This page contains a directory of all of the assignments for each week. You can quickly jump to the content pages for the given week by clicking on the date in the assignment table below.
Assignments
Week 16-18: May 13 - June 3, 2009
FINAL CASE STUDY: this case study represents the culminating activity for this course. This is a an opportunity for you, working in a team-based collaborative manner as is the expectation in a professional environment, to produce a body of work that demonstrates your ability to apply your knowledge and skills in medicinal chemistry to a problem.
- Final Case Study
- Project Management Worksheet (Excel file): this file, completed in terms of who will be doing which parts, must be submitted via email by the project manager NO LATER THAN 11 pm Monday, May 18th. Earlier submission is strongly recommended!
- Case Study Rubric (Grading sheet)
- Support Materials
- Some optimized opiate ligands (PDB files)
- ADME data on selected opioids
- Readings (NOTE! These readings are to be used MOSTLY for background reading. This paper is NOT -- repeat NOT -- a book report. If you include information from these or other readings in your paper, they must be CAREFULLY and EXPLICITLY cited).)
- Groups
- Team A: Ip, Sarasozo, Skakuj
- Team B: Adloo, Smith, Syed
- Team C: Amin, Aphale, Moseley
- Team D: Bradfield, Mariano, Rogers
- Team E: Cavagnini, D'Costa, Venkateswaran
- Team F: Colquhoun, Longo, White
- Help Schedule: all times 8:30 - 9:30 pm)
- Computational Chemistry group:
- Sunday, May 17
- Thursday, May 21
- Pharmacology group:
- Monday, May 18
- Monday May 25
- Protein Studies group:
- Tuesday, May 19
- Tuesday May 26
- Last minute questions: Thursday, May 28
- Computational Chemistry group:
- PROJECT DUE (by email): 11 pm Tuesday, June 2
Week 15: May 6, 2009
| Date | Assignment | Deliverable | How to submit | Special Notes |
|---|---|---|---|---|
| Wednesday, May 6 | Watch Week 14 podcast Protein-Ligand Docking (Part B) |
None. Lecture notes can be downloaded here | You are strongly encouraged to watch this prior to the Thursday night session! | |
| Sunday, May 10, 11 pm | Read Chapter 4, pages 113-133 and article: "Many Roles of Computation in Drug Design" | WebAssign |
WebAssign | |
| Tuesday, May 12, 11 pm | Docking Exercise #2 |
WebAssign |
WebAssign |
Week 14: April 29, 2009
| Date | Assignment | Deliverable | How to submit | Special Notes |
|---|---|---|---|---|
| Wednesday, April 29 | Watch Week 13 podcast Protein-Ligand Docking (Part A) |
None. Lecture notes can be downloaded here | You are strongly encouraged to watch this prior to the Thursday night session! | |
| Sunday, May 3, 11 pm | Read Chapter 8, pages 251-265 (same as last week) | WebAssign |
WebAssign | |
| Tuesday, May 5, 11 pm | Docking Exercise #1 |
WebAssign |
WebAssign |
Week 13: April 22, 2009
| Date | Assignment | Deliverable | How to submit | Special Notes |
|---|---|---|---|---|
| Wednesday, April 22 | Watch Week 13 podcast Intro to Bioinformatics |
None. Lecture notes can be downloaded here | You are strongly encouraged to watch this prior to the Thursday night session! | |
| Sunday, April 26, 11 pm | Read Chapter 8, pages 251-265 | WebAssign |
WebAssign | |
| Tuesday, April 28, 11 pm | Case Study: COX-2 Enzyme Study |
WebAssign |
WebAssign |
Week 12: April 8, 2009
| Date | Assignment | Deliverable | How to submit | Special Notes |
|---|---|---|---|---|
| Tuesday, April 14, 11 pm | Watch TED presentation on molecular origami |
None |
Week 11: April 1, 2009
| Date | Assignment | Deliverable | How to submit | Special Notes |
|---|---|---|---|---|
| Wednesday,April 1 | Watch Week 11 podcast Protein Structure (Part 2) |
None. Lecture notes can be downloaded here | You are strongly encouraged to watch this prior to the Thursday night session! | |
| Sunday, April 5, 11 pm | Short WebAssign on podcast | WebAssign |
WebAssign | |
| Tuesday, April 7, 11 pm | Protein Profile Lab |
WebAssign |
WebAssign |
Week 10: March 25, 2009
| Date | Assignment | Deliverable | How to submit | Special Notes |
|---|---|---|---|---|
| Wednesday,March 25 | Watch Week 10 podcast Intro to Protein Structure |
None. Lecture notes can be downloaded here | You are strongly encouraged to watch this prior to the Thursday night session! | |
| Wednesday,March 25 | Register for an account on the Student Biology Workbench |
Watch the short podcast on how to do this. | ||
| Sunday, March 29, 11 pm | Read Wikipedia readings on: (or any other website, textbook, etc. that contains this information | WebAssign |
WebAssign | |
| Tuesday, March 31, 11 pm | Lab |
WebAssign |
WebAssign |
Week 9: March 18, 2009
| Date | Assignment | Deliverable | How to submit | Special Notes |
|---|---|---|---|---|
| General | Review for midterm. Study Guide is available here. |
None |
None | |
| Tuesday, March 24, 11 pm | Pharmacokinetics Lab |
WebAssign |
WebAssign |
Week 8: March 11, 2009
| Date | Assignment | Deliverable | How to submit | Special Notes |
|---|---|---|---|---|
| Wednesday,March 11 | Watch Week 7 podcast Drug Synthesis |
