IntroductionNeuroimagingLectures - Methods
location: IntroductionNeuroimagingLectures

Introduction to Neuroimaging Methods

Lectures and Workshops

Lectures and workshops will take place on Wednesdays, 14.30, in the CBU West Wing Seminar Room (unless stated otherwise, please check below). Workshops usually take about 2 hours, lectures may be shorter.

The workshops will require registration via a Doodle poll. Details will be announced before individual events via this mailing list: http://lists.mrc-cbu.cam.ac.uk/mailman/listinfo/skillstraining (Non-CBU people can subscribe by sending an e-mail to skillstraining-subscribe (at) mrc-cbu (dot) cam (dot) ac (dot) uk).

We expect attendees to have basic skills in scientific computing and programming, e.g. at the level taught in our previous workshops. It might help to refresh your memories a little bit.

Look here for other training opportunities in and around Cambridge.

Please contact OlafHauk with questions and feedback.

BrainComputer.jpg

Lent Term

Date

Time

Title

Presenter(s)

Type

Comments

Jan 18

14.30

A Field Day: Some Physics You May Find Useful

Olaf Hauk

Lecture (~ 1h)

Basic physical concepts needed for the interpretation of EEG/MEG and fMRI data. Electric potential, fields, atoms and spins...

Jan 25

14.30

MRI Physics 1: Introduction to MRI Physics

Marta Correia

Lecture (~1.5h)

This talk will cover the basic principles of MRI physics for beginners, including nuclear spins and net magnetization, excitation and relaxation mechanisms, slice selective gradients, frequency and phase encoding, image formation and k-space.

Jan 30 (Monday!!)

12.30

MRI Physics 2:The BOLD Signal and Common Artefacts

Marta Correia

Lecture

This talk is aimed at fMRI beginners and will be divided into two parts. Firstly, I will talk about the biophysics of fMRI and the basic mechanism behind BOLD contrast. In the second half, I will discuss common image artefacts and ways to work around them.

Feb 8

14.30

fMRI Analysis 1: fMRI Pre-Processing (workshop materials)

Johan Carlin

Lecture + Workshop

We will cover basic preprocessing of fMRI data, and some useful diagnostic visualisations to help spot problems.

Feb 15

14.30

fMRI Analysis 2: Single subject analysis using GLM (workshop materials)

Johan Carlin

Lecture + Workshop

This workshop covers the basic principles of single-subject design focusing on how it is implemented in SPM. We will also discuss how to design efficient fMRI experiments.

Feb 22

14.30

fMRI Analysis 3: Group analysis and statistical inference (workshop materials)

Johan Carlin

Lecture + Workshop

After a short recap of the GLM, which also is the basis of group analysis, we will review some example designs. We will focus especially on statistical inference and multiple comparisons correction.

Mar 1

14.30

Brain stimulation PDF

TBA

Lecture (45 min approx.)

This talk will provide an introduction to brain stimulation methods, with a focus on transcranial magnetic stimulation (TMS) and transcranial electrical stimulation (tES). I will cover the principles of these techniques, the physiological basis of the effects, the different protocols used, and examples of how brain stimulation can be used as an experimental and therapeutic tool.

Mar 8

14.30

EEG/MEG 1: Pre-processing and Data Reviewing PDF

Olaf Hauk

Lecture + Workshop

Signal generation, Maxfilter, Common artefacts, ICA, Averaging, MEG-MRI Coregistration

Mar 14 (!!!) Tuesday

14.30

EEG/MEG 2: Head Models and Source Estimation PDF

Olaf Hauk

Lecture+Workshop

We will look at structural MRI data and reconstructed cortical surfaces, co-register MRI and MEG coordinate systems, talk about the basis theory of source estimation, and try some linear source estimation ourselves. We will then compare different methods as well as EEG and MEG with respect to spatial resolution using the concepts of point-spread and cross-talk.

