Junior Research Software Developer- Artificial Intelligence and Computational Neurosciences (AICONS) Lab

Toronto, ON, Canada              ·          Full time

Junior Research Software Developer- Artificial Intelligence and Computational Neurosciences (AICONS) Lab

• Date Posted: 7/17/2023
• Location: Toronto, ON, Canada
• Reference No.: 2023-4758
• Position Type: Temporary full-time
• Department:
• FTE Status: 1.00
• Hours of Work: Other
• Campus Site: Bayview
• Shifts Weekday Required: Other
• Shifts Weekend Required: Other
• Statutory Holiday(s) Required: No

Our Artificial Intelligence and Computational Neurosciences (AICONS) Lab is seeking a Junior research software developer, at the Physical Sciences Platform & Hurvitz Brain Sciences Program, Sunnybrook Research Institute of the University of Toronto, under the supervision of Dr. Maged Goubran.

The successful candidate will be responsible for assisting with the development, optimization and maintenance of an automated computational pipeline (MIRACL: Multi-modal Image Registration And Connectivity anaLysis), that couples MRI images with cellular information from cleared brain tissue (3D histology image with lightsheet microscopy) and the reference atlases to probe brain-wide circuit alterations across spatial scales. MIRACL enables the segmentation, registration, and analysis of histological features across the whole brain or multiple neuronal circuits, as well as along the length of specific fibre tracts. This pipeline is being used by many collaborating groups within Canada, and internationally in countries including USA, Germany, and Switzerland. Dr. Goubran’s lab develops novel computational & AI tools to probe, predict and understand neuronal and vascular circuit alterations in neurological disorders, including Alzheimer’s disease, stroke, and traumatic brain injury. The lab consists of a diverse, multidisciplinary team of engineers, neuroscientists, and software developers. This dynamic and collegial research environment provides opportunities to participate in pioneering AI and computational tool development that will be used to understand and treat neurological diseases. In addition to working on MIRACL, the successful candidate will assist on several ongoing projects in the lab, including the investigation of structural and functional brain connectivity and their associations with the spread of pathological proteins and cognition in Alzheimer’s disease. The candidate will be expected to work independently and as a team member with investigators, staff, graduate/undergraduate students, and clinicians. There will be opportunities for contributing to publications, and presenting at/attending international conferences and workshops, focused on novel computational tools for neuroscience research and developing AI and image analysis algorithms.

The ideal candidate will have a B.Sc or M.Sc in computer science, neuroscience, or a related discipline, and will have prior research experience in neuroimaging or AI. Preference will be given to candidates with experience working with advanced neuroimaging analyses or machine learning frameworks.

Requirements

• Post-secondary degree in computer science, engineering, medical biophysics, biomedical engineering, or related field
• A passion for computer programming, with strong skills in Python
• Experience with machine and deep learning (sklearn, Pytorch, Tensorflow, Keras, etc.) and/or AI based neuroimaging analysis
• Sound knowledge of object-oriented design and programming
• Intermediate knowledge of Linux and scripting
• Demonstrated ability to learn quickly
• Experience with version control systems (Git) and the software development/testing life cycle
• Ability to quickly get up to speed with unfamiliar code bases and identify areas of improvement

Assets

• Python software packaging (Docker/Singularity), virtual environments, Anaconda/Conda, Jupyter/IPython
• Advanced knowledge of Linux, including scripting and system administration
• Experience with HPC computing (e.g. Compute Canada)
• Working knowledge of FSL, ITK or neuroimaging software
• Working knowledge of R or MATLAB
• Experience with continuous integration (e.g. CircleCI) and test-driven development

Compensation depending on education and experience.

This position includes health and dental benefits, vacation days, and membership in our pension plan with HOOPP.

In accordance with Canadian Employment and Immigration guidelines, applicants must be eligible to work in Canada. In accordance with Canadian immigration requirements, this advertisement is directed initially to Canadian citizens and permanent residents.

Sunnybrook Research Institute is committed to providing accessible employment practices that are in compliance with the Accessibility for Ontarians with Disabilities Act (AODA). If you require accommodation for disability during any stage of the recruitment process, please indicate this in your cover letter.

Sunnybrook Research Institute is strongly committed to inclusion and diversity within its community and welcomes all applicants including but not limited to: visible minorities, all religions and ethnicities, persons with disabilities, LGBTQ2S+ persons, and all others who may contribute to the further diversification of ideas.

Links

• Sunnybrook Research Institute
• University of Toronto
• Medical Biophysics Goubran profile
• Temerty Centre for Artificial Intelligence Research and Education in Medicine
• Harquail Centre for Neuromodulation
• LC Campbell Cognitive Neurology Research Unit

To apply for this position, please:

Send a cover letter and Curriculum Vitae and the names of three potential references to:

Dr. Jonas Osmann
j.osmann@mail.utoronto.ca

Please put “Junior research software developer” in the subject line.

Deadline for application: Until the position is filled.

We thank you in advance for your interest. Only those candidates selected for an interview will be contacted. No phone calls please.

Application screening will continue until a suitable candidate is identified.

If you are looking for an exciting opportunity and to build a career in an innovative and dynamic organization, submit your resume by clicking on Apply Now below. 

Sunnybrook Health Sciences Centre is committed to providing accessible employment practices that are in compliance with the Accessibility for Ontarians with Disabilities Act (AODA). If you require accommodation for disability during any stage of the recruitment process, please indicate this in your cover letter.

Sunnybrook Health Sciences Centre is strongly committed to inclusion and diversity within its community and welcomes all applicants including but not limited to: visible minorities, all religions and ethnicities, persons with disabilities, LGBTQ persons, and all others who may contribute to the further diversification of ideas.

Please be advised that in order to be eligible for employment at Sunnybrook, all new hires must have received the full series of a COVID-19 vaccine or combination of COVID-19 vaccines approved by Health Canada (e.g., two doses of a two-dose vaccine series, or one dose of a single-dose vaccine series); AND have received the final dose of the COVID-19 vaccine at least 14 days ago. Medical exemptions or any other kind of requested exemption based upon the Hospital’s obligations pursuant to the Ontario Human Rights Code will be considered on a case-by-case basis.

We thank all applicants for their interest. However, only candidates selected for an interview will be contacted. Sunnybrook Health Sciences Centre is an equal opportunity employer.

Please click here to apply.