Scientist III – Proteome Editor Design, AI BioDesign

Allen Institute

. Lead the Proteome Editor team in building and running a rapid, repeatable design-test-learn pipeline focused on proteome editor screening .

Posted 9/24/2026full-timeSeattle • Washington • United StatesMid-LevelSenior💰 $128,050 - $160,050 per yearWebsite

Core Competencies

Role fit

Core Competencies

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Demonstrates expertise in leading proteome editor screening projects, optimizing experimental workflows, and collaborating with machine learning teams to generate model-ready datasets. Proficient in functional genomics and high-throughput screening methodologies, with a strong emphasis on data-driven experimental design and team mentorship.

Highest-signal resume keywords

PhD In BiochemistryFunctional Genomics ExperienceHigh-Throughput Screening WorkflowsData-Driven Experimental DesignTeam Leadership And Mentorship

ATS Keywords

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Applicant Tracking System Keywords

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Hard Skills

Massively Parallel Reporter AssaysMultiplexed Assays Of Variant EffectSaturation MutagenesisPlasmid Library-Based ScreeningCell-Based Synthetic EffectorsSequence-To-Function ModelingStructural ModelingNGS Library PrepCRISPR/Cas9-EditingProtein Engineering

Soft Skills

CollaborationClear CommunicationMentoring

Tools & Technologies

Golden Gate AssemblyGibson AssemblyMammalian Cell CultureStem Cell Culture

Industry Keywords

Proteome Editor ScreeningActive-Learning StrategiesExperimental BottlenecksModel-Ready DatasetsLaboratory Animals Exposure

Tech Stack

Tools & technologies

Assembly

About the role

Key responsibilities & impact

Lead the Proteome Editor team in building and running a rapid, repeatable design-test-learn pipeline focused on proteome editor screening
Design and oversee library screening and degrader evaluation experiments to generate high-quality, model-ready datasets
Partner with machine learning colleagues to define next targets, curate data, and implement active-learning strategies
Optimize flywheel performance by improving turnaround time, throughput, cost, and per-cycle model lift
Identify and remove experimental bottlenecks
Coordinate with other flywheel leads and AI BioDesign stakeholders to align priorities, timelines, and dependencies
Mentor and manage a high-performing team
Foster a collaborative culture and clear communication
Present scientific results and complex concepts internally in talks and progress reports
Present results to the external community at conferences and in publications

Requirements

What you’ll need

PhD degree in biochemistry, molecular biology, or a related field; or equivalent combination of degree and experience
Minimum 5 years of relevant post-doctoral experience
Experience with functional genomics, massively parallel reporter assays, multiplexed assays of variant effect, saturation mutagenesis, or plasmid library-based screening
Experience architecting cellular library screening workflows, such as MPRAs or other high-throughput cell-based discovery platforms
Proven ability to lead scientific projects and collaborate cross-functionally, including partnering effectively with computational/ML teammates
5–8 years of relevant post-doctoral experience preferred
Experience designing or optimizing cell-based synthetic effectors preferred
Experience building or operating data-driven/active-learning experimental loops and translating assay outputs into model-ready datasets preferred
Experience with protein engineering/interaction prediction approaches and modern analysis pipelines preferred
Experience with sequence-to-function modeling, structural modeling, or high-throughput data QC/processing preferred
Experience with library cloning, Golden Gate assembly, Gibson assembly, CRISPR/Cas9-editing, mammalian cell culture, stem cell culture, and NGS library prep preferred
Ability to work onsite in Washington State for the majority of working hours
Possible exposure to laboratory animals and hazardous substances

Benefits

Comp & perks

Medical insurance
Dental insurance
Vision insurance
Basic life insurance
401k plan
Paid time off
Relocation assistance
Possible work visa sponsorship
Reasonable accommodations for qualified individuals with disabilities
Occasional national and international conference attendance