Computational Scientist

Job Description

Computational Scientist (Contract)
Location: South San Francisco, CA (Onsite)
Duration: 12-Month Contract
Schedule: Full-Time, 40 Hours per Week
Advance Cutting-Edge Computational Biology Research
We are seeking a highly motivated Computational Scientist to support a groundbreaking research initiative focused on large-scale multimodal perturbation datasets and machine learning applications in biology. This role offers the opportunity to work at the intersection of computational science, deep learning, and experimental biology while contributing to high-impact research programs.


The successful candidate will take ownership of a defined and business-critical research workstream, collaborating closely with project leadership to better understand how different components of large multimodal datasets influence model performance and biological insights.
What You'll Do
As a Computational Scientist, you will leverage advanced machine learning and statistical methods to analyze complex biological datasets and evaluate model performance against experimental outcomes.
Key Responsibilities

• Train, optimize, and evaluate deep learning models using large-scale multimodal perturbation datasets.
• Design and execute controlled train/test split experiments to assess how specific subsets of data contribute to model learning and predictive performance.
• Analyze model outputs and compare findings against experimental biological data.
• Develop quantitative frameworks to understand data value, model performance, and generalization capabilities.
• Conduct rigorous statistical analyses and communicate results to project stakeholders.
• Utilize existing analysis pipelines, computational infrastructure, and cluster computing resources to execute research objectives efficiently.
• Maintain reproducible, well-documented analytical workflows and scientific code.

Why This Opportunity?

• Full-time contract position with an initial 12-month engagement.
• Ownership of a clearly defined, high-visibility research project with measurable deliverables.
• Direct collaboration with project leadership and experienced computational scientists.
• Access to established analytical frameworks, documented codebases, and high-performance computing resources.
• Opportunity to contribute to innovative research alongside leading professionals in computational biology, machine learning, and biotechnology.

Required QualificationsEducation

• PhD in a computational discipline or equivalent research experience.

Preferred Fields of Study

• Computational Biology
• Computational Sciences
• Statistics
• Machine Learning
• Related quantitative disciplines

Technical Requirements

• Proven experience training and evaluating deep learning models using PyTorch .
• Experience designing and executing controlled machine learning experiments on SLURM-based computing clusters .
• Strong foundation in applied statistics and quantitative analysis.
• Advanced proficiency in scientific Python, including:
  • NumPy
  • Pandas
  • Scanpy
  • AnnData
• Experience building reproducible, documented, and scalable data analysis workflows.

Preferred Qualifications
Candidates with the following experience are especially encouraged to apply:

• Single-cell transcriptomics analysis.
• CRISPR perturbation screening analysis, including Perturb-seq or similar methodologies.
• Representation learning and advanced machine learning techniques.
• Biological or scientific image analysis.
• Experience working with large-scale biological datasets and computational genomics workflows.

Ideal Candidate
The ideal candidate combines deep technical expertise in machine learning and scientific computing with a strong research mindset. You are comfortable working independently, designing rigorous experiments, and translating complex computational results into meaningful scientific insights. You thrive in collaborative research environments and are excited by opportunities to advance the understanding of biological systems through data-driven approaches.


Keywords: Computational Scientist, Computational Biology, Machine Learning Scientist, Deep Learning, PyTorch, Single-Cell Genomics, Transcriptomics, CRISPR Screening, Perturb-Seq, Scientific Computing, Data Science, Representation Learning, SLURM, Python, NumPy, Pandas, Scanpy, AnnData, Biotechnology Research, Bioinformatics, Research Scientist, South San Francisco Jobs, Contract Scientist.

Meet Your Recruiter

Ahad Khan


About South San Francisco, CA

Ready to take the next step in your career journey? Explore our job opportunities in the vibrant area surrounding South San Francisco, California! Known for its proximity to the iconic Golden Gate Bridge and the bustling tech hub of Silicon Valley, this region offers unrivaled growth potential and a dynamic work environment. With a unique blend of culture, including the renowned SFMOMA art museum, the lively Castro District, and delectable cuisine like the famous sourdough bread at Boudin Bakery, South San Francisco is the perfect place to thrive professionally while enjoying the beauty of nearby parks like Golden Gate Park and the breathtaking views of the Pacific Ocean. Join us in discovering the endless possibilities for your career in this enchanting region!