College of Graduate Studies

CGS 701/702 Unit Syllabi

Quicklist

Chemistry of Life Processes

Dr. Craig Beeson
QF 309C, 876-5091
beesonc@musc.edu

DateLecturesFlexInstructor

Wed Aug 21

1. Molecular Structure

Tinker Toys

Beeson

Thu Aug 22

1. Chemical Reactivity Assignment #1 Handout

Structure & Reactivity Questions

Beeson

Fri Aug 23

1. Solvation and Electrostatics

Beeson

Mon Aug 26

1. Biological thermodynamics & kinetics
2. Overview of bioenergetics & redox

 

Beeson

Tue Aug 27

1.Lipids, bilayers & membranes
2.Transporters & channels

Assignment 1 Due

Beeson

Wed Aug 28

1. Mechanisms in Glycolysis
2. Stuctural Aspects of Regulation Assignment #2 Handout

Beeson

Thu Aug 29

1. Electron transport chain
2. Chemiosmotic energy transduction & Oxidative Phosphorylation
Lemasters
Fri Aug 301. Beta oxidation & citric acid cycle
2. Mitochondrial physiology
Assignment 2 DueLemasters
Mon Sep 2NO CLASS (Labor Day)  
Tue Sep 31. Regulation of catabolism versus anabolism
2. Signaling in regulation of metabolism
 Beeson
Wed Sep 4Mitochondrial Dysfunction in DiseaseChan
Thu Sep 5Probing Metabolism in vitro and in vivoReviewBeeson

Fri Sep 6

UNIT EXAM 

Faculty

Craig Beeson, Ph.D., Drug Discovery and Biomedical Sciences
Sherine Chan, Ph.D., Drug Discovery and Biomedical Sciences
John J. Lemasters, MD, Ph.D., Drug Discovery and Biomedical Sciences, Biochemistry and Molecular Biology

General Reading

Lehninger (5th ed)Stryer
(7th ed)
Intro to Metabolism
14
14
Bioenergetics
13
Lipids, membranes
10
12
Ion channels
11
13
Glycolysis
14, 15
16
TCA
16
17
Oxidative-Phosph
19
18
Fatty Acid Oxidation
17
22
Pentose Phosphate
15
20
Pathway (HMP-shunt)
Gluconeogenesis
14-15
16
Glycogen Synthesis
15
21
Glycogen Catabolism
15
21
Fatty Acid Synthesis
17
22

Useful Websites:

http://www.bmb.leeds.ac.uk/illingworth/oxphos/
http://www.esf.edu/efb/course/EFB325/default.htm
http://www.aw-bc.com/mathews/
http://www.rpi.edu/dept/bcbp/molbiochem/MBWeb/mb1/MB1index.html

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Macromolecules: Proteins

Dr. Scott Eblen
BSB 313E; 792-1444
eblen@musc.edu

DateLecturesFlexInstructor

Mon Sept 9

Protein Properties and Expression

Paper discussionEblen

Tues Sept 10

Protein Modifications

Paper discussion

Eblen

Wed Sept 11

Protein Folding and StabilityChan & Dill PaperBeeson/Isaacs

Mon Sept 16

Protein-Protein Interactions

Paper discussion

Hsu

Tues Sept 17

Purification

Flex ActivityHsi

Wed Sept 18

Enzyme KineticsKinetics questionsBeeson

Mon Sept 23

Enzymes and CatalysisPaper discussion

Krupenko

Tues Sept 24

Principles of X-ray Crystallography

Flex activity

Davies

Wed Sept 25

Protein Purification/ProteomicsFlex activityBall

Fri Sept 27

Unit Exam 

Faculty

Scott Eblen, Ph.D., Cell and Molecular Pharmacology & Experimental Therapeutics
Craig Beeson, Ph.D., Drug Discovery and Biomedical Sciences
Jennifer Isaacs, Ph.D., Cell and Molecular Pharmacology & Experimental Therapeutics
Yi-Te Hsu, Ph.D., Cell and Molecular Pharmacology & Experimental Therapeutics
Chris Davies, Ph.D., Biochemistry and Molecular Biology
Sergey Krupenko, Ph.D., Biochemistry and Molecular Biology
Lauren Ball, Ph.D., Cell and Molecular Pharmacology & Experimental Therapeutics

General reading Prerequisite readings for this Unit are Chapters 2, 3, 6, 10.3, 10.4, 23.2, and 23.3
in Stryer 6th Ed; or Chapters 2,3,8,9,10,23.1,23.2, 30.4 and 30.5 in Stryer 7th Ed.

