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Neuroimaging Labs Research Center

Resources

Core Resources

MIR’s investigators have access to 10 research facilities featuring leading-edge equipment and spanning nearly 35,000 square feet across the School of Medicine campus.

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Computational Core Services

The NIL-RC Computational Core provides free training and/or counsel on post-acquisition neuroimaging analyses for the Washington University neuroimaging community.

  • FreeSurfer and other FSL tools
  • 4dfp suite of tools
  • Connectome Workbench

Resting State

Diffusion Imaging

  • TBSS

Data Visualization

  • MATLAB images
  • Surface images (Connectome Workbench)

Evaluation of Incidental Finding on MRI images

  • Radiology clinical evaluation
  • Discussion/Recommendation with team and/or subject

SUV measurements for all PET tracers

Binding Potential Estimates for PET Tracers with Receptor-specific Affinities

  • Positron emission tomography (PET)
  • Computed tomography (CT)

Director
Abraham “Avi” Snyder, MD, PhD

Assistant Director
Benjamin Seitzman, PhD

IDDRC Neuroimaging Core Director
Joshua Shimony, MD, PhD

MRI Analyst
Jerrel Rutlin

Programmer
Jon Koller

PET
John Lee, MD, PhD

To request a consultation from the Computation Core or to ask about other unlisted services, email .

IDDRC Services

The NIL-RC provides the following services related to the Intellectual and Developmental Disabilities Research Center (IDDC):

  • Consultation on study design/planning, MRI sequence use and development, and PET development
  • Assistance in MRI data acquisition, PET data acquisition, quality control, and data archiving
  • Assistance in the processing of MRI and PET imaging data

To request IDDRC services, email Joshua Shimony, MD.

Training & Videos

Title: MRI for Beginners: Shimony Lecture on MRI Physics, Part 1
Lecturer: Joshua S Shimony, MD, PhD
Date: June 16, 2022

Title: MRI for Beginners: Shimony Lecture on MRI Physics, Part 2
Lecturer: Joshua S Shimony, MD, PhD
Date: June 30, 2022

Title: MRI for Beginners: Shimony Lecture on MRI Physics, Part 3
Lecturer: Joshua S Shimony, MD, PhD
Date: July 13, 2022

Title: Diffusion Tensor Imaging
Lecturer: Joshua S Shimony, MD, PhD
Date: July 14, 2022

Title: Functional MRI
Lecturer: Joshua S. Shimony, MD, PhD
Date: July 14, 2022

To view the MR Lecture Series videos you must be on the Washington University School of Medicine network or connected to the VPN.

Title: The Basics of PET, Part 1
Lecturer: Joel Perlmutter, MD
Date: August 24, 2017

Title: The Basics of PET, Part 2
Lecturer: Joel Perlmutter, MD
Date: August 31, 2017

Title: The Basics of PET, Part 3
Lecturer: Joel Perlmutter, MD
Date: September 7, 2017

Title: The Basics of PET, Part 4
Lecturer: Joel Perlmutter, MD
Date: September 7, 2017

Title: The Basics of PET, Part 5
Lecturer: Joel Perlmutter, MD
Date: November 9, 2017

Title: The Basics of PET, Part 6
Lecturer: Joel Perlmutter, MD
Date: January 4, 2018

Title: The Basics of PET, Part 7
Lecturer: Joel Perlmutter, MD
Date: January 11, 2018

Title: The Basics of PET, Part 8
Lecturer: Joel Perlmutter, MD
Date: January 18, 2018

To view the MR Lecture Series videos you must be on the Washington University School of Medicine network or connected to the VPN.

