Machine Learning Engineer (Data science / Deep learning)

Job title:

Machine Learning Engineer (Data science / Deep learning)

Company

Francis Crick Institute

Job description

Salary for this Role:From £48,600 with benefits, subject to skills and experienceJob Title: Machine Learning Engineer (Data science / Deep learning)Reports to: Amy StrangeClosing Date: 03/Apr/2025 23.59 GMTJob Description:Machine Learning Engineer (Data science / Deep learning)From £48,600 with benefits, subject to skills and experienceContract term: 3 yearsReports to: Amy Strange, Software Engineering and AI Facility Lead and MANIFEST Consortium Lead, Prof. Samra TurajlicThe role will be placed in the Software Engineering and AI facility and will support the MANIFEST research platform led by Prof. Samra Turajlic (Cancer Dynamics Laboratory).The Research Group & ProjectTHE MANIFEST RESEARCH PLATFORMHarnessing the immune system to treat cancer has revolutionised survival outcomes for many patients. Immune checkpoint inhibitor therapies which unleash the brakes from immune cells to kill cancer cells, have become standard of care for many cancer subtypes. The success of existing, emerging and future immunotherapies and their routine use in the NHS is dependent on the appropriate tools, data and technology to rationalise their use and manage their side effects. Nevertheless, almost no biomarkers today can effectively distinguish responders from non-responders, predict toxicity, or guide treatment choices.An exciting Machine Learning Engineer post is available in the Cancer Dynamics Laboratory. The post holder would work across multiple on-going projects of the lab, including a dedicated role within the MANIFEST project (“Multiomic ANalysis of Immunotherapy Features Evidencing Success and Toxicity”), a newly formed ambitious multi-stakeholder consortium involving academic, industry and NHS partners to deliver deep multi-omic profiling for patients with cancer undergoing immunotherapy. The MANIFEST consortium represents a diverse group of UK-wide experts in cancer research and clinical care comprising major NHS trusts, academic institutes and universities, and industry partners. This grant is funded by the UK Office of Life Sciences (OLS) and the Medical Research Council (MRC).MANIFEST addresses the critical challenge in cancer treatment: predicting how patients will respond to immunotherapy. By integrating multio-omic data and innovative methodologies, this platform aims to enhance treatment precision and effectiveness.More information about research interests and on-going projects of Cancer Dynamics Laboratory can be found here:More information about MANIFEST can be found here: .SUMMARY OF THE ROLEWe are looking for a data scientist / machine learning engineer to join the project team to work on integrated and multimodal approaches to predicting immune-oncology response for the unique dataset being compiled as part of the MANIFEST consortium. Specifically, this role will be focussed on multiomics (RNASeq, WES, WGS), blood and clinical data initially but there may be opportunity to expand into imaging modalities later on. This is an opportunity to develop state-of-the-art deep learning methods for a remarkable dataset.The post holder will work closely with the Software Engineering and AI team and Cancer Dynamics lab within the Francis Crick Institute. They will also interact closely with other laboratory staff from the MANIFEST platform, as well as with post-docs, students, scientists, technicians from the lab, and scientific partners of MANIFEST.Key ResponsibilitiesThese include but are not limited to:To develop machine learning based analyses approaches in accordance with the requirements of the projectStay current with the latest thinking in the field through building a library of related publicationsDevelop approaches to evaluate the performance of ML models in relation to project objectivesDesign and develop high-quality, optimised and maintainable pipelines and software to meet project needsWork in close collaboration with clinical scientists, bioinformaticians and other project team members both within the Facility and MANIFEST platform to understand the full range of data and meta-data being produced for the projectAssist with creating and supporting a productive and efficient standardised model development work-flow as appropriate for the project (including versioning and automation)Produce, update or otherwise maintain documentation for project, and present results updates back to the project team and other collaboratorsAssist with workload planning by providing estimatesProvide engineering support and mentoring as required to other members of the project teamTo attend, and report research results at regular group meetings.To write and present work to MANIFEST stakeholders as required.To engage in relevant MANIFEST programme workflows