Senior Multi-Omics Microbiologist for AMR & AI Insights

Spore; Paris; Hybrid; EUR 90,000 - 130,000; Full time

Benefits offered by this job

Flexible remote

Gymlib subscription

Health insurance

Swile card

Team events

Job summary

Spore.Bio in Paris seeks a PhD-level scientist to own the interpretation of multi-omics data for our AMR platform, from raw genomic, transcriptomic, and proteomic or metabolomic data through to biological insight that shapes model learning and validation.

You will work as a peer to the deep learning team, guide feature representation and multi-omics data fusion, and contribute to publications, patents, and partner-facing material in a highly collaborative, interdisciplinary environment.

Qualifications

• PhD required in microbial genomics, computational microbiology, bioinformatics, or closely related discipline.
• +10y direct experience with genomics, transcriptomics, and at least one of proteomics or metabolomics in a microbial context.
• Working understanding of bacterial population structure, evolutionary dynamics, and resistance mechanisms.
• Experience with paired genomic and quantitative susceptibility data (AST, MIC).
• Ability to work with heterogeneous, clinically-derived datasets and to assess signal vs noise.
• Proficiency with alignment-free and reference-free approaches when standard methods fail.

Responsibilities

• Multi-omics characterisation of resistance across genomics, transcriptomics, and proteomics/metabolomics.
• Genotype-phenotype linkage with paired genomic and phenotypic data.
• Data curation for model-ready pipelines, ensuring scientific rigour.
• Collaborate with the deep learning team on model design and biological framing.
• Contribute to publications, patents, and partner-facing material.

Skills

Multi-omics expertise

Genotype-phenotype fluency

Mechanistic microbiology

Data handling under real-world data

Method versatility

Collaboration with computational teams

Communication in English

Education

PhD in microbial genomics / computational microbiology / bioinformatics

Job description

Spore.Bio in Paris seeks a PhD-level scientist to own the interpretation of multi-omics data for our AMR platform, from raw genomic, transcriptomic, and proteomic or metabolomic data through to biological insight that shapes model learning and validation.

You will work as a peer to the deep learning team, guide feature representation and multi-omics data fusion, and contribute to publications, patents, and partner-facing material in a highly collaborative, interdisciplinary environment.