Société Française de Bioinformatique

The Diz-Muñoz group together with the Korbel group at the European Molecular Biology Laboratory (EMBL) are seeking a highly-motivated data scientist, computational biologist or bioinformatician who will work as a research data and software engineer in spatial/single-cell omics. The successful candidate will provide algorithmic and data analysis support to allow linking cutting-edge spatial and single-cell transcriptomics datasets from human donors and cancer patients with biomechanical datasets.

Your role

You will be involved in as well as provide support in the set up, implementation and optimization of computational methods that bridge and integrate between various large-scale spatial molecular measurements which includes: spatial omics, mechanical measurements of tissue stiffness, and single cell methods to resolve spatial data to individual cell layers. The scope of work will encompass data management of large-scale spatial molecular and mechanical data, QC, segmentation and processing, and all levels of analysis in collaboration with scientists in the Diz-Muñoz and Korbel groups. The role provides opportunities to train others in courses and through one-to-one support/training interactions.

The successful candidate will be able to interact with a community of experts including a large support network in data science, omics and imaging at EMBL. Successful applicants will have the ability to constantly expand their skill set through a rich set of courses and conferences at the EMBL.

The candidate will interact with “wet lab” and computational scientist in the Diz-Muñoz and Korbel groups and will be responsible to/for:

• Mapping single cell (e.g. scRNAseq) to spatial omics data.
• Integrating spatial transcriptomics, single cell transcriptomics and associated datasets (in particular, data on the biomechanical stiffness of tissues).
• Quality control. Data and metadata organisation and management.

You have

• Either a PhD, or a MSc with several years of work experience in Bioinformatics, Computational Biology, Computer Science, Mathematics, Physics or a related field. The ideal candidate would have proficiency in python and R.
• Ideally you will have worked with single-cell and/or spatial omics datasets in the past. There are suitable training opportunities at EMBL to further develop your skill set.
• The ideal applicant should have demonstrated the ability to work independently, and ideally also creatively.
• The candidate should have excellent communications skills and be able to articulate clearly the technical needs, set clear goals and work within an interdisciplinary setting, communicating with other scientists.

You might also have

• Expertise in machine learning
• Expertise in cloud computing