with academic, NHS and industry partners.Person SpecificationThe post holder should embody and demonstrate our core Crick values: bold, imaginative, open, dynamic and collegial, in addition to the following:Essential skills/experienceStrong mathematical/statistical background with demonstrable experience in developing deep learning algorithms for researchExpert level technical programming skills, with emphasis on Python (NumPy, PyTorch etc) and preferably experience with RExperience of applying deep learning techniques to omics datasetsAbility to read machine learning research articles and implement the algorithms describedExperience of working with high performance computing clusters (Bash, Slurm etc)Good understanding of MLOps for experiment tracking, model and data versioning, hyperparameter tuning and results visualisationExperience in database technologies: SQL, NoSQL.An understanding of good software engineering principlesAn understanding of reproducibility, repeatability and replicability for scientific softwareAble to work both autonomously and collaboratively in multidisciplinary teamsExcellent communication skills, with the ability to build effective relationships at all levels and the ability to communicate technical concepts to a non-technical audienceFirst- rate problem solving skillsAble to work accurately under pressure and delivering with tight deadlinesDegree in Computer Science, Machine Learning or equivalent experience and a demonstrable track record of working on these types of problems with impactful resultsDesirable skills/experienceFamiliarity with SOTA methods for combining multi–omics datasets ideally including natural language methodsKnowledge of XAI approaches, uncertainty quantification and safety in the use of AI in a medical settingBackground knowledge of immune-oncologyExperience of working with clinical data and/or developing tools ultimately to be used in a clinical environmentExperience with other technologies/languages (C++, Matlab, Nextflow)Working experience in large-scale omics data analysis applications and databasesExperience of working with Public Cloud (AWS/GCP/Azure)Experience of Agile or similar delivery oriented project methods and toolsBuilding data visualisation toolsA publication history in applicable domainsTechnical writing skillsAbout UsAt the Crick, we conduct research at the forefront of biomedical research. We combine rigour with an open and collaborative culture, and are outward-looking, reflecting our status as a partnership of six organisations aiming to pool knowledge, ideas and resources.We have a wide research portfolio with no divisions or departments, bringing biomedical researchers together with clinicians, physical scientists and applied scientists from our pharmaceutical partners.We aim to attract the most talented researchers and support them to tackle innovative research questions. Our science technology platforms provide our researchers with access to state-of-the-art technology and expertise.We provide an excellent learning environment with dedicated education programmes in public engagement with science, education and personal development, and a postdoc training programme that prepares scientists for leadership roles in science.If you are interested in applying for this role, please apply via our .All offers of employment are subject to successful security screening and continuous eligibility to work in the United Kingdom.If you require a visa to work in the UK we will help support your application should you be successfulFind out what benefits the Crick has to offer:For more information on our great pay and benefits package please click here:Equality, Diversity & Inclusion:We welcome applications from all backgrounds. We are committed to providing equal employment opportunities, regardless of ethnicity, nationality, gender, sexual orientation, gender identity, religion, pregnancy, age, disability, or civil partnership, marital or family status. We particularly welcome applications from people who are Minority Ethnic as they are currently underrepresented in the Crick at this level.Diversity is essential to excellence in scientific endeavour. It increases breadth and perspective, leading to more innovation and creativity. We want the Crick to be a place where everyone feels valued and where diversity is celebrated and seen as part of the foundation for our Institute’s success.The Crick is committed to creating equality of opportunity and promoting diversity and inclusivity. We all share in the responsibility to actively promote dignity, respect, inclusivity and equal treatment and it is our aim to ensure that these principles are reflected and implemented in all strategies, policies and practices.Read more on our website:

Expected salary

Location

London

Job date

Sat, 29 Mar 2025 02:32:35 GMT

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