PhD Courses and Seminars

Each student should have access to MATLAB®, preferably on their own laptop with the following other software installed:

1. MATLAB. High-level technical computing language and interactive environment for algorithm development, data visualization, data analysis, and numeric computation. If you do not yet have the software and you are a UiB student, you should have access via https://apps.uib.no/ or Software Center on your PC. If you are an external student a free 30-day trial can be downloaded from the MathWorks website: www.mathworks.com/campaigns/products/trials.html?s_tid=srchtitle_site_search_1_trial
2. SPM12 for MRI analysis. The SPM12 download can be found here: https://www.fil.ion.ucl.ac.uk/spm/docs/installation/
3. CONN toolbox for resting-state fMRI analysis. The CONN toolbox download can be found here: https://web.conn-toolbox.org/resources/conn-installation 

Once the software has been installed, pleas check the installation as follows:

• Open Matlab
• Type "spm" in the Command Window
• Click "fMRI"
• Click "Toolbox.conn"

Possible issues with installation can hopefully be solved during the 1st day of the course as we will start using the software on the second day of the course. 

Dataset used during the task-based fMRI practicals can be found at https://www.fil.ion.ucl.ac.uk/spm/data/auditory/ 

Day 1

Location: Room9A109bP, BB-building

10.15-11.00 Introduction, Noora Tuovinen & Ruth Steiger

11.15-12.00 Lecture 1: MRI acquisitions, Ruth Steiger

12.15-13.00 Lunch

13.15-14.00 Lecture 2: Introduction to task-based fMRI, Noora Tuovinen

14.15-15.00 Lecture 3: Introduction to resting-state (rs-)fMRI, Noora Tuovinen

Day 2

Location: Room B306, Sentralblokka, HUS

09:15-10:00 Lecture 4: Introduction to brain anatomy and fMRI, Noora Tuovinen

10.15-11.00 Lecture 5: Introduction to fMRI preprocessing, Noora Tuovinen

11.15-12.00 Practical session: fMRI preprocessing on  SPM12 software

12.15-13.00 Lunch

13.15-14.00 Visit to Nordic NeuroLab (NNL) HQs: Tour through Office (Rooms, Production, Engineering, etc.), NNL introduction 

14.15-15.00 NNL visit: Demo/try out the fMRI Essentials System + nordicAudio + nordicComfortPLayer; on volunteers

15.15-16.00 NNL visit: Demo/try out the VisualSystem HD; on volunteers

16:15-17:00 NNL visit: Q&A Session (drinks/snacks, NNL visit)

Day 3

Location: Room9A109bP, BB-building

09:15-10:00 Practical session: fMRI preprocessing on  SPM12 software

10.15-11.00 Practical session: fMRI preprocessing on SPM12 software

11.15-12.00 Lunch

12.00-13.00 MRI scanner visit, Ruth Steiger

13.15-14.00 MRI scanner visit, Ruth Steiger

14.15-15.00 MRI scanner visit, Ruth Steiger

15.15-16.00 Practical session: Hands-on homework

Day 4

Location: Seminar room "Sentralen", Odontology building

09:15-10:00 Lecture 6: Theory on task-based fMRI analyses, Ruth Steiger

10.15-11.00 Practical session: Task-based fMRI analyses on SPM12 Software

11.15-12.00 Practical session task-based fMRI analyses on SPM12 Software

12.15-13.00 Lunch

13.15-14.00 Lecture 7: Theory on rs-fMRI analyses, Noora Tuovinen

14.15-15.00 Practical session: Rs-fMRI analyses on CONN toolbox

15.15-16.00 Practical session: Rs-fMRI analyses on CONN toolbox

Day 5

Location: Room D302, Sentralblokka, HUS

09:15-10:00 Homework presentations

10.15-11.00 Homework presentations

11.15-12.00 Homework presentations

12.15-13.00 Lunch

NOTE: Please note that certain demos are given in a different location than the lectures. See the given timeslot on the timetable below for details.

