Senior Spatial Bioinformatics Scientist (Remote)

Singular Genomics; San Diego (CA); Hybrid; USD 122,000 - 165,000; Full time

Benefits offered by this job

Equity

Job summary

Singular Genomics is seeking a Senior Scientist on the Bioinformatics team to advance the spatial biology platform. This role sits at the intersection of computational biology, assay development, and hands-on scientific computing, reporting into Bioinformatics and matrixed to Panel Design.

You will design and optimize targeted in situ transcriptomics panels for tissue- and disease-specific applications, develop automated workflows, and build software that enables customers to derive meaningful

Qualifications

• PhD in Bioinformatics, Computational Biology, Genomics, Computer Science or related.
• Experience analyzing spatial transcriptomics, single-cell sequencing, or related genomics datasets.
• Strong understanding of tissue biology, cell type annotation, and pathway-based biological interpretation.
• Proficiency writing analysis code in Python; able to produce clear, workable code without requiring production-software polish.
• Experience building automated analysis workflows or pipelines.
• Working knowledge of Linux-based computational environments.
• Excellent written and verbal communication skills

Responsibilities

• Support the computational design and optimization of targeted spatial transcriptomics panels for tissue- and disease-specific applications.
• Define biologically relevant panel content by integrating current literature, public datasets, and pathway knowledge to support cell type annotation and cell state characterization.
• Develop computational methods and software tools for automated panel design, probe evaluation, and panel optimization.
• Collaborate closely with molecular biology, chemistry, and assay development teams to iteratively improve probe performance and panel quality.
• Evaluate panel performance using internal datasets and external spatial and single-cell reference atlases.

Skills

Python

Linux

Spatial transcriptomics

Single-cell sequencing

Data analysis

Cloud computing (AWS)

Education

PhD in Bioinformatics, Computational Biology, Genomics, Computer Science

MS with industry experience

Tools

Docker

Nextflow

Scanpy

Seurat

Squidpy

Job description

Singular Genomics is seeking a Senior Scientist on the Bioinformatics team to advance the spatial biology platform. This role sits at the intersection of computational biology, assay development, and hands-on scientific computing, reporting into Bioinformatics and matrixed to Panel Design.

You will design and optimize targeted in situ transcriptomics panels for tissue- and disease-specific applications, develop automated workflows, and build software that enables customers to derive meaningful