Katalyst CRO ยท 3 months ago
Bioinformatics Analyst III
Cambridge, MA
Contract
Onsite
Mid, Senior Level
5+ years expKatalyst CRO is focused on advancing the Single-Cell Fibroblast Atlas initiative within the IPSI organization. The Bioinformatics Analyst III will apply AI/ML and advanced computational methods to analyze large-scale single-cell datasets, supporting target discovery and driving cross-functional projects in immunology and data science.
AnalyticsBiopharmaData ManagementHuman ResourcesQuality Assurance
Responsibilities
Curate, harmonize, and analyze large-scale single-cell and spatial omics datasets (internal and public) with emphasis on fibroblast biology
Develop and optimize predictive AI/ML models to classify fibroblast states, identify regulatory networks, and generate disease-relevant insights
Integrate multi-modal data (scRNA-seq, spatial etc.) to construct a comprehensive fibroblast atlas
Collaborate with other stakeholders
By building the Fibroblast Atlas, the candidate will enable target discovery while driving cross-functional projects at the interface of data science, immunology, and translational medicine impacting the portfolio
Support senior analysts and scientists in implementing, training, and troubleshooting AI/ML models tailored to single-cell and spatial omics data
Ingest, clean, and preprocess large-scale single-cell transcriptomic and spatial datasets (public and internal) for single-cell atlas workflows
Collaborate with immunology and computational teams to translate biological questions on fibroblast states, niches, and disease roles into computational solutions
Document data curation, processing, and modeling pipelines to ensure reproducibility and transparency across the atlas project
Assist in interpreting model outputs to generate insights into fibroblast heterogeneity, tissue-specific function
Contribute to time-sensitive projects with critical deliverables, supporting target discovery and prioritization within the fibroblast atlas framework
Qualification
Required
MS degree (5+ years of experience) or PhD (0+ years of experience) in a quantitative field (Bioinformatics, Computational Biology, Computer Science, Computational Genetics, Biostatistics, AI/Machine Learning, or related discipline)
Proficiency in Python and standard ML/data science libraries
Experience working on HPC or cloud environments for large-scale omics and imaging datasets
Domain knowledge in single-cell analysis, spatial omics, or systems immunology, ideally with exposure to fibroblast or stromal cell biology
Strong attention to detail, documentation, and communication skills
Ability to independently design, execute, and troubleshoot computational workflows
Experience with NumPy, Pandas, Scikit-learn, Matplotlib, and Seaborn
Familiarity with deep learning frameworks (TensorFlow and/or PyTorch)
Proficiency with Git for version control and collaboration
Hands-on experience with single-cell data analysis tools (e.g., Scanpy, Seurat, Bioconductor, or equivalent)
Exposure to multi-modal integration methods (e.g., CITE-seq, ATAC-seq, proteomics, imaging mass cytometry, spatial transcriptomics)
Experience with OpenCV, Scikit-image, or computer vision models for imaging datasets
Knowledge of cell type annotation, clustering, and trajectory inference methods
Experience building multi-modal AI/ML models that link transcriptomic, proteomic, and imaging data
Preferred
Implementing, training AI/ML models
Data pre-processing for AI compatibility
Domain knowledge of bioinformatics
Experience working with single cell and spatial data (transcriptomics, proteomics, epigenomics etc.)
Ability to communicate results clearly
Company
Katalyst CRO
Katalyst CRO | Advancing Healthcare & Life Sciences with Expert Research & Regulatory Solutions Katalyst Healthcare & Life Sciences (Katalyst CRO) is a Global Contract Research and Knowledge Process Outsourcing Organization (CRO) dedicated to driving innovation in research, regulatory compliance, and quality excellence for pharmaceutical, biotechnology, and medical device companies worldwide.
51-200 employees
H1B Sponsorship
Katalyst CRO has a track record of offering H1B sponsorships. Please note that this does not
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2025 (37)
2024 (14)
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2020 (39)
Funding
Current Stage
Growth StageLeadership Team
John Patil
Recruiter, Pharma/CRO Staffing Division
Recent News
2024-04-07
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