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Brain picture
Beauchamp Lab

THIS IS AN ARCHIVE PAGE Click here for Current Teaching Resources

NBA Seminar Series Available Dates: Available Dates for 2014 - 2015

General information about UT courses is available at

Learning more about Neuroimaging

To learn more about neuroimaging, consider the two course sequence taught by David Ress (BCM) and Michael S. Beauchamp (UT).

Fundamentals of Human Neuroimaging

The first course in the sequence, taught in the Fall (Ress, course director), is a lecture course survey of neuroimaging methods and results. In 2014, the course was offered on Tuesdays and Thursdays from 10:50am to 12:05 pm. The course schedule may change in the future, please contact Dr. Ress for schedule information. This course is primarily listed as a BCM course (GS-NE-400) and is cross-listed at Rice as NEUR 430. Goals and learning objectives:

  1. Develop familiarity with basic neuroanatomy and electrophysiology.
  2. Understand the physical basis of magnetic resonance imaging of tissue structure, including the nuclear magnetic resonance, contrast mechanisms, image acquisition, signal processing, and scanner hardware.
  3. Understand the physiology of neurovascular coupling, and explore its effects on both optical signals and MRI.
  4. Understand basic concepts, hardware, and analysis of positron emission tomography.
  5. Become familiar with neuroscience imaging experiment design, analysis, and results, particularly as they are applied human vision science.

Neuroscience elective. 3 Credits for 2 terms (Terms 1 and 2). T/Th. Prerequisites: Introductory Calculus and Physics at the freshman level. Course director: David Ress, Ph.D.

Functional Magnetic Resonance Imaging Laboratory

The second course in the sequence, taught in the Spring (Beauchamp, course director) with limited enrollment is a laboratory course that focusses on MRI. Students will collect and analyze MRI data. The lab course is designed for graduate students, fellows, and others actively collecting MRI data for a research project. In 2014, the course was offered on Wednesday from 9am to 11:30am. The course will next be offered in Spring 2016.

Functional Magnetic Resonance Imaging Laboratory Course Details

Students will need to take an MRI safety course. Krista Runge will offer one on Sept 18 at 1 p.m., or will offer one specially for students in the class if that time is not convenient. The web page for students in this course to submit assignments and receive information about the course is For Fall 2014 - Spring 2015, this course will be offered on Wednesday mornings from 9 am to 11:30 am in UT MSB B.625 The first class will be Wednesday September 3 and the last class will be Wednesday December 10th. There will be no class on November 19th (Society for Neuroscience annual meeting) or November 26th (Thanksgiving Holiday). In general, the course follows the schedule of the UT GSBS.
Tentative course schedule

Class # / Class Date / Class Topic

  1. 9/3/14 1. Safety Briefing 2. Collect Block Design fMRI data (Lin's eyes/mouth experiment)
  2. 9/10/14 1. Install AFNI on Mac or Linux computers. 2. Analyze Block design fMRI data from class #1
  3. 9/17/14 Collect Event Related fMRI data (McGurk stimuli)
  4. 9/24/14 Analyze Event Related fMRI data (using assumed hemodynamic response function)
  5. 10/1/14 Collect event related data using spoken response (2 runs) and button response (2 runs); analyze block design data using ROIs
  6. 10/8/14 Collect and analyze resting state data (guest lecturer: Kelly Barnes; MSB at NIH SPC study section)
  7. 10/15/14 Analyze event related data using spoken response (2 runs) and button response (2 runs)
  8. 10/22/14 Analyze Group fMRI data
  9. 10/29/14 Collect and analyze DTI data
  10. 11/5/14 Analyze MVPA data
  11. 11/12/14 How to avoid double-dipping (circular analysis). Required reading: Vul; Simmons; Kriekescorte.
  12. 11/19/14 No Class (Society for Neuroscience annual meeting)
  13. 11/26/14 No Class (Thanksgiving holiday)
  14. 12/3/14 Collect pulse sequence comparison data (EPI vs. spiral)
  15. 12/10/14 Analyze pulse sequence comparison data. Final papers due.

This course is intended for graduate students, post-doctoral fellows and faculty who are interested in using fMRI for their research. A small number of undergraduates may also enroll in the course solely at the discretion of the instructor (only undergraduates who are currently working in a laboratory that uses functional MRI study will be considered). The course is primarily offered through the University of Texas Graduate School of Biomedical Sciences GSBS 140053 ( The course is also cross-listed at Rice University in the Psychology and Bioengineering departments (as Psych 579 and BioE 571) and in the Baylor College of Medicine Graduate School of Biological Sciences (as GS-NE-439) ( If you are a student at UT, Rice or Baylor contact your registrar for enrollment information. If you are a student at University of Houston, it is probably easiest to enroll in the course via cross-registration through Rice University. (UT requires vaccination records for cross-registration which is annoying). However, if you would like to enroll through UT, please visit this web page for information about enrolling in the course:

The textbook for this course is "Functional Magnetic Resonance Imaging", 2nd edition, by Huettel, Song and McCarthy. The text may be ordered from Amazon or it is available at the UT bookstore at a 10% discount. For more information on the UT bookstore:

After Fall 2014, the course will undergo substantial renovation. It will be renamed "Fundamentals of Human Neuroimaging" and split into two parts that will be offered in the Fall and Spring of every year. Dr. David Ress will teach the first part, primarily a lecture course on basic principles. Dr. Beauchamp will teach the second part, primarily a lab course on applied fMRI techniques.

