Depth-resolved ("Layer") fMRI

This course is designed for researchers interested in developing and enhancing their skills of depth-resolved fMRI.

This is a hands-on course that aims to discuss all practical steps of a layer-fMRI study and to enable participants to perform state-of-the art analysis. Participants, will learn from a working group of experts a collection of commonly applied pipelines to analyze depth-resolved fMRI data, jointly work on a shared datasets to exemplify high quality analysis and commonly encountered pitfalls, and get hands-on experience for acquiring data with sub-millimeter resolution at some of the best scanners in the world.

Coordinator: Luca Vizioli and Laurentius Huber

Training Faculty: Laurentius Huber, Yulia Lazarova, Anna Izabella Blazejewska, Cheryl Olman, Luca Vizioli

Location:

All lectures are delivered in the Seminar room.
Trainees are split into groups for parallel data analysis hands-on sessions on Wednesday. The rooms where parallel hands-on sessions are hosted can be found below.

Notes:

All breakfasts, coffee breaks and lunches are served in the second-floor lobby outside the seminar room.
Fireside chat with Kamil is hosted in the courtyard if weather permits; otherwise, the chat is hosted in the second-floor lobby outside the seminar room.
Social hour with light dinner is hosted in the second-floor lobby outside the seminar room.
Instructions on how to connect to the server (needed for hands-on sessions) can be found at https://docs.google.com/document/d/1Qa_U7kBcchBmCRAIm38mnzdlJ_dOTkVp-ZC1pFT-f1A/edit?usp=drive_link.

Program Syllabus

Day 1

8.30 Registration/Breakfast
9 Welcome and Introduction
9 Current topics (Luca Vizioli)
9.30 Brainvoyager pipeline (Yulia Lazarova)
10.30 Coffee Break
10.45 Distortion compensation and registration (Cheryl Olman)
12:00 Lunch
13:00 Freesurfer (Anna Blazejewska)
14:00 AFNI – Laynii (Laurentius (Renzo) Huber)
15:00 Coffee Break
15:30 Parallel Sessions

Session 1: data acquisition at 7TAS (60 mins each)

Session 2: data acquisition at 10.5T ( 60 mins each)

17:30 Fireside chat with Dr. Kamil Ugurbil
18:30 Social hour with light dinner

Day 2

8.30 Breakfast
9:00 Parallel hands-on sessions #1 (hosted in both Seminar and Fishbowl): Participants will analyze the data using both preprocessing with a given pipeline of their choice (amongst those presented by the speakers)
10:30 Optional Coffee Break
11:00 Parallel hands-on sessions #1 (hosted in both Seminar and Fishbowl) resume
12:45 Lunch

People in the Seminar room switching out to the Terrarium conference room

13:45 Parallel hands-on sessions #2 (hosted in both Terrarium and Fishbowl): Participants will analyze the data using both preprocessing with a given pipeline of their choice (amongst those presented by the speakers)
15:15 Optional Coffee Break
15:45 Parallel hands-on sessions #2 (hosted in both Terrarium and Fishbowl) resume
17:15 Summary and Q&A
18:30 Social hour with light dinner

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