Allen Institute
Scientist I, Explanatory Modeling in the Continuum Space
Allen Institute, Seattle, Washington, us, 98127
Scientist I, Explanatory Modeling in the Continuum Space
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The mission of Allen Institute for Cell Science is to develop a comprehensive and holistic approach to measure, describe, and model cell states and their dynamic changes over time. Our ultimate goal is to uncover the fundamental principles of multiscale, multicellular morphogenesis, including how groups of cells organize and achieve collective behaviors essential for life. Our approach encompasses multi-modal data collection including live 3D timelapse imaging, data analysis, theory, and predictions to understand cell states and cell state transitions in human induced pluripotent stem cell models. As a division within the Allen Institute, the Allen Institute for Cell Science uses a team-oriented approach, focusing on accelerating foundational research, developing standards and models, and cultivating new ideas to make a transformational impact on science.
We are seeking a highly motivated and goal-oriented
Scientist I - Explanatory Modeling in the Continuum Space , to develop and implement multiscale models that explain how cellular events emerge from underlying processes given known physical and biological constraints. This role offers a unique opportunity to apply and integrate concepts of non-equilibrium statistical mechanics and active matter to understand how human cells interact to build tissues and ultimately organs. Working with a team that includes computational biologists, simulation experts, and software engineers, this scientist will help build explanatory modeling frameworks that not only reproduce real cellular dynamics but also predict the outcomes of experiments not yet conducted. This role will collaborate closely with the Institute’s technical and programmatic teams to achieve the Institute’s shared, programmatic objectives. The candidate will participate in manuscript preparation and will also actively collaborate and ideate with other members of biophysics and mechanobiology, who will help guide priorities and identify exciting new directions.
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.
Essential Functions
Generate biophysical models that test different biological hypotheses on how cells interact to self‑organize into tissues and organoids.
Develop robust and reproducible continuum and discrete mechanical models that predict the transport and self‑organization of cell populations.
Test, falsify and modify these models by working with other programs in the institute and comparing the predictions against microscopy and imaging data.
Develop computational frameworks for hybrid modeling of cell populations that combine findings from Machine Learning and other descriptive modeling results with explanatory models.
Develop and maintain custom scripts and software tools for modeling (Python proficiency required).
Coordinate with other programs in the Institute to ensure that the modeling outcomes align with and contribute to the overall goals on the project and for seamless integration and sharing of resources and data.
Maintain rigorous quality control standards and thorough documentation.
Prepare written summaries and present activities internally and publicly.
Adherence to SOPs, GLPs and regulatory requirements.
Required Education And Experience
PhD in applied mathematics, biophysics, bioengineering, cell biology or a related science or engineering degree; or equivalent combination of degree and experience required.
Preferred Education And Experience
Ability to communicate complex concepts and connect them to biological problems.
Deep knowledge of continuum and statistical mechanics concepts and their application to biological systems.
Advanced proficiency with numerical algorithms for solving PDEs and optimization problems.
Experience in integrating neural networks into biophysical models to learn unknown parameters and capture complex interactions.
Experience with 3D live‑cell and timelapse imaging techniques and data analysis.
Familiarity with software engineering practices such as version management, build management and testing.
Excellent interpersonal skills.
Experience working in a multi‑disciplinary environment in academic or industrial settings.
Ability to work both independently and in a collaborative, multi‑disciplinary environment.
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
This role is currently working onsite and is expected to work onsite for the majority of working hours. The primary work location for this role is 615 Westlake Ave N., with the flexibility to work remotely on a limited basis.
Additional Comments
Please note, this opportunity offers relocation assistance.
Please note, this opportunity offers work visa sponsorship.
Annualized Salary Range
$92,250 - $114,100* (Final salary depends on the required education for the role, experience, level of skills relevant to the role, and 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.
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Get AI-powered advice on this job and more exclusive features.
The mission of Allen Institute for Cell Science is to develop a comprehensive and holistic approach to measure, describe, and model cell states and their dynamic changes over time. Our ultimate goal is to uncover the fundamental principles of multiscale, multicellular morphogenesis, including how groups of cells organize and achieve collective behaviors essential for life. Our approach encompasses multi-modal data collection including live 3D timelapse imaging, data analysis, theory, and predictions to understand cell states and cell state transitions in human induced pluripotent stem cell models. As a division within the Allen Institute, the Allen Institute for Cell Science uses a team-oriented approach, focusing on accelerating foundational research, developing standards and models, and cultivating new ideas to make a transformational impact on science.
We are seeking a highly motivated and goal-oriented
Scientist I - Explanatory Modeling in the Continuum Space , to develop and implement multiscale models that explain how cellular events emerge from underlying processes given known physical and biological constraints. This role offers a unique opportunity to apply and integrate concepts of non-equilibrium statistical mechanics and active matter to understand how human cells interact to build tissues and ultimately organs. Working with a team that includes computational biologists, simulation experts, and software engineers, this scientist will help build explanatory modeling frameworks that not only reproduce real cellular dynamics but also predict the outcomes of experiments not yet conducted. This role will collaborate closely with the Institute’s technical and programmatic teams to achieve the Institute’s shared, programmatic objectives. The candidate will participate in manuscript preparation and will also actively collaborate and ideate with other members of biophysics and mechanobiology, who will help guide priorities and identify exciting new directions.
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.
Essential Functions
Generate biophysical models that test different biological hypotheses on how cells interact to self‑organize into tissues and organoids.
Develop robust and reproducible continuum and discrete mechanical models that predict the transport and self‑organization of cell populations.
Test, falsify and modify these models by working with other programs in the institute and comparing the predictions against microscopy and imaging data.
Develop computational frameworks for hybrid modeling of cell populations that combine findings from Machine Learning and other descriptive modeling results with explanatory models.
Develop and maintain custom scripts and software tools for modeling (Python proficiency required).
Coordinate with other programs in the Institute to ensure that the modeling outcomes align with and contribute to the overall goals on the project and for seamless integration and sharing of resources and data.
Maintain rigorous quality control standards and thorough documentation.
Prepare written summaries and present activities internally and publicly.
Adherence to SOPs, GLPs and regulatory requirements.
Required Education And Experience
PhD in applied mathematics, biophysics, bioengineering, cell biology or a related science or engineering degree; or equivalent combination of degree and experience required.
Preferred Education And Experience
Ability to communicate complex concepts and connect them to biological problems.
Deep knowledge of continuum and statistical mechanics concepts and their application to biological systems.
Advanced proficiency with numerical algorithms for solving PDEs and optimization problems.
Experience in integrating neural networks into biophysical models to learn unknown parameters and capture complex interactions.
Experience with 3D live‑cell and timelapse imaging techniques and data analysis.
Familiarity with software engineering practices such as version management, build management and testing.
Excellent interpersonal skills.
Experience working in a multi‑disciplinary environment in academic or industrial settings.
Ability to work both independently and in a collaborative, multi‑disciplinary environment.
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
This role is currently working onsite and is expected to work onsite for the majority of working hours. The primary work location for this role is 615 Westlake Ave N., with the flexibility to work remotely on a limited basis.
Additional Comments
Please note, this opportunity offers relocation assistance.
Please note, this opportunity offers work visa sponsorship.
Annualized Salary Range
$92,250 - $114,100* (Final salary depends on the required education for the role, experience, level of skills relevant to the role, and 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.
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