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System Assessment Senior Systems Engineer (Job ID: 4693)
Valkyrie
Huntsville, AL
Must have understanding of MDA systems engineering processes and procedures · Must have experience with MDA system elements (e.g., Patriot, THAAD, Aegis, C2BMC)
Added 1 min ago
Summer 2027 Software Engineer enGen Graduate Intern
Highmark Health
Jefferson City, MO
The Summer 2027 Software Engineer enGen Graduate Internship provides graduate students with an opportunity to gain hands-on experience developing and modernizing enterprise healthcare…
Added 1 min ago
Knowledge and Data Manager
BB&E
Tyndall Air Force Base, FL
…Environmental Consulting, Facilities Engineering and Program/Project Management Services to Federal and private…
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Environmental Engineer/Scientist/Geologist
BB&E
Remote, United States
…Environmental Consulting, Facilities Engineering and Program/Project Management Services to Federal and private…
Added 3 mins ago
Senior Production Engineer (PE -Richmond Hill Site)
MOBIS
Richmond Hill, GA
The Senior Production Engineer leads manufacturing process optimization, production improvement initiatives, and advanced problem-solving activities within a highly automated automotive…
Added 3 mins ago
Java Developer
ADT
Irving, TX
Workstyle: Hybrid schedule - employees work onsite a minimum of four days per week, with one remote day
Added 6 mins ago
Manufacturing Engineer
Auris Health Inc. Legal Entity
Santa Clara, CA
We are searching for the best talent for Manufacturing Engineer
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Principal HVAC Engineer
Worley
Houston, TX
…consulting, engineering, procurement and construction across the project lifecycle, with services extending through to operations and decommissioning. Leveraging extensive experience and…
Added 6 mins ago
Environmental Remediation Project Manager, Senior
Booz Allen Hamilton_United States
San Antonio, TX · San Diego, CA
Professional Engineer (PE) license, Professional Geologist (PG) license, Certified Hazardous Materials Manager (CHMM) certification, Registered Environmental Manager (REM), and Project…
Added 6 mins ago
Mechanical Engineer: RF Subsystems
HRL Laboratories
Calabasas, CA
More information on how IBM protects your personal information, including the safeguards applicable to cross-border data transfers, is available here.
Added 7 mins ago
Geotechnical Engineer-in-Training
RRC POWER AND ENERGY
Round Rock, TX
…RRCs projects under specific work instructions as provided by project managers, including geotechnical drilling and sampling, visual field reconnaissance, and soil and rock logging, and…
Added 7 mins ago
Manufacturing Engineer [C]
Novanta Corporation
North Syracuse, NY
As a Manufacturing Engineer contractor, you will be responsible for designing, implementing and improving manufacturing processes. You will work closely with cross-functional teams to…
Added 7 mins ago
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PCB/CAD Layout Design Engineer (26903)
NEOTECH
Naperville, IL
- $85,000 to $95,000 USD / year
We are seeking a motivated PCBA Layout / CAD Engineer to join our engineering team. This role is ideal for a recent graduate, technical school graduate, or someone with foundational CAD…
Added 7 mins ago
Engineer III, Supplier Quality
Thermo Fisher Scientific
Madison, WI
…global healthcare, research, and safety. As a Supplier Quality Engineer III, you'll ensure the quality and reliability of our supply chain while contributing to our mission of enabling…
Added 9 mins ago
GI
Systems Engineer (SQL)
Goldbelt, Inc.
Remote, United States
- $140,000 to $175,000 USD / year
Must have a DoD Approved 8140/8570 Baseline Certification: Category IAT Level II
Added 9 mins ago
GI
Systems Engineer (Oracle)
Goldbelt, Inc.
Remote, United States
- $145,000 to $180,000 USD / year
Must have a DoD Approved 8140/8570 Baseline Certification: Category IAT Level II
Added 11 mins ago
Diving Supervisor
Bowman Consulting Group, Ltd.
Glen Mills, PA
The position contributes to the development and review of Dive Project Plans, Hazard Identification and Risk Assessments (HIRAs), emergency response plans, and other operational planning…
Added 11 mins ago
Design Engineer
Centrus Global
Piketon, OH
Centrus Energy is seeking a practical, detail-oriented Design Engineer to join our team at the American Centrifuge Plant (ACP) in Piketon, Ohio. If you are passionate about taking…
Added 11 mins ago
Project Engineer - Critical Projects Group
Martin Concrete
Kennesaw, GA
As a Project Engineer, you’ll support the day-to-day execution of critical concrete construction projects. Working closely with Project Managers, Superintendents, field teams, clients, and…
Added 12 mins ago
PC
Office Engineer (00619)
PMA Consultants Careers
Van Nuys, CA
- $110,000 to $135,876 USD / year
PMA Consultants is seeking an experienced Office Engineer to support a major Los Angeles-area public transportation infrastructure project for our client.
Added 12 mins ago
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Engineer III
Kforce
Minneapolis, MN
- $50 to $60 USD / hour
Must have experience with AutoCAD
Added 12 mins ago
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Associate Engineer
Kforce
Mill Valley, CA
- $52 to $68 USD / hour
Kforce has a client that is seeking an Associate Engineer in Mill Valley, CA. This candidate will work 9-hour days with every other Friday off.
Added 13 mins ago
Field Engineer II
Bosch Building Technologies
Amarillo, TX
Job Summary: The Field Engineer II is responsible for Client and technician requests on a daily basis. Responsibilities include, but are not limited to performing startup, testing,…
Added 14 mins ago
OI
Lead Project Engineer
ONYX Insight
Broomfield, CO
- $85,000 to $115,000 USD / year
…demand for our engineering expertise, we are looking for a Project Engineer to join our team. The successful candidate will contribute to a dynamic engineering group supporting wind turbine…
Added 14 mins ago
AB
Scientist II, Applied Machine Learning
A-Alpha Bio
Seattle, WA
- $139,000 to $175,000 USD / year
Candidates must reside in the United States

