Syllabus for CLBY/MBIO/BIOC 599   RNA Structure and Function    Fall 2008

Classes meet Tuesday and Thursdays 1-2:30 in RT 100-1

 

 

Date

Title

Instructor

References

 Sep 2

Course Introduction and background lecture

Dr. Valadkhan

Slides posted on Blackboard

  4

Lecture:  RNA structure and folding, RNA/RNA and RNA/protein interactions

Dr. Harris

Slides to be posted soon

 9

Literature discussion by instructor

Dr. Harris

Draper review -  Soto review – Russell papers 1999, 2001, 2002

 11th, 2-3:30 pm. *** Note special time

Literature discussion by Neeti Maan (please choose one of the three papers to present)

Dr. Harris

Background review – Kinetic redistribution by helicases – CYT19 paper 2006 – CYT19 paper 2007

 16

 

Lecture:  Catalytic RNAs in viruses and eukaryotes, mechanism and in vivo relevance

Dr. Valadkhan

Strobel 2007 review.   Slides posted on Blackboard

 18

Literature discussion by instructor

Dr. Valadkhan

Ribozymes in mammalian genomes: hammerhead and HDV

 23

Literature discussion by Caroline Lee

Dr. Valadkhan

Group II intron trans splicing

 25

Lecture:   RNA in biological processes: the role of RNA in telomerase, signal transduction particle, etc.

Dr. Gott

Guiding by RNA: Huttenhofer review Slides posted on Blackboard

 30

Literature discussion by instructor

Dr. Gott

Telomerase paper by Cech

Oct  2

Literature discussion by Anthony Scott & Raghav Dutta

Dr. Gott

Telomerase paper by Feigon  & Lingner 2007

 7

Lecture: Ribosome as an RNA machine

Dr. Coller

Steitz Review

 9

Literature discussion by instructor

Dr. Coller

Halic-2004-SRP

 14

Literature discussion by Shih Chou & Krupen Patel

Drs. Coller and Valadkhan

SRP effect on translation ---- The role of SRP RNA

 16

Lecture: Large Non-protein coding RNAs, a novel class of regulators

Dr. Valadkhan

General review and a two page update. Slides posted on Blackboard

 23

Literature discussion by instructor

Dr. Valadkhan

HotAir paper and N&V

 28

Literature discussion by Sarah Geisler & Indira Krishnan

Dr. Valadkhan

HSR1 paper and N&V ----- B2.7 paper and N&V

 30

Lecture:  RNA in disease, RNA therapeutics: antisense RNAs, ribozymes and small RNAs.

Dr. Bruzik

RNA in genetic diseases review

Nov 4

2-3:30 pm *****

Literature discussion by instructor

Dr. Bruzik

miRNA-Schwartz

 6

Literature discussion by Amzie Pavlisin & Sheetal Verma

Dr. Bruzik

La-7SK-Zhou  -----  SMN-splicing-Dreyfuss

11

Lecture:  Riboregulators: riboswitches and other non-siRNA, non-miRNA small regulatory RNAs

Dr. deHaseth

Winkler-Breaker review  Slides posted on Blackboard

13

Literature discussion by instructor

Dr. deHaseth

GlmS riboswitch

18

Literature discussion by Emily Pontzer & Bing Zhang

Dr. deHaseth

SAH  paper & supp ------ Tandem riboswitches paper & supp

20

Lecture:  miRNA function: an in-depth look

Dr. Nilsen

Bartel 2007

25

Literature discussion by instructor

Dr. Nilsen

Steitz 2007 in Cell ------ Steitz 2007 in Science

Dec 2

Literature discussion by Ryan Fecteau & Dominic Hickey

Dr. Nilsen

Sheikhattar 2007 ------- Sonenberg 2007

5

Exam: Mini-grant to be submitted by Dec. 5th

Graded by faculty