Difference between revisions of "2010 AMS-536 Spring"
From Rizzo_Lab
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| − | | 2010.01.25 || | + | | 2010.01.25 || '''First Day of Class''' <br> Group Study || Organizational Meeting / Mathlab accounts |
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| 2010.01.27 || Group Study || Visualization software #1, Misc unix skills <br> VMD, MOE, Chimera, vi, general unix cmds, shell scripting | | 2010.01.27 || Group Study || Visualization software #1, Misc unix skills <br> VMD, MOE, Chimera, vi, general unix cmds, shell scripting | ||
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| 2010.05.03 || Guan, Xinyu ; Maier, James || Virtual Screening for Novel Inhibitors of E1 Protein in HPV ; Improvement of the ff99SB Side Chain Dihedral Parameters | | 2010.05.03 || Guan, Xinyu ; Maier, James || Virtual Screening for Novel Inhibitors of E1 Protein in HPV ; Improvement of the ff99SB Side Chain Dihedral Parameters | ||
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| − | | 2010.05.05 || | + | | 2010.05.05 || '''Last Day of Class''' <br> Group Study || Project Discussion |
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| 2010.05.?? || '''Final written report due by 10AM, May ??, 2010. Late papers will not be accepted. See above for sample reports and detailed guidelines.''' || '''Give hard copy to Sudipto Mukherjee (Math Tower room 3-129) and email electronic copy to rizzorc@gmail.com''' | | 2010.05.?? || '''Final written report due by 10AM, May ??, 2010. Late papers will not be accepted. See above for sample reports and detailed guidelines.''' || '''Give hard copy to Sudipto Mukherjee (Math Tower room 3-129) and email electronic copy to rizzorc@gmail.com''' | ||
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Revision as of 12:37, 25 January 2010
| Instructor | Dr. Robert C. Rizzo [631-632-8519, rizzorc@gmail.com] |
|---|---|
| Course No. | AMS-536 / CHE-536 |
| Location/Time | Math Tower, Room S235 (COMPUTER LAB next to SINC site), Mon/Wed 3:50PM - 5:10PM |
| Office Hours | Anytime or by appointment, Room 1-101, Dept. of Applied Math & Statistics |
| Teaching Assistant | Sudipto Mukherjee, Room 3-129, 2-8519, Dept. of Applied Math & Statistics |
Project Information
Project Approval Sheet
Oral Presentation Guidlines: These meetings should be formal and your chance to tell a complete story. Talks should be presented in PPT format and be 30 minutes long. The purpose of your talks is for you to clearly and concisely present your overall progress to date including appropriate background material and interpretation of your results. Talks should be arranged in the following order:
- Introduction/Background (include biological relevance)
- Specifics of Your System
- Computational Details (theory)
- Computational Details (system setup)
- Results and Discussion (include a critical interpretation of your results)
- Conclusions
- Future
- Acknowledgments
Final Report Guidelines and Example Final Papers
Tutorials, Software Links, and Other Relevant Class Information
Schedule
Note: Each participant please update the Wiki as required with the title of your talk.
| Date | Participant | Talk |
| 2010.01.25 | First Day of Class Group Study |
Organizational Meeting / Mathlab accounts |
| 2010.01.27 | Group Study | Visualization software #1, Misc unix skills VMD, MOE, Chimera, vi, general unix cmds, shell scripting |
| 2010.02.01 | Group Study | Visualization software #2, Misc unix skills VMD, MOE, Chimera, vi, general unix cmds, shell scripting |
| 2010.02.03 | Group Study | Visualization software #3, Misc unix skills VMD, MOE, Chimera, vi, general unix cmds, shell scripting |
| 2010.02.08 | Group Study | Tutorials: Group 1=DOCK, Group 2=AMBER |
| 2010.02.10 | Group Study | Tutorials: Group 1=DOCK, Group 2=AMBER |
| 2010.02.15 | Group Study | Tutorials: Group 1=DOCK, Group 2=AMBER |
| 2010.02.17 | Group Study | Tutorials: Group 1=DOCK, Group 2=AMBER |
| 2010.02.22 | Group Study | Tutorials: Group 1=AMBER, Group 2=DOCK (seawulf accounts / project discussion) |
| 2010.02.24 | Group Study | Tutorials: Group 1=AMBER, Group 2=DOCK (seawulf accounts / project discussion) |
| 2010.03.01 | Group Study | Tutorials: Group 1=AMBER, Group 2=DOCK (seawulf accounts / project discussion) |
| 2010.03.03 | Group Study | Tutorials: Group 1=AMBER, Group 2=DOCK (seawulf accounts / project discussion) |
| 2010.03.08 | Group Study | Project Setups / Troubleshooting |
| 2010.03.10 | Group Study | Project Setups / Troubleshooting |
| 2010.03.15 | Last, First; Group Study | Talk Title; Project Setups / Troubleshooting |
| 2010.03.17 | Last, First; Group Study | Talk Title; Project Setups / Troubleshooting |
| 2010.03.22 | Last, First; Last, First | Talk Title ; Talk Title |
| 2010.03.24 | Last, First; Last, First | Talk Title ; Talk Title |
| 2010.03.29 | SPRING BREAK | NO CLASS |
| 2010.03.31 | SPRING BREAK | NO CLASS |
| 2010.04.05 | Last, First; Last, First | Talk Title ; Talk Title |
| 2010.04.07 | Last, First; Last, First | Talk Title ; Talk Title |
| 2010.04.12 | Preliminary Report Due Last, First; Last, First; |
Talk Title ; Talk Title |
| 2010.04.14 | Ray, Navamita | Crossdocking studies of Estrogen Receptors |
| 2010.04.19 | Ali, Wahida ; Wang, Hui | Strand Slippage in DNA pol lambda ; MD simulation of hp35 |
| 2010.04.21 | LeBarron, Jamie; Dong, Xu | MD Simulations of Membrane-bound Rhodopsin ; Virtual Screening Targeting Acetylcholinesterease |
| 2010.04.26 | Guan, Xinyu ; Maier, James | Virtual Screening for Novel Inhibitors of E1 Protein in HPV ; Improvement of the ff99SB Side Chain Dihedral Parameters |
| 2010.04.28 | Guan, Xinyu ; Maier, James | Virtual Screening for Novel Inhibitors of E1 Protein in HPV ; Improvement of the ff99SB Side Chain Dihedral Parameters |
| 2010.05.03 | Guan, Xinyu ; Maier, James | Virtual Screening for Novel Inhibitors of E1 Protein in HPV ; Improvement of the ff99SB Side Chain Dihedral Parameters |
| 2010.05.05 | Last Day of Class Group Study |
Project Discussion |
| 2010.05.?? | Final written report due by 10AM, May ??, 2010. Late papers will not be accepted. See above for sample reports and detailed guidelines. | Give hard copy to Sudipto Mukherjee (Math Tower room 3-129) and email electronic copy to rizzorc@gmail.com |
