Bioinformatics Analyst III

Bioinformatics Analyst III
$60 - $64/hr with medical benefits available at a cost
6 month initial contract with possibility of extension
Cambridge, MA
Hybrid schedule Monday – Friday

Orion Project Services and our largest US client are teaming up for a new contract opportunity for a Bioinformatics Analyst III out of Cambridge, MA! Our client is seeking candidates local to Cambridge with a background in Computational Biology and domain knowledge in single-cell analysis, chromatin accessibility analysis, or systems immunology.

Don’t pass on the amazing opportunity to join a market leading pharmaceutical company!!!!

Job Description:
The successful candidate will work closely with stakeholders across the TIEV (Target Identification and Validation in Immunology Discovery) group to advance the Single-Cell Atlas initiatives. The role will focus on analyzing large-scale single-cell transcriptomic and epigenomic datasets to build reference maps, define tissue-specific niches, and uncover their roles in health and disease.

Key Responsibilities:

• Curate, harmonize, and analyze large-scale scRNA-seq and scATAC-seq datasets from internal and public sources.
• Integrate multi-modal data to support single-cell atlas construction.
• Develop and apply computational and AI/ML methods to classify cell states, identify regulatory networks, and generate disease-relevant insights.
• Support interpretation of model outputs to better understand cell-state biology, tissue-specific function, and fibroblast heterogeneity.
• Collaborate with immunology, computational, and cross-functional stakeholders to translate biological questions into computational solutions.
• Document data curation, processing, and analysis pipelines to ensure reproducibility and transparency.
• Contribute to time-sensitive projects supporting target discovery and prioritization.

Qualifications:

• MS degree with 5+ years of experience, or PhD with 0+ years of experience, in a quantitative field such as Bioinformatics, Computational Biology, Computer Science, Computational Genetics, Biostatistics, AI/Machine Learning, or a related discipline.
• Proficiency in Python and standard ML/data science libraries.
• Experience working in HPC or cloud environments for large-scale omics datasets.
• Domain knowledge in single-cell analysis, chromatin accessibility analysis, or systems immunology.
• Strong attention to detail, documentation, and communication skills.
• Ability to independently design, execute, and troubleshoot computational workflows.

 Preferred Technical Skills:

• Experience with NumPy, Pandas, Scikit-learn, Matplotlib, and Seaborn
• Familiarity with TensorFlow and/or PyTorch
• Proficiency with Git for version control and collaboration
• Hands-on experience with single-cell analysis tools such as Scanpy, Seurat, or Bioconductor
• Exposure to multi-modal integration methods such as CITE-seq, ATAC-seq, or spatial transcriptomics

Additional Technical Skills (a plus):

• Experience with cell type annotation, clustering, and trajectory inference
• Knowledge of regulatory network inference and peak-to-gene linking
• Experience building multi-modal AI/ML models that connect transcriptomic, proteomic, and imaging data

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