Title: Oxygen Metabolism
Lecturer: John J. Lee, MD, PhD
Date: December 10, 2020

Title: Logan Plot
Lecturer: Dean F. Wong, MD, PhD
Date: October 22, 2020

Title: Effects of Segmentation and Partial Volume Correction on VOI Analysis
Lecturer: Manu Goyal, MD
Date: October 22, 2022

Title: CBV and CBF Measurements
Lecturer: John J. Lee, MD, PhD
Date: October 1, 2020

Title: PUP Processing Stream
Lecturer: Yi Su, PhD
Date: September 10, 2020

Title: Follow Up On Compartmental Modeling
Lecturer: Joel Perlmutter, MD
Date: August 27, 2020

Title: Introduction to Compartmental Modeling
Lecturer: Joel Perlmutter, MD
Date: August 13, 2020

To view the Tracer Kinetics videos you must be on the Washington University School of Medicine network or connected to the VPN.

Title: The History of Functional Human Brain Imaging
Lecturer: Marcus Raichle, MD
Date: October 22, 2021

Intended to provide up-to-date documentation on Dr. Abraham “Avi” Snyder’s 4dfp suite of tools, this 4dfp website contains usage information for the tools, as well as explanations of the inputs, outputs, and processing steps for BOLD preprocessing scripts. It is a work in progress, with plans to add more worked examples and detailed documentation of additional scripts in the near future. In addition, we plan to pair it with a searchable community discussion site.

Researchers at Washington University

Below is a list of resources for the neuroimaging research community at Washington University in St. Louis. A university login is required to access some of the content.

The Adolescent Brain Cognitive Development (ABCD) study is the largest and most comprehensive longitudinal
study on adolescent brain development. The ABCD Study Neuroimaging Data (Y1: 11,874 9-10 yo children) are being made available to researchers at Washington University. Please see the required Data Access Procedure for instruction on how to request access.

ABCD Study Neuroimaging Data (Y1: 11,874 9-10 yo children) are being made available to researchers at Washington University. Please see the required Data Access Procedure for instruction on how to request access.

Overview and guidelines:

  • Access to the locally hosted ABCD data are only permitted for individuals who have followed the request procedures and received confirmation that permissions have been granted by the NDA on the Data Use Certification (DUC) with Nico Dosenbach, PhD. This must be completed prior to accessing ABCD data on the university ABCD server.
  • It is the responsibility of each individual accessing ABCD data to keep the contractual terms of the DUC as granted by the NDA, including not sharing the original data with anyone. To ensure that only individuals with permissions have the ability to view this data, data files must not be copied by any person to any other server location.
  • Funding for ABCD data storage, preprocessing, and data management at Washington University has been provided by the McDonnell Center for Systems Neuroscience, the Neuroimaging Laboratory (NIL), the Institute of Clinical and Translational Sciences (ICTS) and the Intellectual and Developmental Disabilities Research Center (IDDRC) in collaboration with the Dosenbach laboratory.  
  • The original and processed MRI data are provided to the Washington University Neuroimaging Community in an effort to bypass duplicating storage and processing costs across many research groups, and thus fast-track applied research and data utilization.
  • The ABCD study itself is funded by the NIH and headed by the Collaborative Research on Addiction at NIH (CRAN) in collaboration with several NIH Institutes and Centers. For a general overview of the ABCD study and data types, please see the ABCD Study Dataset Info Sheet.
  • The imaging data are located at: /data/Daenerys/ABCD/data/

Additional documentation:

ABCD Data Access Procedure

Contact:

If you would like more information, email Kristen Scheidter.

  • An Introduction to Selected WashU Neuroimaging Resources (PowerPoint)
  • Structure and Function of the NIL-RC (PowerPoint)
  • Structure and Function of the NIL-RC (Video)

WUNIC is an informal collection of researchers across the Washington University campus that have a vested interest in neuroimaging research. Visit the WUNIC website for relevant resources or to sign up for the mailing list.

Below is a list with links to resources for members of the Neuroimaging Labs Research Center:

Access requires WUSTL key.

Our People

The NIL-RC provides a physical and intellectual environment that promotes collaborative, innovative and interdisciplinary neuroimaging research and supports the career development of students and junior faculty.

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