All assignments are due by 10:00 am on the assigned date: bring completed assignments to class. Read Assigned papers before class and be prepared to discuss them.

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Receptors & Signaling

Dr. Steven A. Rosenzweig
BSB 313G; 792-5841
rosenzsa@@musc.edu

DateLecturesFlexInstructor

Mon Oct 7

Overview of receptors & signaling

Methods in cell signaling

Rosenzweig

Tues Oct 8

The P13 kinase signaling pathway in disease

Paper discussion (1)

Muise-Helmericks

Wed Oct 9

G protein coupled receptors

Paper discussion (2)

Blumer

Mon Oct 14

G proteins and their regulatory proteins

Paper discussion (3)

Blumer

Tues Oct 15

Photoreceptors

Paper discussion (4)

Koutalos

Wed Oct 16

Protein: protein interactions in signal transduction

Methods for identifying/studying protein interactions

Ball

Mon Oct 21

Receptor tyrosine kinases in CancerPaper discussion (5)Rosenzweig
Tues Oct 22Protein kinases: MAP kinasesPaper discussion (6)Eblen
Wed Oct 23Cell signaling in response to hypoxiaPaper discussion (7)Isaacs

Fri Oct 25

Unit Exam 

Faculty

Steven Rosenzweig, Ph.D., Cell and Molecular Pharmacology
Joe Blumer, Ph.D., Cell and Molecular Pharmacology
Yiannis Koutalos, Ph.D., Ophthalmology
Lauren Ball, Ph.D., Cell and Molecular Pharmacology
Robin Muise-Helmericks, Ph.D., Regenerative Medicine and Cell Biology
Scott Eblen, Ph.D., Cell and Molecular Pharmacology
Jennifer Isaacs, Ph.D., Cell and Molecular Pharmacology

General reading

Prerequisite: Chapters 15, 17 & 20 of Molecular Biology of the Cell, 5th Ed, Alberts et al.

Specific Reading

Papers will be posted on Moodlerooms as required

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Macromolecules: Nucleic Acids

Dr. Tilman Heise
BSB 507; 792-6979
heise@musc.edu

DateLecturesFlexInstructor

Mon Oct 28

Introduction to Unit

History
Nucleic Acid Structure I

Heise

Hennig

Tues Oct 29

Nucleic Acid Structure II
Catalytic RNA
 Hennig

Wed Oct 30

Biosensor and Long Non-coding RNA'sPaper discussion, gradedHeise

Mon Nov 4

Prokaryotic DNA replication
Eukaryotic DNA replication
 Bidyut

Tues Nov 5

DNA Damage and Checkpoints
DNA Repair and Recombination
 Techniques in DNA replication Bidyut

Wed Nov 6

In vitro mutagenesis
Genome editing

 David Kurtz

Mon Nov 11

Genomics and information resources
Next Generation Sequencing
Jeremy Barth

Tues Nov 12

RNA VirusesPaper discussionSommer

Wed Nov 13

DNA Viruses

Paper discussion

Heise

Fri Nov 15

Unit Exam 

Faculty

Tilman Heise, Ph.D., Biochemistry and Molecular Biology
Mirko Hennig, Ph.D., Biochemistry and Molecular Biology
Bidyut Mohanty, Ph.D., Biochemistry and Molecular Biology
Jeremy Barth, Ph.D., Regenerative Medicine and Cell Biology
David Kurtz, Ph.D., Pharmacology and Experimental Therapeutics
Gunhild Sommer, Ph.D., Biochemistry and Molecular Biology

General reading

Prerequisite: Chapters 4-7 of Molecular Biology of the Cell, 5th Ed, Alberts et al. Also useful are Chapters 4, 5, 28, 29 & 30 in Stryer, 6th ed.