Week 39, 22.september

Location: Room 9A109bP, at BBB

13:00-13:45 Welcome and presentation of the course, Marco Hirnstein (UoB)

14:00-16:00 Basic genetics, Stephanie Le Hellard (UoB)

16:15 Social activity: Exploring nature and nurture, Location: Mount Ulriken if weather permits

Week 39, 23.september

Location: Room 9A109bP, at BBB

09:15-10:00 Presentation PhD project, Marco Hirnstein (UoB)

20:15-13:30 Neuropsychiatry: Schizophrenia, Erik Johnsen (UoB/HuH)

13:30-14:15 Demo. Next Generation Sequencing – Decoding Gene Expression in CNS, Carla P.D. Fernandes (UoB). Location: Room 6.2 (6th floor), at Lab.building

14:30-16:15 Epigenetics in psychiatric disorders, Stephanie Le Hellard (UoB)

Week 39, 24.september

Location: Auditorium Øye (room 1016), at Augebygget

09:15-12:30 Basic neuroanatomy: "The Human Brain - A Painting and Crafts Course" - Part I, Jelena Mrdalj (UoB)

13:30-16:00 Basic neuroanatomy: "The Human Brain - A Painting and Crafts Course" - Part II, Jelena Mrdalj (UoB

Week 39, 25.september

Location: Auditorium Øye (room 1016), at Augebygget

09:15-10:00 Presentation PhD project, Marco Hirnstein (UoB)

10:15-12:00 Basic neuroanatomy: "The Human Brain - A Painting and Crafts Course" - Part III, Jelena Mrdalj (UoB)

13:00-15:00 Basic neuroanatomy: Dissection of the brain - demo, Jelena Mrdalj (UoB). Location: Disseksjonssal Posterior (2.floor, BB-building)

Week 39, 26.september

Location: Room 9A109bP, at BBB

09:15-10:00 Presentation PhD project, Marco Hirnstein (UoB)

10:15-12:45 Neurotransmission, Jan Haavik (UoB)

13:30-15:30 Basic Neurophysiology, Clive Bramham (UoB)

Week 40, 29.september

Location: Room 9A109bP, at BBB

09:15-10:00 Presentation PhD project, Marco Hirnstein (UoB)

10:15-12:45 Non-invasive brain stimulation: Methods and applications, Marco Hirnstein (UoB)

13:30-16:15 Biological rhythms and sleep, Janne Grønli (UoB)

Week 40, 30.september

Location: Room 9A109bP, at BBB

09:15-10:00 Presentation PhD project, Marco Hirnstein (UoB)

10:15-12:00 Human electrophysiology: EEG/ERP, Daniela Pfabigan (UoB)

12:45-14:00 Demo of in vivo reg in the rat/EEG-ERP, Aamra Mahboob/Daniela Pfabigan (UoB). Location: EEG LAb C, 9B101dP

14:30-16:00 Demo of in vivo reg in the rat/EEG-ERP, Aamra Mahboob/Daniela Pfabigan (UoB). Location: EEG LAb C, 9B101dP

Week 40, 01.october

Location: Seminar room "2.molar", at Odontology building

09:15-12:00 Clinical neuropsychology, Astri Lundervold (UoB)

12:45-15:30 Demo: Neuropsychological tests, Eike Wehling/Steinun Adolfsdottir (UoB)

Week 40, 02.october

Location: Room 9A109bP, at BBB

09:15-12:00 Emotion, affect and the brain, Daniela Pfabigan (UoB)

12:45-15:30 Brain imaging: fMRI - Methods & Applications, Karsten Specht (UoB)

Week 40, 03.october

Location: Room 9A109bP, at BBB

09:15-11:00 Language and Neuroimaging, Karsten Specht (UoB)

11:15-13:00 Demonstration MR Scanner, Karsten Specht (UoB). Location: MR facilities, hospital

13:00-14:00 Evaluation of the IGSIN course & Lunch, Marco Hirnstein (UoB), Location: Cafeteria 4th floor