Make Your Mark with a Job at Alphanumeric

 

Job Details



Scientific Knowledge Engineer  ,   Posted: 6/13/2025
Job Description

Job ID#:

8221

Positions Available:

2


Alphanumeric is hiring a Scientific Knowledge Engineer (Remote | W2 Only)

Client: Global pharmaceutical company (20+ year partnership)
Location: Fully Remote - No onsite requirement - Candidates will need to be in the following cities - Seattle, Boston, Philadelphia, San Francisco
Employment Type: W2 only
Pay Range: $85.50 - $90.45 hourly

Join Alphanumeric in supporting life-changing innovation in healthcare. We're hiring a Scientific Knowledge Engineer to support our long-term pharmaceutical client's R&D team focused on enabling AI-powered drug and vaccine discovery through scalable scientific data modeling and integration.


Key Responsibilities:

  • Define schemas, data models, and controlled vocabularies to support the development of value-adding scientific data products
  • Ensure quality control through validation and verification of data mapping specifications intended for industrialization by platform engineering teams
  • Translate complex scientific and business needs into defined, deliverable business and data requirements in collaboration with product managers and engineers
  • Enable integration of large-scale biological datasets to support predictive modeling of therapeutically relevant protein complexes and antigen conformations for vaccine and drug discovery
  • Align internal data standards with external ontologies (industry and academic) to ensure consistency and downstream usability for analytics and AI modeling
  • Profile scientific data sources and provide subject matter expertise to both the Onyx platform and R&D teams outside of Onyx
  • Ensure scientific data meets platform ingestion criteria, including appropriate metadata for indexing, structuring, and standardization
  • Communicate engineering and metadata standards to third-party data providers to support scalable and automated ingestion
  • Act as a scientific data SME to bridge the gap between deep domain knowledge and actionable data insights

 
Job Requirements

 

Qualifications:

  • Bachelor's degree in Life Sciences, Bioinformatics, Data Science, or a related field
  • Minimum of 5 years of experience working in data science, scientific informatics, semantic technologies, or related areas

Preferred Experience (Choose One or Both Focus Areas):

Track 1: Data Harmonization Focus

  • Jupyter Notebooks, Python
  • NextFlow pipelines
  • Bioinformatics / NGS workflow familiarity
  • GEO, ArrayExpress, CellxGene, EGA
  • GitHub, SQL, LinkML
  • Ontology familiarity: DOID, UBERON, CL, NCBITaxon
  • anndata format (nice to have)
  • Regular expressions, advanced spreadsheet use
  • Google Cloud (nice to have)

Track 2: Semantic Technology Focus

  • Tools: Protégé, Semaphore, TopQuadrant
  • Technologies: RDF, RDFS, OWL, SPARQL, GraphQL
  • Experience working with knowledge graphs
  • Familiarity with ontology repositories: BioPortal, OLS
  • Biology or life science background preferred

Additional Info:

  • W2 only - no C2C or 1099
  • Remote role with flexible collaboration across teams
  • Contribute to large-scale efforts supporting scientific discovery, medical knowledge integration, and data-driven innovation

Why Join Alphanumeric?

At Alphanumeric, we combine the agility of a tech company with the mission of a life sciences leader. Since 1979, we've helped healthcare and pharmaceutical clients deliver meaningful change. We treat our candidates like part of the family-because they are.

Apply today to Make Your Mark with Alphanumeric!




 

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