Bioinformatics Scientist II - AI Applications

Company: ClearCompany Talent Management Software
Location: Seattle
Posted on: June 2, 2025

Job Description:

Are you ready for new challenges and new opportunities? Join our team in Seattle!Current job opportunities are posted here as they become available.Bioinformatics Scientist II - AI ApplicationsBioinformatics Scientist II - AI ApplicationsThe 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.The Allen Institute for Immunology is seeking a Bioinformatics Scientist II - AI Applications to train AI models using our enormous multimodal omics data. Reporting to the Director of Informatics & Computational Biology at the Allen Institute for Immunology, the ideal candidate is a self-motivated team player who can work closely with immunologists and bioinformaticians, is an expert in applying AI methodologies for biological/medical research and has a track record of training transformer models. The successful candidate will also have excellent communication skills that can represent our efforts to our stakeholders internally and in external forums.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.Essential Functions

• Train AI models (e.g. transformers and variational autoencoders) based on multimodal OMICS data, including but not limited to: spatial transcriptomics, scRNA-seq, scATAC-seq, CITE-seq, TEA-seq, flow cytometry, and proteomics.
• Apply AI methodologies to generate testable hypotheses for new biological insights, and identify potential biomarkers and/or drug targets for disease of interest.
• Write reports, research papers, patent applications, and other documents.
• Represent our efforts to our stakeholders internally and in external forums.
• Contribute to a rigorously scientific, cohesive and efficient team environment.Required Education and Experience
  • PhD in computer science, applied mathematics, bioinformatics, biostatistics, computational biology, or closely related disciplines; or equivalent combination of education and experience.
  • Three (3) + years of post-degree experience.Preferred Education and Experience
    • Demonstrated experience in training AI models, including but not limited to: large language models (LLMs), transformers, variational autoencoders, neutral networks, etc.
    • Experience in applying AI methodologies for biological/medical research.
    • Demonstrated experience in leading research projects.
    • Familiar with OMICS technologies.
    • Foundational knowledge of AI methodologies and bioinformatics.
    • Experience with R and/or Python.
    • Strong publication record.
    • Familiar with advanced statistical methods and machine learning for biomarker discovery.
    • Experience working in a cross-disciplinary, team-based environment.
    • Experience working with outside collaborators to achieve defined objectives.
    • Familiarity with cloud computing and/or Linux.
    • Experience using Git or similar version control system.
    • Excellent written and verbal communication skills and organizational skills.
    • Good problem-solving skills, curious and eager to take new challenges.
    • Able to work independently as well as in a collaborative high paced environment.
    • The successful candidate must be self-motivated, a team player, attentive to details, and able to handle multiple projects simultaneously.Physical Demands
      • Fine motor movements in fingers/hands to operate computers and other office equipment; repetitive motion with lab equipment.Position Type/Expected Hours of Work
        • Occasional evening and weekend hours required.
        • This role is currently able to work both remotely and onsite in a hybrid work environment. We are a Washington State employer, and the primary work location for all Allen Institute employees is 615 Westlake Ave N.; any remote work must be performed in Washington State.Travel
          • Attendance and participation in national and international conferences may be required.Annualized Salary Range
            • $111,300 - $137,700 ** Final salary depends on required education for the role, experience, and level of skills relevant to the role, along with work location, where applicable.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.
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Keywords: ClearCompany Talent Management Software, Kirkland , Bioinformatics Scientist II - AI Applications, Other , Seattle, Washington