A-Alpha Bio

Scientist II, Applied Machine Learning

Seattle, WA, United States

$139,000 to $175,000 USD / year

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Job details

Pay: $139,000 to $175,000 USD / year
Work location: Candidates must reside in the United States
Posting language: English
Posted: Nov 10, 2026

Original job description

A-Alpha Bio is an early-stage, rapidly growing biotechnology platform company headquartered in Seattle, WA. We are focused on building the foundational data layer for AI-driven protein engineering. We provide biopharma companies and model builders with access to ground truth experimental datasets, including affinity and structure, for training, benchmarking and validating AI protein models. In parallel, we apply our data and models directly with select partners to engineer next-generation dual-specific and molecular glue therapeutics, and to discover and optimize differentiated biologics.

A-Alpha Bio is headquartered in Seattle, WA, but remote applicants are welcome to apply. Candidates must reside in the United States.

Starting Salary Range: $139,000 - $175,000 annually

Exemption Status: Exempt

Location Expectations: Remote-Eligible (expected travel to Seattle HQ once per quarter)

Reporting To: Director, Applied Machine Learning

Role Description

A-Alpha Bio is seeking a Scientist II to join our Applied Machine Learning team in turning large-scale protein interaction data into insights and models that advance antibody and protein engineering. In this role, you’ll lead computational work for both internal research and external collaborations, from defining scientific questions and analysis plans to developing models and communicating results. Working with AlphaSeq datasets, you’ll connect experimental measurements with protein sequence and structural information to understand binding, evaluate computational design methods, and guide future experiments. Success in this role will depend on ability to state assumptions, clearly define goals and objectives, and explain your procedures thoughtfully.

Key Responsibilities

Lead scientific analyses:Define and execute analysis plans for large-scale protein interaction datasets (often 1M PPIs), including evaluating binding affinity, specificity, and the performance of antibody and protein design methods.
Develop and evaluate ML models: Build, train, and apply models using experimental measurements, protein sequences, and structural information. Design rigorous benchmarks and assess model performance, uncertainty, and generalization.
Connect computation with experiments: Collaborate with experimental scientists to shape study designs, interpret results, investigate unexpected findings, and recommend follow-up experiments.
Deliver results to external partners: Serve as the computational lead for assigned projects, producing clear presentations, reports, and well-documented datasets for both internal teams and external collaborators. Many projects may have open-source elements, requiring a strong eye for detail and narrative.
Build reusable methods: Translate project-specific work into reliable analytical tools and workflows. Contribute maintainable Python code, review contributions, and document methods so others can use them.
Advance our scientific capabilities: Identify and develop new computational approaches that increase the value of AlphaSeq data for protein engineering.

Qualifications & Experience

Required

PhD in a relevant field with 2+ years of experience working on large-scale data analysis using biological sequence or structure data; or a bachelor’s degree with 10+ years of relevant experience, including 5+ years working onlarge-scale data analysis using biological sequence or structure data; or an equivalent education and experience.
Demonstrated expertise in Python for scientific computing, data analysis, visualization, and ML model development.
Experience analyzing large experimental datasets and making scientifically defensible decisions about data quality, statistical methods, and interpretation.
Strong understanding of model evaluation, including appropriate baselines, data leakage, and the limits of conclusions drawn from a benchmark.
Ability to translate an open-ended scientific question into an executable plan and deliver reproducible results with limited supervision.
Clear communication skills, including the ability to explain methods, findings, and limitations to computational and experimental audiences.
Experience contributing to a shared codebase through version control, code review, and documentation.

Preferred

Experience with antibody or protein engineering, particularly the relationship between sequence, structure, and binding.
Familiarity with the structural modeling of protein complexes and evaluation of structure prediction or generative design methods.
Use of modern ML frameworks such as PyTorch, TensorFlow, or Hugging Face.
Experience processing and analyzing next-generation sequencing data, (Illumina, Oxford Nanopore, etc.).
Experience developing analytical tools or workflows used by other scientists.

In 2018, A-Alpha Bio spun out of the University of Washington’s Institute for Protein Design and Center for Synthetic Biology – both communities filled with brilliant and highly entrepreneurial scientists. Since the company’s inception, we have built and scaled AlphaSeq, our high-throughput platform for quantitatively measuring protein-protein interactions at unprecedented scale. What began as a technology for generating large, standardized affinity datasets has grown into a broader data engine for AI-driven protein engineering. New members of the team should expect a fast-paced, highly dynamic, and interdisciplinary work environment. We are building a diverse, meritocratic, and supportive team that shares our values of speaking the truth, shooting for the moon, taking the reins, playing for the team, and improving the world.

A-Alpha Bio is headquartered in a custom designed lab and office space in downtown Seattle’s Belltown neighborhood. We are fortunate to be situated in a region that is renowned for its premier outdoor activities, including hiking, biking, climbing, skiing, kayaking, sailing, and more. At A-Alpha, you’ll find many who love the outdoors, but also gamers, amateur chefs, explorers, sports fans, bakers, crafters, photographers, brewers, jetsetters, animal lovers, and artists. Whatever your passions, you belong at A-Alpha Bio!

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Jobs in the United States