Scanpy Data Jobs

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2d ago

Data Scientist II

Axle Rockville, MD

Rockville, MD

2d ago

$130k - $145k/yr Full time Python Analytics Anndata

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Job Description

Axle is seeking a Data Scientist II to support the National Cancer Institute (NCI) at the NIH in Rockville, MD, with a salary range of USD 130,000 to 145,000 per year.

Responsibilities

Design, implement, and maintain reproducible bioinformatics pipelines for diverse biomedical data types including genomic, transcriptomic, single-cell, spatial, proteomic, metagenomic, metabolomic, and clinical datasets; develop reusable transformation logic and curated datasets for analytics, dashboards, APIs, notebooks, and downstream research workflows.
Collaborate on multi-omics analyses for NCI CBIIT labs, covering bulk RNA-seq workflows (quality control, differential expression, gene set enrichment analysis), single-cell RNA-seq (clustering, UMAP/t-SNE visualization, cell type annotation, DEG), and Digital Spatial Profiling tasks (annotation, QC, normalization, spatial deconvolution, volcano plots, heatmaps).
Enable reliable data movement from source systems into analysis-ready formats; support ingestion, curation, metadata capture, source-to-target mapping, schema management, provenance tracking, and long-term maintainability of data products.
Apply statistical methods and machine learning techniques to biomedical data, including hypothesis testing, regression, clustering, dimensionality reduction (PCA, UMAP, t-SNE), and classification; incorporate AI or LLM-based extraction where appropriate with clear validation and stakeholder communication.
Develop and support researcher-facing applications and visualizations, including interactive dashboards (Shiny, Streamlit), notebooks, reports, and APIs to explore multi-omics and clinical data; assist with figure generation for QC, differential expression, pathway, and spatial analyses.
Collaborate with data scientists, bioinformaticians, researchers, developers, and government stakeholders to translate scientific needs into technical specifications, data models, and reusable workflows that accelerate biomedical research.

Requirements

Education and background: Bachelor's degree in Data Science, Bioinformatics, Computer Science, Biological Sciences, or a related field; advanced degree preferred, or equivalent experience. Demonstrated experience in data-intensive roles supporting biomedical research or scientific computing.
Data science and bioinformatics expertise: Proficiency in Python and R for analysis, scripting, and visualization; hands-on experience with at least two omics data types such as bulk RNA-seq, scRNA-seq, spatial transcriptomics, proteomics, metagenomics, or GWAS.
Analytical skills: Strong foundation in statistical modeling, dimensionality reduction, clustering, differential expression analysis, and pathway analysis; experience with structured, semi-structured, and unstructured data across relational and data lake environments.
Collaboration and communication: Excellent problem-solving abilities with the ability to communicate across technical and non-technical audiences; capable of translating scientific needs into technical solutions and clearly articulating risks, assumptions, and limitations.
Domain alignment: Genuine interest in biomedical and translational research; ability to quickly learn domain terminology and workflows, with awareness of data governance, privacy, and compliance requirements for clinical and research data.

Technologies

Python, R, Shiny, Streamlit, Snowflake, Databricks, Galaxy, Terra, Nextflow, WDL, Snakemake, Singularity, CWL, Scanpy, Squidpy, SCIMAP, AnnData, Jupyter, Posit Connect, AWS, EC2, S3, Lambda, SLURM, SGE, NIH Biowulf

Benefits

100% Medical, Dental & Vision Coverage for Employees
Paid Time Off and Paid Holidays
401K match up to 5%
Educational Benefits for Career Growth
Employee Referral Bonus
Flexible Spending Accounts: Healthcare, Parking Reimbursement Account, Dependent Care Assistant Program, Transportation Reimbursement Account

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