Beauchamp:Teaching

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(Introduction to fMRI)
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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.
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.
  https://gsbs.uth.edu/current-students/academics/academic-calendar/index.htm
  https://gsbs.uth.edu/current-students/academics/academic-calendar/index.htm
 +
Tentative course schedule
 +
Class # Class Date Class Topic
 +
1 9/3/14 1. Safety Briefing  2. Collect Block Design fMRI data
 +
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
 +
4 9/24/14 Analyze Event Related fMRI data
 +
5 10/1/14 Collect single subject anatomical (T1) data
 +
6 10/8/14 Analyze anatomical data: create Cortical Surface model using Free Surfer
 +
7 10/15/14 Collect Group fMRI and structural data
 +
8 10/22/14 Analyze Group fMRI data
 +
9 10/29/14 Analyze Group structural data (VBM)
 +
10 11/5/14 Collect resting state fMRI data TBD (MSB at NIH SPC study section)
 +
11 11/12/14 Analyze resting state fMRI data
 +
11/19/14 No Class (Society for Neuroscience annual meeting)
 +
11/26/14 No Class (Thanksgiving holiday)
 +
12 12/3/14 Collect pulse sequence comparison data (EPI vs. spiral)
 +
13 12/10/14 Analyze pulse sequence comparison data
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 (http://www.uthouston.edu/gsbs/current-students/academics/course-listing/courses/neuroscience/gs140053-introduction-to-functional-magnetic-resonance-imaging-.htm). 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) (http://neuro.bcm.edu/?sct=neuro_think&gp=cdescript). If you are a student at UT, Rice or Baylor contact your registrar for enrollment information.  
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 (http://www.uthouston.edu/gsbs/current-students/academics/course-listing/courses/neuroscience/gs140053-introduction-to-functional-magnetic-resonance-imaging-.htm). 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) (http://neuro.bcm.edu/?sct=neuro_think&gp=cdescript). If you are a student at UT, Rice or Baylor contact your registrar for enrollment information.  

Revision as of 10:28, 3 September 2014

Brain picture
Beauchamp Lab



Contents

Courses

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

General information about UT courses is available at https://my.uth.tmc.edu

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


2012

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

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

Click here for Teaching Material for Medical Neuroscience Laboratory Course

UT Graduate Cognitive Neuroscience (Anne Sereno, course director)

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

2011

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

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


Other Notes

A teaching website that shows midbrain, brainstem and spinal cord slices labeled with tracts and anatomy is http://isc.temple.edu/neuroanatomy/lab/

A website that shows labeled brain anatomy from the Visible Human project is http://www.netanatomy.com

A free iPhone app from the Cold Spring Harbor Laboratory allows 3D visualization of brain structures http://itunes.apple.com/us/app/3d-brain/id331399332?mt=8

A web-based version of the same app may be seen at http://www.g2conline.org/


misc teaching notes: Beauchamp:MedNSLabNotes

MS4 Neuroimaging Elective: BSCI 4008

Web page for fourth-year neuroimaging elective

AFNI/fMRI Short Course

Dr. Bob Cox, the Director of the Scientific and Statistical Computing Core at the National Institute of Mental Health Intramural Research Program will be visiting Houston on October 4-8, 2010. Together with his staff, Dr. Cox will teach a 5-day course on fMRI data analysis with the AFNI software package. Click for more information on the short course

Introduction to fMRI

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 https://owlspace-ccm.rice.edu/portal 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.

https://gsbs.uth.edu/current-students/academics/academic-calendar/index.htm

Tentative course schedule Class # Class Date Class Topic 1 9/3/14 1. Safety Briefing 2. Collect Block Design fMRI data 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 4 9/24/14 Analyze Event Related fMRI data 5 10/1/14 Collect single subject anatomical (T1) data 6 10/8/14 Analyze anatomical data: create Cortical Surface model using Free Surfer 7 10/15/14 Collect Group fMRI and structural data 8 10/22/14 Analyze Group fMRI data 9 10/29/14 Analyze Group structural data (VBM) 10 11/5/14 Collect resting state fMRI data TBD (MSB at NIH SPC study section) 11 11/12/14 Analyze resting state fMRI data 11/19/14 No Class (Society for Neuroscience annual meeting) 11/26/14 No Class (Thanksgiving holiday) 12 12/3/14 Collect pulse sequence comparison data (EPI vs. spiral) 13 12/10/14 Analyze pulse sequence comparison data

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 (http://www.uthouston.edu/gsbs/current-students/academics/course-listing/courses/neuroscience/gs140053-introduction-to-functional-magnetic-resonance-imaging-.htm). 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) (http://neuro.bcm.edu/?sct=neuro_think&gp=cdescript). 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: http://registrar.uth.tmc.edu/Registration/ConcurEnrollment.html

The textbook for this course is "Functional Magnetic Resonance Imaging", 2nd edition, by Huettel, Song and McCarthy. The text may be ordered from Amazon http://www.amazon.com/Functional-Magnetic-Resonance-Imaging-Second/dp/0878932860 or it is available at the UT bookstore at a 10% discount. For more information on the UT bookstore:

 https://www.webmedbooks.com/uthouston/content/contact.aspx

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


Other Courses and Lectures

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 http://www.uthgsbsmedphys.org/GS02-0193/default_2009.htm

Lecture at Indiana University in February of 2004

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

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