  1. Spring 2015: no fMRI course
  2. Fall 2015: Ress teaches part I (more theoretical)
  3. Spring 2016: Beauchamp teaches part II (more practical)
  4. Repeat for each following Fall/Spring

GS14 1181: Graduate Neuroanatomy

Fall/annually/1-credit hour course. The Graduate Neuroanatomy course will provide a broad overview of the structure and function of the central nervous system. The general architecture of the nervous system and its functional systems are presented in a series of online exercises. The exercises allow the students to examine brain anatomy at a detailed view of the regional anatomy of the brain and spinal cord. MRIs of brain anatomy, as commonly presented in the scientific literature, will be presented using a computerized learning system. Click here for web page for Graduate Neuroanatomy Course

Medical Neuroscience

Click here for Teaching Material for Medical Neuroscience Laboratory Course

Here are slides presented for Medical Neuroscience in 2012

  1. Integrated Motor Systems
  2. Motor Cortex
  3. Spinal Cord
  4. Prelab slides for Lab #8
  5. Prelab slides for Lab #9

Here are slides presented for Medical Neuroscience in 2011

  1. Neuroimaging
  2. Motor System Lecture #1
  3. Motor System Lecture #2
  4. Motor System Lecture #3
  5. Motor System Lecture #4
  6. Motor System Lecture #5
  7. Motor System Lecture #6
  8. Prelab slides for Lab #8
  9. Prelab slides for Lab #9
2011 Lab 7 Notes

The NeuroLab CD contains incorrect information on the location of the frontal eye fields. This PDF shows the correct location FrontalEyeFields

2011 Lab 8 Notes

Many of the structures in Lab 8 can be seen on MRI. The following PDF contains labeled MRI sections. Lab8MRI

2010 Lecture Slides

Here are slides presented for Introduction to Neuroimaging on January 22, 2010 Neuroimaging

Here are slides presented for Motor System Lecture #1 (muscles) on March 17, 2010 Motor Systems Lecture #1

Here are slides presented for Motor System Lecture #2 (spinal reflexes) on March 17, 2010 Motor Systems Lecture #2

Here are slides presented for Motor System Lecture #3 (motor cortex) on March 19, 2010 Motor Systems Lecture #3

Here are slides presented for Motor System Lecture #4 (basal ganglia) on March 22, 2010 Motor Systems Lecture #4

Here are slides presented for Motor System Lecture #5 (cerebellum) on March 24, 2010 Motor Systems Lecture #5

Here are slides presented for Prelab #9 (descending pathways) on March 29, 2010 Prelab #9

UT Graduate Cognitive Neuroscience

UT Graduate Cognitive Neuroscience (Anne Sereno, course director)

  1. Lecture #1, Methods of Cognitive Neuroscience
  2. Lecture #2, Object Recognition

Other Notes and Old Courses

AFNI Boot Camp organized in Fall 2010

Here are slides presented in June 2012 at the Institute of Psychology of the Chinese Academy of Sciences

  1. Institute of Psychology of the Chinese Academy of Sciences

BCM Higher Brain Function (Mariela DeBiasi, course director)

  1. Lecture #1
  2. Lecture #2
  3. fMRI Educated Consumer Slides
  1. Information about West U Elementary School Science Night
  2. Basal Ganglia MRI Slides for "crowdsource" labeling

A teaching website that shows midbrain, brainstem and spinal cord slices labeled with tracts and anatomy is

A website that shows labeled brain anatomy from the Visible Human project is

A free iPhone app from the Cold Spring Harbor Laboratory allows 3D visualization of brain structures

A web-based version of the same app may be seen at

misc teaching notes: Beauchamp:MedNSLabNotes

Web page for previously-offered fourth-year neuroimaging elective Dr. Bob Cox, the Director of the Scientific and Statistical Computing Core at the National Institute of Mental Health Intramural Research Program visited Houston on October 4-8, 2010. Together with his staff, Dr. Cox taught a 5-day course on fMRI data analysis with the AFNI software package. Click for more information on the short course

A second course offered by Dr. Beauchamp is titled "Advanced Seminars in Neuroimaging". This is an advanced course for students who have already taken Introduction to fMRI.

Click here for information about a lecture on fMRI delivered at Texas Children's Hospital on December 2nd, 2009: TCH Lecture

A GSBS course on MRI physics is shown here

Lecture at Indiana University in February of 2004

Writing Courses: Picus,Mark A <> offers a summer course Writing Scientific Articles for Publication (GS21-1142).