=job%2Fembl-bioinformatician-structural-proteomics-integrative-modelling"}]}