Flagship Pioneering

Scientist, Computational Sensing

Flagship Pioneering$115K — $165K *
Pharmaceuticals & Biotech
Less than 5 years of experience
Job Overview by Ladders

Qualifications

  • Master's degree plus 3+ years of relevant industry experience, or PhD in a quantitative discipline.
  • Strong programming skills in Python and scientific computing environments.
  • Experience analyzing complex biological or time-series datasets.
  • Solid background in statistics, machine learning, signal processing, or Bayesian modeling.
  • Comfortable working across experimental and computational domains.
  • Clear communicator in both written and verbal formats.

Responsibilities

  • Analyze nanopore and electrophysiology datasets to identify meaningful signal features.
  • Develop and implement computational workflows for event detection and classification.
  • Build quantitative models connecting measurements to molecular identity and function.
  • Collaborate with experimental scientists to interpret results and guide future experiments.
  • Partner with teams in protein science and machine learning to enhance platform capabilities.
  • Establish best practices for benchmarking and validation as the platform scales.

Benefits

  • Healthcare coverage
  • Annual incentive program
  • Retirement benefits
  • Broad range of additional benefits
Full Job Description
Position Overview

We are looking for a Bioinformatics Scientist to join our Computational Team to help build the analytical foundation that connects nanopore measurements to biological understanding. This role sits at the intersection of biology, physics, signal processing, and machine learning - you will work directly with experimental scientists and engineers to develop methods that transform complex biological measurements into actionable scientific insight.

This role requires creating and implementing standard pipeline, and goes beyond them. Here, you will build fundamental approaches to understanding and processing electronic data into an interpretable format and create methods to transform that data into actionable sequencing outputs. The problems are open-ended, and many of the analytical frameworks don't exist yet. The right person enjoys working with noisy experimental data, building quantitative models from first principles, and collaborating across disciplines.

What You Will Do
  • Analyze nanopore and electrophysiology datasets to identify biologically meaningful signal features.
  • Develop and implement computational workflows for event detection, classification, and molecular fingerprinting.
  • Build quantitative models that connect nanopore measurements to molecular identity, structure, and function.
  • Collaborate with experimental scientists to interpret results and shape the direction of future experiments.
  • Partner with protein science, signal processing, and machine learning teams to improve platform performance and analytical capabilities.
  • Help establish best practices for benchmarking, validation, and uncertainty quantification as the platform scales.
Qualifications

Required
  • Master's degree plus 3+ years of relevant industry experience, or PhD in Computational Biology, Biophysics, Bioengineering, Physics, Applied Mathematics, Computer Science, Electrical Engineering, or a related quantitative discipline.
  • Strong programming skills in Python and scientific computing environments.
  • Experience analyzing complex biological, physical, or time-series datasets - particularly in the presence of noise and experimental variability.
  • Solid background in at least two of: statistics, machine learning, signal processing, or Bayesian modeling.
  • Comfortable working across experimental and computational domains; able to engage meaningfully with wet-lab scientists on data interpretation.
  • Clear scientific communicator - written and verbal.

Preferred
  • Hands-on experience with nanopore technologies, electrophysiology, or single-molecule measurement platforms.
  • Experience applying deep learning or probabilistic modeling to biological or physical datasets.
  • Background in computational biophysics or time-series analysis of high-dimensional biological signals.


The salary range for this role is $115,000 - $165,000. Compensation for the role will depend on a number of factors, including a candidate's qualifications, skills, competencies, and experience. FL110 currently offers healthcare coverage, annual incentive program, retirement benefits and a broad range of other benefits. Compensation and benefits information is based on FL110's good faith estimate as of the date of publication and may be modified in the future.

About Flagship Pioneering

Flagship Pioneering is a life sciences innovation enterprise that conceives, creates, resources, and develops first-in-category life sciences companies. The firm operates through its Flagship Labs unit, which is a dedicated innovation foundry that invents and launches transformative companies. Flagship Pioneering has created over 100 scientific ventures, resulting in over $34 billion in aggregate value, 500+ issued patents, and more than 50 clinical trials for novel therapeutic agents. The firm's portfolio includes companies in the fields of therapeutics, health technologies, and sustainability. Flagship Pioneering was founded in 2000 and is headquartered in Cambridge, Massachusetts.
Learn more about Flagship Pioneering
Size
500 employees
Industry

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