Scientist I, Regulatory Genomics for Brain Health (Hybrid)

ClearCompany Talent Management Software; Seattle (WA); Hybrid; USD 87,000 - 108,000; Full time

Benefits offered by this job

Relocation assistance

Visa sponsorship available

Job summary

The Allen Institute seeks a Scientist I to contribute to brain health research by developing regulatory genomics tools and cell-type targeted approaches, combining cross-species atlases with AI-driven sequence designs to interpret regulatory sequences in the intact brain.

You will collaborate with machine learning and biology teams, publish results, and contribute to an open platform releasing validated sequences and benchmarks.

Qualifications

• Ph.D. in genomics, computational biology, neuroscience, genetics, or related field, or equivalent experience.
• Experience with single-nucleus multiomic, spatial, methylation, or 3D genome data, and with enhancer screens such as MPRA, STARR-seq, or enhancer-AAV assays
• Research experience in gene regulation or regulatory genomics, including enhancers, chromatin accessibility, or transcription factor biology, with a supporting publication record
• Proficiency in Python or R for large, high-dimensional biological datasets, with working familiarity with sequence-based deep learning and AI-assisted research tools

Responsibilities

• Curate training, validation, and benchmark sets from cross-species single-nucleus multiomic data
• Define cell-type targets and design objectives for synthetic enhancers from whole-brain single-cell atlas data
• Apply sequence-to-function models and guided optimization to prioritize candidate enhancers, and interpret them through motif content, syntax, and spacing
• Plan each design-and-test cycle with experimental colleagues, setting success criteria in advance and feeding screening results back into model training
• Publish and present findings, and openly release validated sequences, benchmarks, and documentation.

Skills

Python

R

Genomics

Machine learning

Education

Ph.D. or equivalent experience

Tools

Enformer

Borzoi

ChromBPNet

Job description

The Allen Institute seeks a Scientist I to contribute to brain health research by developing regulatory genomics tools and cell-type targeted approaches, combining cross-species atlases with AI-driven sequence designs to interpret regulatory sequences in the intact brain.

You will collaborate with machine learning and biology teams, publish results, and contribute to an open platform releasing validated sequences and benchmarks.