Software Engineer, AI Engineer, Machine Learning​/ ML Engineer

We are looking for a Developer with a strong record in software development and interest in developing AI-based systems for one of the most internationally used data resources in biological science, Uni Prot. Our team is very dynamic and interdisciplinary, comprising talented and enthusiastic software engineers and bioinformaticians working closely together with biologists and scientists. The Uni Prot resource is one of the most internationally used resources for protein sequence and functional annotation, providing comprehensive, high-quality, and freely accessible data to a large and diverse research community in genomics, proteins and proteomics.

As part of the Computational Annotation team in Uni Prot, you will be working in the design, development and maintenance of systems that automatically assign high-quality functional annotations to millions of unreviewed protein sequences. Scalability will be an important feature of your high quality, concise, well tested and documented code. You will also be interested in exploring innovative AI-driven approaches to enhance annotation quality and scalability.

Your role As a Software Engineer or Bioinformatician in the Computational Annotation team, you will contribute to the design, development, and optimization of Uni Prots large-scale annotation systems. Your responsibilities will include:
Designing, developing, and maintaining new solutions for Uni Prots computational annotation systems to expand the coverage and accuracy of protein function predictions. Enhancing and Optimizing pipelines by migrating to scalable workflow systems (e.g. Python, Nextflow) to ensure reliable and efficient execution during Uni Prot production releases. Contributing to infrastructure modernization and the migration of services towards containerized and Kubernetes-based deployments.

Developing Large Language Model (LLM)-based applications, such as text summarization, semantic search, and other AI-based services. Working closely with Uni Prots scientific biocurators to ensure systems produce accurate and biologically meaningful results. Collaborating with external partners and research projects that support and extend automatic annotation capabilities. You have A minimum of 3 years of professional software engineering experience. Proficiency in Java (including Spring Framework) and Python.

A solid understanding of software development processes and software design principles. Strong knowledge of relational databases (SQL and data modelling), search engines (e.g. Solr), as well as experience handling standard data formats (XML, JSON). Understanding of microservices architecture, RESTful APIs, and asynchronous messaging systems. Familiarity with Unix-based commands and shell scripting (e.g. Bash).

Experience with version control systems (e.g. Git) and understanding of CI/CD pipelines, containerisation (Docker), and Kubernetes deployment environments. Excellent communication skills and ability to work towards tight deadlines. You may also have Experience developing or using AI applications

Experience with No

SQL databases (e.g. Mongo

DB).

Experience with big data processing frameworks (e.g. Apache Spark). Knowledge of Large Language Model (LLM) integration, Retrieval-Augmented Generation (RAG), or Agentic AI frameworks.

Experience with high-performance computing (HPC) environments (e.g. SLURM), including use of GPU nodes for accelerating large-scale or AI-driven pipelines. Familiarity with workflow systems (e.g. Nextflow). Apply now! Benefits and Contract Information Financial incentives: depending on circumstances, monthly family/marriage allowance of £278 monthly child allowance of £336 per child. Non resident allowance up to £569 per month. Annual salary review, pension scheme, death benefit, long-term care, accident-at-work and unemployment insurances Hybrid working arrangements Private medical insurance for you and your immediate family (including all prescriptions and generous dental & optical cover) Generous time off : 30 days annual leave per year, in addition to eight bank holidays Relocation package including installation grant (as applicable) Campus life:
Free…