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PSYC 621

Applied Magnetic Resonance Imaging for Neuroscience

This is a hands-on graduate course in functional MRI methodology, how brain imaging data actually gets from the scanner to a publishable result, and how to judge whether that result means anything. You'll design and run small block and event-related experiments, then work through the full pipeline yourself: BIDS organization, preprocessing, first- and second-level GLMs, ROI and parametric analyses, and finally multivariate approaches like RSA and MVPA. It's aimed at students who want to run their own neuroimaging research, so the goal isn't just reading fMRI papers critically but reaching the point where you could plausibly start collecting and analyzing your own data by the end.

Kredi3ECTS5FakülteFaculty of Economics, Administrative, and Social SciencesBölümPsychologyKoordinatörHüseyin Boyacı

Haftalık müfredat 14 hafta

Hafta 114–20 Eyl
Ders içeriği ve işleyişinin belirlenmesi
Course introduction and class mechanics. Discussion of course content and structure, with adjustments made as needed to accommodate students’ research interests and needs.
class mechanicsders içeriğiöğrenci araştırma ilgileri
Hafta 221–27 Eyl
Araştırmada AI kullanımı ve MRI veri pratikleri
Tutorial on the principled use of Artificial Intelligence as a research aid, with emphasis on maintaining critical thinking, methodological rigor, and reproducibility while writing code. • Introduction to MRI data, BIDS convention, preprocessing theory • Discussion on good data practices. • Checking open datasets
AI as research aidMRI dataBIDS conventionpreprocessing
Hafta 328 Eyl – 4 Eki
Preprocessing, native space ve MNI space analizleri
Theoretical introduction and hands on to preprocessing, native space and MNI space analyses.
preprocessingnative spaceMNI spaceuygulamalı analiz
Hafta 45–11 Eki
Preprocessing ve uzay analizleri (devam)
Theoretical introduction and hands on to preprocessing, native space and MNI space analyses. (cont.)
preprocessingnative spaceMNI spaceuygulamalı analiz
Hafta 512–18 Eki
fMRI deney tasarımı ve veri toplama
Review of fMRI paradigm design basics, blocked designs, event-related designs • Tools for designing experiments (Psychopy, Psychtoolbox) • Discussing good experiment practices. • Data collection for a basic block design experiment • Using git for version control
fMRI paradigm designblocked designevent-related designPsychopy
Hafta 619–25 Eki
fMRI deney tasarımı ve veri toplama (devam)
Review of fMRI paradigm design basics, blocked designs, event-related designs • Tools for designing experiments (Psychopy, Psychtoolbox) • Discussing good experiment practices. • Data collection for a basic block design experiment • Using git for version control (cont.)
fMRI paradigm designPsychtoolboxveri toplamagit
Hafta 726 Eki – 1 Kas
Onset dosyası ve first level GLM analizi
Generating an onset (event) file for analysis. • Hands on to first level analyses, GLM analyses • Setting up contrasts
onset (event) filefirst level analysisGLMcontrast
Hafta 82–8 Kas
İkinci düzey analizler ve sonuç raporlama
Second level analyses, reporting results
second level analysisreporting results
Hafta 99–15 Kas
ROI, FIR ve parametric modulation analizleri
Region of Interest analyses • Finite impulse response analyses • Parametric modulation
region of interestfinite impulse responseparametric modulation
Hafta 1016–22 Kas
Event-Related Design ile Veri Toplama
Data collection for an event-related design paradigm
event-related designparadigmdata collection
Hafta 1123–29 Kas
Event-related design analizi ve sonuç raporlama
Analyses of the event-related design, Reporting results
event-related designreporting results
Hafta 1230 Kas – 6 Ara
Multivariate analiz kuramı: RSA ve MVPA
Multivariate analyses theory (RSA, MVPA)
multivariate analysisRSAMVPA
Hafta 137–13 Ara
Event-related design verisinde multivariate analiz
Multivariate analyses on the event-related design data collected.
multivariate analysisevent-related design
Hafta 1414–20 Ara
Event-related design verisinde multivariate analiz
Multivariate analyses on the event-related design data collected.
multivariate analysisevent-related design

Değerlendirme 100% · 3 adım

20%
60%
20%
In-class participation Class participation 20%
Homework Reading, coding and analysis assignments 60%
Project Project or exam 20%
en büyük tek kalem %60 nasıl hesaplanıyor

Önerilen kaynaklar 3 kitap

📕
Zorunlu
Functional Magnetic Resonance Imaging
Huettel, Song and McCarthy
Sinauer Associates · Inc.
📕
Zorunlu
Handbook of Functional MRI Data Analysis
Russell A. Poldrack, Jeanette A. Mumford
Thomas E. Nichols · Cambridge University Press
📕
Zorunlu
Statistical Analysis of fMRI Data
Gregory Ashby, The MIT Press Recommended - Web Link: The Basics of MRI Recommended - Web Link: mumfordbrainstats - YouTube Recommended - Web Link: Andrew Jahn - YouTube Recommended - Web Link: MVPA, FMRIF

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Bilkent'in resmî syllabus'ünden. Sağdaki etiket o çıktının hangi değerlendirmeyle ölçüldüğünü söylüyor.

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⚠️ FZ engelleyen şartlar

Course Learning Outcomes: Course Learning Outcome Assessment Gain sufficient MRI knowledge to be able to critically read the relevant literature Reading, coding and analysis assignments Gain an understanding of main analysis methods and procedures Class participation Reading, coding and analysis assignments Attain a skill level whereby the students are ready to implement their own research projects using MRI Class participation Reading, coding and analysis assignments

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