Providing PDF of papers and/or reviews

Flex Time

2 Graded in-class assignments

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Regulation of Gene Expression

Dr. David T. Kurtz
BSB 319F; 792-5844
kurtzdt@@musc.edu

DateLecturesFlexInstructor

Mon Nov 18

Prokaryotic transcriptional regulation

Molecular Biological Techniques I

Zhang

Mon Nov 19

Eukaryotic Transcription/Regulation of Gene ExpressionDiscussion of student presentations
Techniques II
Kurtz

Wed Nov 20

Integrating Transcriptional Regulation Signaling Events

Epigenetic Regulation of Gene Expression

Transgenic miceKurt

 Thurs Nov 21

HDAC's and HAT's Role in Gene Expression I
HDAC's and HAT's Role in Gene Expression II

Menick

Mon Nov 25

Micro RNAsI
Micro RNAs II

Menick

Tues Nov 26

Regulation of mRNA Processing and Localization I
Regulation of mRNA Processing and Localization II

Practice talks

Heise

Wed Nov 27

Regulation of mRNA Stability and Translation
Regulation of Translation and Degradation
Practice talks Heise

Mon Dec 2

Student presentations of research papers
Tues Dec 3Student presentations of research papers
Wed Dec 4Student presentations of research papers
Overview of Exam
Fri Dec 6Unit Exam

Faculty

David Kurtz, Ph.D., Cell and Molecular Pharmacology and Experimental Therapeutics
Donald Menick, Ph.D., Medicine
Tilman Heise Ph.D., Biochemistry & Molecular Biology
Yong-Mei Zhang, Ph.D., Biochemistry & Molecular Biology

Gerneral Reading

Prerequisite: Chapters 7, 8 and section 6.6 of Lodish et al, 7th Ed. Additional reading from recent reviews may be assigned by each lecturer.

Flex-Time

Primary research papers will be presented and discussed. Each student will select a current paper on gene expression (instructors will provide examples). Selected papers will be submitted for Unit leader approval by Monday, November 25, 2013. The Unit leader will give guidelines for the presentation, and grading criteria during Flex-time. Students will have a practice session with a TA on November 26 or 27, 2013. This will be done with 3 students and the TA will critique each presentation. In these practice sessions students will have the opportunity to ask questions and get very good input on their presenation. In these practice sessions the students will have the opportunity to ask questions and get very good imput on their presentation.  Students will give their formal presentation to the entire class on December 2,3, and 4, 2013.

Grading

25% of the Unit grade will derive from in-Unit research paper presentation, and 75% will derive from the Unit exam (closed-book, in-class).

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Immunology

Dr. Carl Atkinson
BSB 214B, 843-792-1716
atkinsoc@musc.edu

DATELecturesFlexInstructor
Mon Dec 9Introduction to Innate Immunity

Methods: Immunopathology
(Atkinson)

Atkinson
Tue Dec 10T cell receptor, recognition, and activationMethods: Flow Cytometry (Soloff)Paulos
Wed Dec 11B cell receptor, recognition, and activationAntibody Assignment (Kasman)Sutkowski
Thu Dec 12Development and survival of lymphocytesMethods: T cell Assays (Rubinstein)Rubinstein
Mon Dec 16Immunology and DiseaseLi
Wed Dec 18Unit Exam

Faculty

Carl Atkinson, Ph.D., Microbiology and Immunology
Chrystal Paulos, Ph.D., Microbiology and Immunology
Adam Soloff, Ph.D., Microbiology and Immunology
Laura Kasman, Ph.D., Microbiology and Immunology
Natalie Sutkowski, Ph.D., Microbiology and Immunology
Mark Rubinstein, Ph.D., Surgery/Microbiology and Immunology
Zihai Li, Ph.D., Microbiology and Immunology

General Reading and Resources

Immunobioloy, 7th edition (2008), Charles A. Janeway et al.
Cellular and Molecular Immunology, 7th edition (2011) Abul K. Abbas et al
The Immune System, 3rd edition (2009a0 Peter Parham

On-line Resource:
Dr. Harris Goldstein Immunology Lecture Mini-Course
Albert Einstein College of Medicine
http://www.einstein.yu.edu/video/?SCID=23&ts=conferences#top

 Specific Reading

 Papers will be posted on Moodlerooms as required.

