Research Associate III - Protein Binding Screening & Prediction

The mission of the Allen Institute is to unlock the complexities of bioscience and advance our knowledge to improve human health. Using an open science, multi-scale, team-oriented approach, the Allen Institute focuses on accelerating foundational research, developing standards and models, and cultivating new ideas to make a broad, transformational impact on science.

Join our Artificial Intelligence-Powered Biological Design (AIPBD) lab, an initiative at the intersection of academic creativity and start-up style execution. Our mission is to apply machine learning to biological design. Join us as we build a series of interconnected design-test-loop “flywheels” that enable design of synthetic enhancers, protein binders, and more.

AIPBD is looking for a research associate to join our protein binder flywheel team. The binder flywheel team is part of a larger effort that includes a total of three experimental flywheel teams and one machine learning team, and that will report into the SeaHub administrative unit. The goal of the binder flywheel is to produce a model that can accurately predict the effect of amino acid substitutions on the binding of proteins to other proteins, small molecules, and nucleic acids. To assist this flywheel team, you will need a strong background in high-throughput library screening, flow cytometry, and NGS. You will work in the lab to optimize active learning processes in your flywheel. You will help to optimize your flywheel’s turnaround-time and per-cycle model improvement, racing to help deliver the best possible ML models for predicting the impact of mutations on protein binding.

At the Allen Institute, we believe that science is for everyone – and should be open to everyone. We are dedicated to combating biases and reducing barriers to STEM careers more broadly.

We also believe that science is better when it includes different perspectives and voices. We strive to make the Allen Institute a place where everyone feels like they belong and are empowered to do their best work in a supportive environment.

We are an equal-opportunity employer and strongly encourage people from all backgrounds to apply for our open positions.

• Execute and optimize protein library screening and binder evaluation experiments to generate high-quality, model-ready datasets
• Execute workflows including library construction, yeast display, flow cytometry analysis and sorting, NGS library generation, and sequencing
• Optimize high-throughput screening workflows to improve assay robustness, turnaround time, and model-learning efficiency
• Lead troubleshooting efforts to optimize generation of high-quality datasets, from library construction through NGS sequencing
• Independently execute molecular biology protocols, including molecular cloning, PCR, flow cytometry and yeast culture techniques
• Review and analyze data, participating in quality control and troubleshooting of processes and results
• Collaborate closely with computational and machine learning scientists to improve experimental workflows and model performance
• Contribute to the development of new protocols as needed
• Present results and summarize progress in a multidisciplinary team to help frame internal decision-making
• Comply with SOPs, good laboratory practices, and regulatory requirements
• Adhere to a team schedule and individual time management
• Maintain accurate laboratory documentation using established methods
• Other duties as assigned

Note: Reasonable accommodations may be made to enable individuals with disabilities to perform the essential functions. This description reflects management’s assignment of essential functions; it does not proscribe or restrict the tasks that may be assigned.

• Bachelor’s degree in Cell Biology, Genetics, Synthetic Biology, Bioengineering, Genomics, Molecular Biology, Bioinformatics, or related field
• Minimum 4 years of relevant experience

• Master’s degree in Cell Biology, Genetics, Synthetic Biology, Bioengineering, Genomics, Molecular Biology, Bioinformatics, or related field
• 6+ years of relevant experience
• Experience in teams where wet lab experiments primarily serve to build AI models
• Experience performing molecular biology methods including molecular cloning (such as restriction cloning, Gibson Assembly, Golden Gate assembly, plasmid prep). Experience cloning complex libraries is a plus
• Experience with DNA isolation, and PCR. ddPCR and/or emulsion PCR are a plus
• Competence and ability to work in a molecular biology/cell culture laboratory
• Experience with nucleic acid sequencing, especially custom amplicon sequencing
• Experience using Electronic Lab Notebook (ELNs)
• Track-record of being an effective team member
• Track record of peer-reviewed publications, patents, and conference presentations (posters and/or oral presentations) is a plus

• Fine motor movements in fingers/hands to operate computers and other office/lab equipment

• Frequently required to sit, stand, walk, stoop, kneel or reach
• Possible exposure and handling of laboratory animals
• Laboratory atmosphere - possible exposure to chemical, biological or other hazardous substances

• This role requires onsite work and is expected to work onsite for the majority of the working hours. We are a Washington State employer, and the primary work location for Allen Institute employees is 700 Dexter Ave N.; any remote work must be performed in Washington State.

• The successful candidate may be invited to attend occasional national and international conferences

• All employees who work with live animals must complete an Occupational Health medical history form and/or consultation with an Occupational Health Provider and receive clearance to work with animals. Depending on your health history and job responsibilities, an annual respiratory health screening and clearance to use a respirator may also be required.

• **Please note, this opportunity offers relocation assistance**
• **Please note, this opportunity may offer work visa sponsorship**

• $76,000 - $93,150 *

* Final salary depends on required education for the role, experience, and level of skills relevant to the role, along with work location, where applicable.

Benefits

• Employees (and their families) are eligible to enroll in benefits per eligibility rules outlined in the Allen Institute’s Benefits Guide. These benefits include medical, dental, vision, and basic life insurance. Employees are also eligible to enroll in the Allen Institute’s 401k plan. Paid time off is also available as outlined in the Allen Institutes Benefits Guide. Details on the Allen Institute’s benefits offering are located at the following link to the Benefits Guide: https://alleninstitute.org/careers/benefits.

It is the policy of the Allen Institute to provide equal employment opportunity (EEO) to all persons regardless of age, color, national origin, citizenship status, physical or mental disability, race, religion, creed, gender, sex, sexual orientation, gender identity and/or expression, genetic information, marital status, status with regard to public assistance, veteran status, or any other characteristic protected by federal, state or local law. In addition, the Allen Institute will provide reasonable accommodations for qualified individuals with disabilities.