Ryan P. Cabeen

Ryan P. Cabeen

Building software tools for health, biotech, and neuroscience

I build software for health, biotech, and neuroscience using techniques from machine learning, biomedical data analysis, and data visualization. I’m currently working on tools to help people understand their health and make decisions that promote longevity at Blueprint.

I’ve been working in software and health-related research for about fifteen years, through positions at biotech startups and research institutes. My education has taken me to Caltech for undergrad, Brown for a CS PhD, and USC for a postdoc in neuroinformatics. Over the past few years, I’ve held staff engineering positions in several startups building AI tools for cancer diagnostic and prognostic testing ( ArteraAI and PathAI). Before that, I worked as an Assistant Professor at the Stevens Institute for Neuroimaging and Informations at the Keck School of Medicine where I led a team building software for neuroimage analysis, storage, and visualization, including projects related to Alzheimer’s disease, stroke, and traumatic brain injury. I created a software package called the Quantitative Imaging Toolkit (QIT) that has been used in numerous neuroscience labs and studies and has received grant support through a Chan Zuckerberg Initiative Imaging Scientist Award. You can find some of my publications and software linked below. I love collaborating with people and immersing myself in new experiences and technical challenges, so reach out if you’d like to connect!

Interests

  • Software Development
  • Machine Learning / AI
  • Biomedical Data
  • Data Visualization
  • Computational Modeling

Education

  • PhD in Computer Science, 2016

    Brown University

  • MSc in Computer Science, 2012

    Brown University

  • BSc in Eng. & Applied Science, 2005

    California Institute of Technology

Try the Quantitative Imaging Toolkit (QIT)

Software for 3D Visualization and Image Analysis. Automated and Interactive Tools for Diffusion MRI Tractography and Microstructure Imaging.

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Check out: a gallery of visualizations, a video of the atlas, and the abstract

Other Recent Publications

(2022). Anatomical and topographical variations in the distribution of brain metastases based on primary cancer origin and molecular subtypes: a systematic review. Neuro-Oncology Advances.

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(2022). Life after mild traumatic brain injury: Widespread structural brain changes associated with psychological distress revealed with multimodal magnetic resonance imaging. Biological Psychiatry Global Open Science.

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(2022). The Stroke Preclinical Assessment Network: Rationale, Design, Feasibility, and Stage 1 Results. Stroke.

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(2021). Connectivity characterization of the mouse basolateral amygdalar complex. Nature Communications.

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(2021). Microstructural properties within the amygdala and affiliated white matter tracts across adolescence. NeuroImage.

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(2021). Tractography dissection variability: what happens when 42 groups dissect 14 white matter bundles on the same dataset?. NeuroImage.

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(2020). Dietary Fructose Intake and Hippocampal Structure and Connectivity during Childhood. Nutrients.

(2020). Magnitude and timing of major white matter tract maturation from infancy through adolescence with NODDI. NeuroImage.

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(2020). Tractography reproducibility challenge with empirical data (traced): The 2017 ismrm diffusion study group challenge. Journal of Magnetic Resonance Imaging.

(2019). Behavioral inhibition corresponds to white matter fiber bundle integrity in older adults. Brain imaging and behavior.

(2019). Clinical 7 T MRI: Are we there yet? A review about magnetic resonance imaging at ultra-high field. The British journal of radiology.

(2019). Harmonization of pipeline for preclinical multicenter MRI biomarker discovery in a rat model of post-traumatic epileptogenesis. Epilepsy research.

(2019). Image processing approaches to enhance perivascular space visibility and quantification using MRI. Scientific reports.

(2019). Limits to anatomical accuracy of diffusion tractography using modern approaches. NeuroImage.

(2019). MicroQIT - A Computational Framework for Population Microstructure Imaging. In Proceedings of the International Society for Magnetic Resonance in Medicine (ISMRM).

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(2019). Nonparenchymal fluid is the source of increased mean diffusivity in preclinical Alzheimer's disease. Alzheimer’s & Dementia: Diagnosis, Assessment & Disease Monitoring.

(2019). Perivascular space fluid contributes to diffusion tensor imaging changes in white matter. NeuroImage.

(2019). Rapid and Accurate NODDI Parameter Estimation with the Spherical Mean Technique. In Proceedings of the International Society for Magnetic Resonance in Medicine (ISMRM).

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(2018). Analytic tools for post-traumatic epileptogenesis biomarker search in multimodal dataset of an animal model and human patients. Frontiers in neuroinformatics.

(2018). Feasibility of Quantitative Diffusion MR Tractography of the Vestibulocochlear Nerve in Children with Unilateral Profound Sensorineural Hearing Loss. In Proceedings of the International Society for Magnetic Resonance in Medicine (ISMRM).

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