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Scientist I – Regulatory Genomics and Cell Type-Targeted Tools for Brain Health

allen institute • United State
Visa Sponsorship Relocation
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AI Summary

Develop and validate synthetic enhancer sequences for precision cell-type targeting in the brain using a lab-in-the-loop AI platform. Transform cross-species single-cell multiomic atlases into training sets and analyze whole-brain enhancer-AAV screens to refine sequence-to-function models. Requires a Ph.D. in genomics or related field with experience in regulatory genomics, single-nucleus multiomics, and Python or R.

Key Highlights
Contribute to a global Brain Health initiative developing a scalable framework for understanding disease progression in the human brain.
Work on a lab-in-the-loop AI platform that designs and validates synthetic enhancer sequences for precision cell-type targeting.
Openly release models, validated sequences, and codebase as a platform for designing synthetic regulatory elements.

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Key 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
Technical Skills Required
Regulatory Genomics Single-nucleus Multiomics Python

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Benefits & Perks
Medical, dental, vision, and basic life insurance
401k plan
Paid time off
Relocation assistance
Visa sponsorship

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Nice to Have
Experience interpreting validation data from enhancer-AAV screens
Hands-on experience with sequence-to-function models (Enformer, Borzoi, ChromBPNet), guided sequence design, and model interpretation methods
Domain knowledge of brain cell type taxonomies, molecular neuroscience, or AAV-based genetic tools, and cross-species genomic analysis
Excellent written and verbal communication, with proven ability to manage several projects at once in a collaborative environment

Job Description

The accelerates science for a healthier world through large-scale research designed to answer some of the most complex questions in biology. Our multi-disciplinary teams generate foundational knowledge, tools, and data to understand how our brain, cells, and immune system work. We share our work openly so others can build on it, move faster, and ask bigger questions. We drive discovery forward and create new possibilities for improving human health.
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Job Overview
Posted Date Oct 06, 2026
Employment Type Full-time
Experience Level Associate
Location United State
Category Programming
Company allen institute
Mentioned Skills
python ai 3d deep learning machine learning

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