None. Lecture notes can be downloaded here | You are strongly encouraged to watch this prior to the Thursday night session! | |
| Sunday, March 15, 11 pm | Read Chapter 15, pg 531-534; 548-557 | WebAssign |
WebAssign | |
| Tuesday, March 17, 11 pm | Lab |
WebAssign |
WebAssign | |
| General | Review for midterm. Study Guide is available here. |
None |
None |
Week 7: March 4, 2009
| Date | Assignment | Deliverable | How to submit | Special Notes |
|---|---|---|---|---|
| Wednesday,March 4 | Watch Week 7 podcast ADME Principles |
None. Lecture notes can be downloaded here | N/A | You are strongly encouraged to watch this prior to the Thursday night session! |
| Sunday, March 8, 11 pm | RE-read Chapter 21-35; read about drug metabolism, ADME, and Cytochrome P450 on Wikipedia | WebAssign |
WebAssign | |
| Tuesday, March 10, 11 pm | Lab: Drug Assessment of Fluoxetine |
WebAssign |
WebAssign | You will need this Drug Assessment Form (Microsoft Word) |
Week 6: February 25, 2009
| Date | Assignment | Deliverable | How to submit | Special Notes |
|---|---|---|---|---|
| Wednesday, February 25 | Watch Week 6 podcast Part A Part B |
None. Lecture notes can be downloaded here | N/A | Two parts! |
| Sunday, March 1, 11 pm | Read Chapter 3. pages 90-110 in "Medicinal Chemistry | WebAssign |
WebAssign | |
| Monday, March 2, 11 pm | QUIZ! | WebAssign | WebAssign | Counts as TWO homeworks! |
| Tuesday, March 3, 11 pm | Lab |
WebAssign |
WebAssign |
Week 5: February 18, 2009
| Date | Assignment | Deliverable | How to submit | Special Notes |
|---|---|---|---|---|
| Wednesday, February 18 | Watch Week 5 podcast |
None. Lecture notes can be downloaded here. | N/A | Best viewed in iTunes |
| Sunday, February 22, 11 pm | Read Chapter 2. pages 61-63 in "Medicinal Chemistry | WebAssign |
WebAssign | This activity also includes questions from the lecture/podcast! |
| Tuesday, February 24, 11 pm | pKa Analysis of 9 Experimental Drugs |
WebAssign |
WebAssign |
Week 4: February 11, 2009
| Date | Assignment | Deliverable | How to submit | Special Notes |
|---|---|---|---|---|
| Wednesday, February 11 | Watch Week 4 podcast |
None | N/A | Cick on the link at left, download to your computer, load into iTunes |
| Sunday, February 15, 11 pm | Read Chapter 2. pages 37 - 59 in "Medicinal Chemistry | WebAssign |
WebAssign | Webassign |
| Monday, February 16, 10 pm | Stereochemistry WebAssign |
WebAssign |
WebAssign | Webassign problems. There is a short tutorial in the Tutorials section |
| Tuesday, February 17 | Drug Solubilities Lab |
WebAssign |
WebAssign | See the Sample Technical Memo for assistance in preparing the final product. There are also several iTunes tutorials in the Tutorials section |
Week 3: February 4, 2009
| Date | Assignment | Deliverable | How to submit | Special Notes |
|---|---|---|---|---|
| Wednesday, February 4 | Watch Week 3 podcast/lecture |
None | N/A | This lecture is available on Elluminate under "Recordings" for Feb 5, 2009 |
| Friday, February 6, 11 pm | Read Chapter 3. pages 75-87 in "Medicinal Chemistry | WebAssign |
WebAssign | |
| Monday, February 9, 11 pm | Functional Group Binding Mechanisms |
WebAssign |
WebAssign | |
| Tuesday, February 10 | Lead Drug Modification Lab |
WebAssign |
WebAssign | Consider partnering with one of your colleagues! |
Week 2: January 28, 2009
| Date | Assignment | Deliverable | How to submit | Special Notes |
|---|---|---|---|---|
| Wednesday, January 28 | Watch Week 2 podcast/lecture |
None | N/A | Available on GoCourse under Week 2 OR by clicking on the link at left, download to your computer |
| Sunday, February 1, 10 pm | Read Chapter 1. pages 21 - 35 in "Medicinal Chemistry | WebAssign |
WebAssign | Webassign |
| Monday, February 2, 10 pm | Study Guide: Organic Nomenclature |
WebAssign |
WebAssign | Webassign problems |
| Tuesday, February 3 | Drug Structure Lab |
WebAssign |
WebAssign | This lab will be done during residential weekend. You should download this Excel file for your data! |
Week 1: January 21, 2009
| Date | Assignment | Deliverable | How to submit | Special Notes |
|---|---|---|---|---|
| Wednesday, January 21 | Watch Week 1 podcast/lecture |
None | N/A | Available on GoCourse under Week 1 OR by clicking on the link at left, download to your computer |
| Thursday, January 22 | Review WebAssign Student Guide |
None | N/A | Students are expected to know how to use WebAssign |
| Thursday, January 22 | Read journal article: Career Profile of a Medicinal Chemist |
None | N/A | |
| Friday, January 23 | Read Chapter 1. pages 1-21 (Sections 1.1 through 1.5) in "Medicinal Chemistry | WebAssign |
WebAssign | Webassign, 20 questions from the reading, due 11 pm, January 23 |
| Sunday, January 25 | Study Guide: Organic Nomenclature |
WebAssign |
WebAssign | Webassign problems, 19 organic structure problems, due 10 pm, January 25 |
| Thursday, January 29 | Lab #1: Potential Energy Scan of a Simple Compound |
WebAssign |
Upload one page file to WebAssign | One page lab abstract with copy of your PES chart, due 10 pm, January 27. There is a short tutorial available on GoCourse |