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Titel Imaging in Neuroscience: with a Focus on Functional Magnetic Resonance Imaging Methods
Kursnummer 5522
Program Neurovetenskap
Språk Engelska
Antal högskolepoäng 1.5
Datum 2022-01-25 -- 2022-05-03
Kursansvarig institution Institutionen för klinisk neurovetenskap
Särskild behörighet Background in cognitive sciences, psychology, medicine, biomedicine, biology, medical imaging, computational biology or any humanistic discipline where neuroimaging is used as an experimental tool.
Kursens syfte The main purpose of the course is to enable the students to acquire solid understanding of the tools available to analyze brain activity data measured with functional magnetic resonance imaging (fMRI). The students will develop the ability to critically review results provided by different methods, to select the most adequate tools and experimental designs to answer different questions and to compare their relative advantages.
Kursens lärandemål After attending the course the student should be able to: 1) describe the usual preprocessing steps of fMRI; 2) give a brief overview of different methods to analyze the data and explain when to use them; 3) conducte simple fMRI analysis using several methods; 4) be acquainted with experimental designs to answer different questions using fMRI; 5) give a brief overview of the usage of magnetic resonance imaging to study brain structure and function; 6) give a brief overview of other techniques to study brain function non-invasively and describe their relative merits and challenges.
Kursens innehåll The course focuses on experimental design and analysis of fMRI data. We will briefly introduce the basis of the blood-oxygen-level dependent (BOLD) signal and how it is measured. The image processing steps, before statistical analysis, will be explained. The application of general linear model analysis to fMRI data will be explained, including random effects analysis and correction for multiple comparisons. We will discuss experimental designs for fMRI studies. The study of functional connectivity using fMRI data will be explained. We will also introduce machine learning techniques for analysis of fMRI data. Finally, structural measures of gray and white matter will be introduced as well as other techniques to measure functional and metabolic brain activity non-invasively.

Arbetsformer The course consists of lectures, hands-on sessions, group discussions and student presentations.
Obligatoriska moment Attendance of at least 90 % on all parts of the course moments is compulsory.
In certain cases students can be exempted from participation in a moment of the course. In these cases the student can be asked to complete a compensatory assignment.
Examination The learning outcomes will be assessed throughout the course during the hands-on sessions where the students have to perform data analyses. The students will also complete a more extensive assignment based on one of the hands-on sessions. In the final day of the course the students will present and discuss their assignments with the rest of the group.
Kurslitteratur och övriga läromedel Recommended literature:

Poldrack, Mumford and Nichols, Handbook of Functional MRI Data Analysis, Cambridge University Press, New York, 2011.

Haynes, A primer on pattern-based approaches to fMRI: principles, pitfalls, and perspectives, Neuron 87: 257-270, 2015.
Lindquist and Wager, Principles of functional Magnetic Resonance Imaging, in Handbook of Neuroimaging Data Analysis. London: Chapman & Hall, CRC Press, 2014.
Jenkinson and Chappel, Introduction to neuroimaging analysis. Oxford University Press 2018.
Van Dijk et al. Intrinsic Functional Connectivity As a Tool For Human Connectomics: Theory, Properties, and Optimization, Journal of Neurophysiology 103: 297–321, 2010.
Antal studenter 8 - 24
Urval av studenter Selection will be based on 1) the relevance of the course syllabus for the applicant's doctoral project (according to written motivation), 2) start date of doctoral studies (priority given to earlier start date)
Övrig information The course will take place from 9.00 to 12.00 on the following days: 25 Jan 2022, 8th February 2022, 22nd February 2022, 8th March 2022, 22nd March 2022, 5th April 2022, 19th April 2022; and from 9.00 to 15.00 on the 3rd of May 2022. This course is planned and offered in cooperation with the Department of Linguistics and the Department of Psychology at Stockholm University. The course is overlapping with the course Imaging in neuroscience: with a focus on functional magnetic resonance imaging methods, 1.5 higher education credits, offered at Stockholm University; and partly overlapping with the course with the same name but with 7.5 higher education credits at Stockholm University. Part or the totally of the classes will be at Stockholm University Brain Imaging Center (SUBIC), Svante Arrhenius väg 16 A.
Ytterligare kursledare At Karolinska Institute Rita Almeida is course responsible, Peter Fransson and Jonathan Berrebi are co-organizers. At Stockholm University Rita Almeida is course responsible, Patrik Andersson is co-organizer and Tunhe Zhou is teaching assistant.
Senaste kursvärdering Not available
Kursansvarig Rita Almeida
Institutionen för klinisk neurovetenskap

rita.almeida@ki.se
Kontaktpersoner Rita Almeida
Institutionen för klinisk neurovetenskap

rita.almeida@ki.se


 Peter Fransson
Institutionen för klinisk neurovetenskap

Peter.Fransson@ki.se


 Jonathan Berrebi
Institutionen för klinisk neurovetenskap

Jonathan.Berrebi@ki.se