Senior Scientist II, Bioinformatics (Spatial Proteomics and Single Cell Omics) Full-time NEW

Senior Scientist

The Immune Profiling and Systems Immunology (IPSI) team in Discovery Immunology at Cambridge, Massachusetts is seeking a highly skilled candidate with expertise in spatial proteomics, single cell multi-omics data integration, and machine learning/artificial intelligence. The ideal candidate will have a strong background in bioinformatics and computational biology, with deep experience analyzing complex proteomics and spatial datasets, including CyTOF, Flow Cytometry and Imaging Mass Cytometry (IMC) – based proteomics, and related high-dimensional data modalities. This role will support the analysis of internal datasets and contribute to the identification of novel therapeutic targets for autoimmune and chronic inflammatory diseases.

Key Responsibilities:

• Perform advanced analysis of high-dimensional proteomics and spatial datasets, including CyTOF, Flow Cytometry, and IMC to generate actionable biological insights.
• Develop, optimize, and maintain computational workflows and analytical pipelines for the processing, visualization, and interpretation of spatial proteomics and multi-omics data.
• Conduct image-based protein quantification using IMC and spatial technologies, with a focus on cellular localization, tissue architecture, and co-localization of immune and stromal components.
• Apply machine learning and AI-based approaches and network dynamics to identify patterns, classify disease states, prioritize biomarkers, and support target discovery across integrated multi-omics datasets.
• Collaborate with immunologists, biologists, computational scientists, and data engineers to translate analytical findings into preclinical and translational research applications.
• Integrate proteomics data with transcriptomic, spatial, and other omics modalities to build a more comprehensive view of disease mechanisms.
• Communicate complex analytical methods, results, and biological interpretations to both technical and non-technical stakeholders.
• Contribute to scientific publications, conference presentations, and other internal or external research deliverables as needed.

Qualifications

Education:

• BS, MS, or PhD with typically 12+ (BS), 10+ (MS), or 4+ (PhD) years of experience in bioinformatics, computational biology, systems immunology, proteomics, data science, or a related field.

Technical Expertise:

• Proficiency in R and Python, with experience working in Unix/Linux environments.
• Strong foundation in statistical analysis, data modeling, machine learning, and AI methods applicable to high-dimensional biological data.
• Experienced in CyTOF, flow cytometry, and single-cell omics data analysis.
• Deep expertise in IMC analytical pipelines, including tools such as Steinbock for image preprocessing, SpatialX (BioTuring) for automated data and metadata submission, phenotyping (Pixie and FlowSOM), neighborhood analysis, differential spatial workflows, and pairwise/triad interaction permutation analysis.
• Skilled in handling large-scale proteomics and multi-omics datasets, including quality control, normalization, integration, feature engineering, and downstream analysis.
• Familiarity with and image-based computational workflows, spatial analysis, network dynamics (Geneformer) and histology.

Preferred Skills:

• Experience with computational methods for protein quantification, post-translational modification analysis, and protein-protein interaction network analysis.
• Familiarity with multi-omics integration approaches, including proteomics, transcriptomics, and spatial biology datasets.
• Hands-on experience with ML/AI methods for clustering, classification, dimensionality reduction, biomarker discovery, and predictive modeling.
• Strong communication skills, with the ability to present complex data to both scientific and non-scientific audiences.
• A proactive and collaborative approach to problem-solving in a dynamic, fast-paced research environment.
• Ability to manage multiple projects simultaneously and adapt to changing priorities.
• Experience contributing to scientific publications, conference presentations, and regulatory submissions, as applicable.

Key Competencies:

• Demonstrated ability to work independently while contributing effectively to multidisciplinary teams.
• Strong organizational skills with the capacity to manage competing priorities and deliver high-quality work within deadlines.
• Commitment to continuous learning, innovation, and staying current with the latest developments in proteomics and computational biology.

Additional Information

• The compensation range described below is the range of possible base pay compensation that the Company believes in good faith it will pay for this role at the time of this posting based on the job grade for this position. Individual compensation paid within this range will depend on many factors including geographic location, and we may ultimately pay more or less than the posted range. This range may be modified in the future.
• We offer a comprehensive package of benefits including paid time off (vacation, holidays, sick), medical/dental/vision insurance and 401(k) to eligible employees.
• This job is eligible to participate in our short-term incentive programs.
• This job is eligible to participate in our long-term incentive program.

AbbVie is an equal opportunity employer and is committed to operating with integrity, driving innovation, transforming lives and serving our community. Equal Opportunity Employer/Veterans/Disabled.