NIH Blueprint: The Human Connectome Project

Exploring the Human Connectome

Course Description

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University Place Hotel

Learn about multimodal neuroimaging data, analysis, visualization, and sharing tools of the Human Connectome Project

We are pleased to announce the 2019 HCP Course: "Exploring the Human Connectome", to be held July 8 – 12, 2019 at the at the University Place Hotel and Conference Center at Portland State University in Portland, Oregon, USA.

This course is designed for investigators who are interested in:

  • using HCP-style data currently available from the young adult HCP and HCP Lifespan (Development and Aging) projects
  • acquiring and analyzing HCP-style imaging and behavioral data at your own institution
  • processing your own non-HCP data (including legacy data) using HCP pipelines and methods
  • learning to use Connectome Workbench tools and share data using the BALSA imaging database
  • learning HCP multi-modal neuroimaging analysis methods, including those that combine MEG and MRI data
  • positioning yourself to capitalize on HCP-style data forthcoming from large-scale projects currently collecting data (e.g., Lifespan HCP development and aging and Connectomes Related to Human Disease projects)
  • learning how to obtain data from the NIMH Data Archive (NDA) and setup processing in an Amazon Web Services (AWS) environment

This 5-day intensive course will provide training in the acquisition, analysis and visualization of freely-available data from the Human Connectome Project using methods and informatics tools developed by the WU-Minn-Oxford HCP consortium. Participants will learn how to acquire, analyze, visualize, and interpret data from four major MR modalities (structural MR, resting-state fMRI, diffusion imaging, task-evoked fMRI) plus magnetoencephalography (MEG) and extensive behavioral data. Lectures and computer-based practicals will provide grounding in neurobiological as well as methodological issues involved in interpreting multimodal data, and will span the range from single-voxel/vertex to brain network analysis approaches.

The course is open to graduate students, postdocs, faculty, non-profit and industry participants. The course is aimed at both new and current users of HCP data, methods, and tools, and will cover both basic and advanced topics. Prior experience in human neuroimaging or in computational analysis of brain networks is desirable, preferably including familiarity with FSL and Freesurfer software.

All lectures and printed material will be in English.

All practicals will be conducted on Linux-based computers provided by the course with all necessary data and software. Attendees are welcome to bring their own laptops and other electronics, but we will not be able to support running course practicals on personal computers at the course.

To get a sense of the material covered, check out the 2017 and 2018 course materials (lecture slide PDFs, practical instructions, software and practical datasets in a virtual machine) currently available for download. Each year the course is updated with the latest developments and analysis recommendations from HCP.

Registration & Accommodation Information

Registration (in US dollars) is $800 for PhD/MSc/undergrad students, $1300 for postdocs and other non-student attendees (including non-profit affiliated attendees), and $2300 for commercial attendees.

Course registration includes lectures, computer practical sessions, coffee/tea breaks each day, a Monday evening kickoff reception, and a course book containing the lecture slides and practical instructions.

Spaces are limited, registration will remain open until all spaces are filled. If registration fills, we will open a waiting list for those interested in being contacted if there are cancellations.

The registration fee does not include accommodation (see below), or meals; there are many cafés and restaurants nearby in Portland and an onsite restaurant at the conference center.

To register and pay, visit the on-line registration page. We are only able to take payment by credit card (sorry about this). Please note that your registration is not complete until you have finalized the payment (entering form information and then proceed to checkout and payment).

If you require an invitation letter as part of a travel visa application, please download this letter and fill in your contact information.

Broadway Hall

Typical dorm room at Broadway Residence Hall

Accommodation Information

Due to the high cost and limited availability of accommodation in downtown Portland during the week of the course, we are offering two accommodation options to course attendees that we have blocked for 6 nights (check-in Sun July 7, check-out Sat July 13, 2019) at two locations: 1) onsite at the University Place Hotel and 2) at the Broadway Residence Hall on the Portland State campus, just 3 blocks away from the University Place course venue.

Accommodations Options

  1. University Place Hotel and Conference Center, 310 SW Lincoln Street, Portland, OR 97201 (map): Standard King or Double-Double Rooms with hot breakfast included are available at the discounted rate of $128/night ($148/nt inclusive of tax). Book by June 15, 2019 to secure these rates. Two people can share these rooms but the reservation must be paid in one payment. Parking is $18/day additional.

    To make a reservation, call (503) 221-0140 Ext. 1 and tell reservations that you are with the "Human Connectome Project" room block. Or, go to our web page, select the booking dates then enter promotion code type in the code "BOOK NOW".
  2. Broadway Residence Hall at Portland State, 1948 SW Broadway, Portland, OR 97201 (map): Double rooms with two twin beds and a private bathroom (towels and linens provided) are available at the discounted rate of $72/night, inclusive of tax ($432 for 6 nights). Two people can share these rooms but the reservation must be paid in one payment. If needed, parking ($15/day) and meals (Breakfast- $9/day, Lunch- $10.25/day, Dinner- $12.00/day) can be purchased as options when making your reservation.

    To make a reservation, go to the HCP 2019 Summer Housing and Conferences online portal, and click “Sign Up".