Flex-Time

Will focus on presentation and discussion of immunological techniques to build upon the foundations discussed in formal lectures. The aim of these sessions is to explore methodologies in an interactive informal tutorial setting.

Grading

25% of the Unit grade will be derived from one in-Unit assignment carried out in a designated Flex-time session, and 75% will be derived from a closed-book, in-class exam.

Learning Objective:

The course aims are to guide the student through the immune system in all its aspects - from anatomy, first engagement of innate immunity, to the generation of the adaptive immune response and its clinical/disease consequences. The course will encompass topics such as the complement system, Toll-like receptors, mucosal immunity, T cell tolerance, B cell function and immune diseases.

Specifically students will learn:

  • Differences between innate and adaptive immunity
  • Structure, function and cellular constituents of immune system
  • Immune programing
  • Normal function of immune system
  • Immune system and disease
  • Introduction to key methods in Immunology

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Cellular Functions

Dr. Robert Gemmill
HCC 712B; 792-4643
gemmill@@musc.edu

DateLecturesFlexInstructor

Mon Jan 6

1.  Overview course Structure (brief)
2.  Two Bkg Lectures, Team 1
Sign-up for 1 of 4 presentation topics:
(1)  Integrate growth signals
(2) MicroRNAs & MetastomiRs
(3) Cell: ex-cell matrix inter
(4) Cell Motility
All Faculty
Gemmill & Findlay
50 min each

Tues Jan 7

(1)  Integration of growth signals (2h)
(2)  MicroRNAs & metastomiRs (2h)
Sign-up for 1 of 4 presentation topics
Literature databases

Gemmill-1st half-class
Findlay-2nd half-class

Wed Jan 8

(1)  Integration of growth signals (2h)
(2)  MicroRNAs & metastomiRs (2h)
search for papers
Literature databases
Gemmill-2nd half
Findlay-1st half

Thur Jan 9

Two bkg lectures Team 2
(3)  Cell: Extracellular Matrix Interactions
(4)  Cell Motility

Finalize group choice!!
Techniques disc OR
find papers & choose 2

Bradshaw & Nasarre
50 min each

Mon Jan 13

(3)  Cell:  Extracellular Matrix Interactions (2h)
(4)  Cell Motility (2h)
Submit group papers to relevant instructors

Bradshaw-1st half class
Nasarre-2nd half class

Tues Jan 14

(3)  Cell: Extracellular Matrix Interactions (2h)
(4)  Cell Motility (2h)
 Paper decision!!
Work on presentations
Bradshaw-2nd half
Nasarre-1st half

Wed Jan 15

In Class review of materials, experiments, papers Work on presentationsFaculty and Students
All Faculty present
Mon Jan 20MLK Day - no class  

Tues Jan 21

Student Presentations from first 2 groups

 

Students
All Faculty present

Wed Jan 22

Student Presentations from final 2 groupsStudents
All Faculty present

Fri Jan 24

Unit Exam

General Reading
Chapters 13, 14, 17-20, 22 and 25 Molecular Cell Biology, 6th edition, Lodish

Specific Reading
Papers will be posted on Moodlerooms before the relevant lecture.  Students are to read each paper and fill out the Journal Article Worksheet (JAW) BEFORE class.  Bring 2 paper copies of the JAW to class; one to turn in and one to guide discussion.