Mar 22

14.30

EEG/MEG 3: Time-frequency and Functional Connectivity Analysis PDF

Olaf Hauk

Lecture+Workshop

Basics of Fourier and Wavelet analysis; source estimation at single-trial level; spatial resolution: point- and field-spread; spectral connectivity: coherence and phase-locking; possibly more…

Previous Easter Term (not updated yet)

April 12 (Tuesday!)

11.00-13.00
14.30-16.30

Introduction to aa (v5) + fMRI Analysis 3: Group Statistics
1_aa_Intro.pdf
2_aa_4.3.pdf
3_aa_5.pdf
4_aa_Coding_MRI.pdf
4_aa_Coding_MEG.pdf
4_aa_material.zip
7_Group.pdf
7_Group_material.zip

Tibor Auer

Lecture + Workshop

The lecture describes aa in general along with the new features of v5. During the workshop you write aa user master scripts (UMSs) using aa v5 to process structural and fMRI data, as well as MEG data. After a short recap of GLM, we will review some example designs. The main topics are: fixed and random effects, repeated measures, ANOVA, ANCOVA.

April 20

14.30

Multivariate fMRI Analysis I PDF

Marieke Mur

Lecture + Workshop

This workshop introduces linear classification, one of the most popular forms of multivoxel pattern analysis. We will give an overview of the most commonly used linear classifiers, and list the steps that are needed to implement a classification analysis. The workshop will include a hands-on matlab session, during which we'll go through example code that performs linear classification on an fMRI data set.

April 27

14.30

Multivariate fMRI Analysis II PDF

Marieke Mur

Lecture + Workshop

This workshop introduces representational similarity analysis (RSA), a more recent form of multivoxel pattern analysis which has gained popularity over the last few years. We will give an overview of the origin of RSA and how it relates to linear classification, and list the steps that are needed to implement RSA. The workshop will include a hands-on matlab session, during which we'll analyse the same fMRI data as last week, but this time using RSA.

May 4

14.30

Multimodal Imaging

Rik Henson

Lecture

This lecture will describe possible generative models that can be used to integrate data from EEG, MEG and fMRI

May 11

11.00 (!!!)

Connectivity with EEG/MEG and fMRI

Rik Henson

Lecture

This lecture will introduce concepts of functional and effective connectivity, briefly describe effective connectivity in fMRI (eg dynamic causal modelling) and then expand on the larger range of methods available for measuring connectivity with EEG/MEG.

May 18

14.30

Diffusion MRI I

Marta Correia

Lecture + Workshop

This workshop will cover the basic principles of diffusion MRI acquisition and data analysis. It will include a practical component covering pre-processing of diffusion MRI data, model fitting, group analysis of diffusion parameters and tractography.

May 25

14.30

Diffusion MRI II

Marta Correia

Lecture + Workshop

In this week’s workshop we will continue the hands on session for pre-processing of diffusion MRI data and introduce methods for group analyses. We will also cover more advanced diffusion MRI methods, including tractography and probabilistic modelling.

June 9 and 10

all day

fMRI and EEG/MEG Analysis in SPM - from raw data to multimodal images

2-day event

June 9

10-13.00

fMRI analysis in SPM

Rik Henson, Jason Taylor

Lecture and Demo

Demo of standard fMRI analysis in SPM12. You will be able to follow the analysis in your own Matlab session.

June 10

10-12.00

Introduction to EEG/MEG analysis in SPM

Vladimir Litvak

Lecture+Demo (Lecture Theatre)

Introduction and overview of EEG/MEG analysis in SPM

14.00

Source estimation and statistics

Rik Henson, Jason Taylor

Lecture+Demo (Lecture Theatre)

Demo of source estimation and statistics in SPM

15.30

Multimodal imaging

Rik Henson, Jason Taylor

Workshop (WWSR)

Participants can analyse a multi-modal data set under supervision, following chapter 42 of the SPM12 manual

None: IntroductionNeuroimagingLectures (last edited 2017-02-21 16:02:54 by JohanCarlin)