Note: Accommodation is in high demand in Portland in the summer. We recommend booking your lodging as soon as possible!


Speakers and practical tutors to include: David Van Essen, Matt Glasser, Michael Harms, Janine Bijsterbosch, Timothy Brown, Tim Coalson, Jesper Andersson, Michiel Cottaar, Anderson Winkler, Greg Burgess, Leah Somerville, Alan Anticevic, Linda Larson-Prior and Jennifer Elam.

Preliminary Course Schedule

Day 1: Monday, July 8

TypeCourse (Presenter)Time
Course Registration and Coffee7:30 am
LectureIntro and Overview (David Van Essen)8:30 am
LectureHCP Data Acquisition (Michael Harms)9:30 am
Coffee / Tea Break10:30 am
PracticalIntroduction to wb_view (Jenn Elam)11:00 am
Lunch (not provided, make own arrangements)12:00 pm
LectureStructural MRI: Precise Neuroanatomical Localization (Matt Glasser)1:30 pm
PracticalData Quality (Michael Harms)2:30 pm
Coffee / Tea Break3:30 pm
LectureGroup Brain Parcellation (Matt Glasser)4:00 pm
PracticalIntroduction to wb_command and Group Parcellation (Tim Coalson, Jenn Elam)5:00 pm
Opening Reception (Location TBA)6:30 - 8:30 pm

Day 2: Tuesday, July 9

TypeCourse (Presenter)Time
LectureMultimodal Classification of Areas in Individuals and Parcellation Validation (Matt Glasser)8:30 am
PracticalIndividual Brain Parcellation (Matt Glasser)9:30 am
Coffee / Tea Break10:00 am
LecturerfMRI Background, Preprocessing, Denoising (Janine Bijsterbosch)10:30 am
LecturerfMRI Temporal Noise (Matt Glasser)11:15 am
Lunch (not provided, make own arrangements12:00 pm
PracticalrfMRI Preprocessing, Denoising; ICA-based Parcellations (Janine Bijsterbosch)1:30 pm
Coffee / Tea Break3:00 pm
LecturerfMRI Network Analysis Strategies (Janine Bijsterbosch)3:30 pm
PracticalrfMRI Netmats and Dual Regression (Janine Bijsterbosch)4:30 - 6:00 pm

Day 3: Wednesday, July 10

TypeCourse (Presenter)Time
LectureRegression, Prediction, and Permutation Analyses (Anderson Winkler)8:30 am
LectureFamily Structure and Heritability (Anderson Winkler)9:30 am
Coffee / Tea Break10:30 am
LectureTask fMRI and Behavioral Measure Analyses (Greg Burgess)11:00 am
Lunch (not provided, make own arrangements12:00 pm
PracticaltfMRI and PALM (Greg Burgess, Anderson Winkler)1:30 pm
Coffee / Tea Break3:00 pm
LectureHCP-style analyses of Non-Human Primate Data (David Van Essen)3:30 pm
LectureConnectomeDB and NIMH Data Archive (Tim Brown)4:30 pm
PracticalOptional: Cloud-based Processing Using HCP Pipelines and Amazon Web Services (Tim Brown)5:45 - 6:30 pm

Day 4: Thursday, July 11

TypeCourse (Presenter)Time
PracticalHCP Pipelines Practical I (Tim Brown)8:30 am
Coffee / Tea Break10:00 am
LectureClinical Connectome: Application of HCP Methods to Neuropsychiatric Illness (Alan Anticevic)10:30 am
Lunch (not provided, make own arrangements11:30 am
PracticalHCP Pipelines Practical II (Tim Brown)1:00 pm
LectureLifespan HCP: Development and Aging (Leah Somerville)2:00 pm
Coffee / Tea Break3:00 pm
PracticalDiffusion MRI, Distortion Correction and DTI (Jesper Andersson)3:30 pm
PracticalDiffusion MRI, Distortion Correction and DTI Practical (Jesper Andersson)4:30 - 5:30pm

Day 5: Friday, July 12

TypeCourse (Presenter)Time
LectureFibre Orientation Models and Tractography Analysis (Michiel Cottaar) 8:30 am
PracticalFibre Orientation Models and Tractography Analysis Practical (Michiel Cottaar)9:30 am
Coffee / Tea Break10:30 am
LectureHCP-MEG Connectome (Linda Larson-Prior)11:00 am
Lunch (not provided, make own arrangements12:00 pm
PracticalBuilding wb_view scenes (Jenn Elam)1:30 pm
Coffee / Tea Break3:00 pm
PracticalSharing on BALSA (Jenn Elam)3:30 pm
LectureHCP and Beyond: Looking Back and Forward (David Van Essen)4:30 - 5:30 pm

Cancellation Policy

Please register with care. We have made commitments on costs that cannot be changed the closer we approach to the course date. Here is our refund policy:

  • Full refunds available on registration cancellations up to May 22, 2019
  • 50% refunds available on registration cancellations from May 23 to June 5, 2019
  • No refunds of any kind for any cancellation on June 6, 2019 or beyond

Contact Information

If you have any questions, please contact us at:

We look forward to seeing you in Portland!