Computational Biologist - Spatial Multi-Omics

Bayer CropScience Limited; Cambridge (MA); On-site; USD 106,400 - 159,600; Full time

Benefits offered by this job

Health care

Vision

Dental

Retirement

PTO

Sick leave

Job summary

Bayer CropScience Limited is looking for a Computational Biologist in Cambridge, MA. You will build scalable pipelines for spatial and deep visual multi-omics analysis and integrate various omics data for target discovery.

The role requires a PhD or MSc with experience in analyzing spatial data. You will collaborate with interdisciplinary teams, ensuring best practices in data analysis and statistical interpretation.

Attractive compensation and benefits package are offered.

Qualifications

• Hands-on experience analyzing mass spectrometry and transcriptomics spatial data.
• Background in image analysis and spatial statistics.
• Familiarity with spatial tools for analysis.

Responsibilities

• Build and maintain pipelines for multi-omics analysis.
• Integrate various omics data for insights.
• Collaborate with biologists and clinicians on research.

Skills

Analyzing mass spectrometry data

Spatial statistics

Image analysis

Python

R

Machine learning

Deep learning

Education

PhD in Computational Biology or related field

MSc with substantial relevant experience

Tools

R

Python

Linux/Unix

MZmine

MaxQuant

ImageJ/Fiji

Job description

Computational Biologist – Spatial Multi‑Omics

Join our Translational Sciences Cardiovascular Renal Team at the Bayer Innovation Campus in Kendall Square, Cambridge, MA.

Responsibilities

• Build and maintain scalable pipelines for spatial and deep visual multi‑omics analysis, including data ingestion, QC, normalization, batch correction, feature extraction, and annotation from mass‑spectrometry and transcriptomics platforms.
• Integrate spatial metabolomics/proteomics with transcriptomics, genomics, and histopathology images to deliver multi‑modal insights for target discovery, biomarker development, and mechanism‑of‑action studies.
• Evaluate, benchmark, and optimize tools and workflows; contribute to internal software (R/Python) and visualization frameworks to streamline spatial omics analytics.
• Perform spatially aware statistical analyses to identify regulated molecular markers across tissue regions, cell types, and phenotypes.
• Develop and apply algorithms for spatial segmentation, clustering, co‑localization, neighborhood analysis, and spatial correlation; conduct pathway/network analyses.
• Collaborate with experimental biologists, pathologists, chemists, and clinicians to shape hypotheses, design studies, and translate findings into decisions for research programs.
• Document pipelines and analyses to ensure reproducibility, compliance, and knowledge transfer; prepare clear visualizations and narratives for internal reviews, publications, and external collaborations.
• Partner with data engineering/IT to manage large spatial datasets, define metadata standards, and implement versioning, governance, and access control best practices.

Qualifications

• PhD in Computational Biology, Bioinformatics, Systems Biology, Biostatistics, Computer Science, or related field; or MSc with substantial relevant experience.
• Hands‑on experience analyzing mass spectrometry and transcriptomics spatial data, including QC, normalization, feature extraction, and statistical interpretation.
• Background in image analysis and spatial statistics (segmentation, registration, spatial point patterns, neighborhood analysis); exposure to machine learning or deep learning for omics or imaging data.
• Familiarity with MS and spatial tools like MZmine, MaxQuant, Proteome Discoverer, Skyline, OpenMS, etc.; and spatial frameworks like Squidpy, Giotto, Seurat/Spatial, Napari, ImageJ/Fiji, CellProfiler, etc.
• Experience with pathway/network analysis (e.g., KEGG, Reactome, MetaboAnalyst, Cytoscape).
• Proficiency in Python and/or R; comfort with Linux/Unix environments, high‑performance computing, and version control (Git).
• Demonstrated ability in high‑dimensional data analysis, statistics, and reproducible pipeline development.
• Solid understanding of molecular biology, biochemistry, and metabolism to interpret results and design analyses.
• Strong communication skills; experience collaborating within interdisciplinary teams and presenting complex results to diverse audiences.

Compensation and Benefits

Employees can expect to be paid a salary between $106,400.00 - $159,600.00. Additional compensation may include a bonus or commission (if relevant). Additional benefits include health care, vision, dental, retirement, PTO, sick leave, etc.

Location

United States: Massachusetts: Cambridge

Equal Opportunity Statement

Bayer is an Equal Opportunity Employer/Disabled/Veterans. Bayer is an E‑Verify Employer. Bayer is committed to providing access and reasonable accommodations in its application process for individuals with disabilities.