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Cell Injury and Response

Dr. Julie Woolworth Hirschorn
Children's Hospital, EH 222B, 792-1181
woolworj@@musc.edu

DateLecturesFlexInstructor

Mon Jan 27

Introduction

Cell Injury Part 1: causes, mechanisms, and morphology

Receive in-Unit assignment #1

Woolworth

Tues Jan 28

Cell Injury Part II: adaptations and deathMultihead scopes with pathologistsWoolworth

Wed Jan 29

Inflammation Part 1: mechanismsIn-Unit assignment #1 due.  Receive reading and in-Unit assignment #2Woolworth

Mon Feb 3

Immune System I

Receive in-Unit assignment #3

Kasman

Tues Feb 4

Immune System II

In-class activity #3;
receive in-Unit assignment #4

Kasman

Wed Feb 5

Techniques Rotation Day

Techniques Rotation

 

Mon Feb 10

Prepare paper discussion with group members

Article discussion #4

Schnellmann

Tues Feb 11

Hypersensitivity

Immunopathology organ transplant rejection

Review

Self

Woolworth

Wed Feb 12

Technique papers due 9:00am

Group 1 and 2 technique presentations
Group 3 and 4 technique presentations 

Fri Feb 14

Unit Exam

 

 

Faculty

Julie Woolworth, Ph.D., Pathology & Laboratory Medicine
Laura Kasman, Ph.D., Microbiology & Immunology
Sally Self, MD, Pathology and Laboratory Medicine
Richard Schnellmann, Ph.D., Drug Discovery and Biomedical Sciences

Learning Objectives will be provided at the start of the Unit

General reading

Robbins Basic Pathology, 7th edition (on reserve); the following chapters will supplement lecture notes:

Chapter 1, Cellular Injury and response, Aging, Apoptosis
Chapter 2, Inflammation
Chapter 5, Diseases of Immunity
Chapter 6, Neoplasia

Kumar, Robbins and Cotran Pathologic Basis of Disease, Professional Edition, 8th Ed. Available from the MUSC Library home page, Physician Assistant Library Resources, Pathology and Laboratory Medicine. http://www.library.musc.edu/page.php?id=1900&SASB=4

Kuby’s Immunology, 6th ed. (Kuby et al, 2006,) Chapters 1-10 contain basic information that supplements lecture notes.

To study normal versus pathologic situations in tissue, a good resource can be found at the MUSC Library home page, Physician Assistant Library Resources, AccessMedicine, Textbooks, Lange Educational Library, Histology Image Review.
http://www.accessmedicine.com/resourceTOC.aspx?resourceID=24

Relevant Unit questions are available at the Brainscape website at https://www.brainscape.com/study?pack_id=814223 (also available with the Brainscape or Flashcards+ app for iPad and iPhone). These apps are currently not available for Android or Blackberry)

Specific Reading

Will be posted on Moodlerooms before the relevant lecture and/or assignment.

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Systems Biology

Dr. Perry Halushka
BE 311; 876-2405
halushpv@@musc.edu

DateLecturesFlexInstructor (email)

Mon Feb 17

Introduction to the Unit
Mechanisms of Atheroscierosis
Hammad

Tues Feb 18

Mechanisms of AtheroscierosisHammad

Wed Feb 19

Renal Physiology Bell

Mon Feb 24

Renal Disease

Bell

Tues Feb 25

The Heart and Arterial Pressure Control MechanismsHalushka

Wed Feb 26

Cardiovascular Diseases/Hypertension Lackland

Mon Mar 3

Pulmonary PhysiologyKoutalos

Tues Mar 4

Pulmonary
Pathophysiology/COPD/Asthma
 Atkinson

Wed Mar 5

Review for Unit exam

Fri Mar 7

Unit Exam 

Faculty

Perry Halushka, Ph.D., M.D., Medicine/Pharmacology
Samar Hammad, Ph.D., Medicine
Darwin Bell, Ph.D., Medicine
Dan Lackland, DRPH, Neuroscience
Ioannis Koutalos, Ph.D., Ophthalmology
Carl Atkinson, Ph.D., Microbiology and Immunology

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