2007 GCAT Microarray Workshops
Two Sessions; 20 people per session
Week of July 8 - 14: Morehouse College
Workshop #1
Instructors:
Consuelo Alvarez, Malcolm Campbell, Todd Eckdahl,
Edison Fowlks, Laurie Heyer, Dave Kushner, and Anne Rosenwald
Time |
Activity |
Lead Instructors |
| 7:30 - 8:30 | Breakfast | Eat at Cafeteria |
| 8:00 - 8:30 | Last Minute Laptop Preparation | Laurie Heyer and Malcolm Campbell |
| 8:30 - 9:00 | Greetings and Overview | Edison Fowlks |
| 9:00 - 10:15 | Introduction to Microarrays, MAGIC Tool web, Raw Data, Online Tutorials Launch |
Malcolm Campbell Laurie Heyer |
| 10:15 - 10:30 | Short Break | Dr. Pleez B. Prompt |
| 10:30 - 11:15 | Making a Project | Laurie Heyer |
| 11:15 - 11:35 | Practice Making Projects | Laurie Heyer |
| 11:35 - 12:15 | Slide Layout and Gene List | Laurie Heyer |
| 12:15 - 1:15 | Lunch Break | Eat at Cafeteria |
| 1:15 - 1:45 | Practice Layout and Gene List | Laurie Heyer |
| 1:45 - 2:30 | Addressing and Gridding | Laurie Heyer |
| 2:30 - 2:45 | Short Break | Dr. B. Ohn Thyme |
| 2:45 - 3:15 | Practice Gridding | Laurie Heyer |
| 3:15 - 4:00 | Segmentation | Laurie Heyer |
| 4:00 - 4:30 | Practice Segmentation | Laurie Heyer |
| 4:30 - 5:00 | Generate Multiple Ratio Expression Files | Laurie Heyer |
| 5:00 -6:00 | Practice Multiple Ratio Expression Files Quit MAGIC Tool |
Laurie Heyer |
Goal for Day 1: Create 6 Columns of Data |
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| 6:00 - 7:00 | Dinner | Eat at Cafeteria |
| 7:30 - late | Relax and social time | GCAT Instructors |
Day 2 (July 10)
Time |
Activity |
Lead Instructors |
| 7:30 - 8:00 | Breakfast | Eat at Cafeteria |
| 8:00 - 8:30 | Log Transforming Data | Laurie Heyer |
| 8:30 - 8:45 | Practice Log Transforming Data | Laurie Heyer |
| 8:45 - 9:15 | Gene Information |
Laurie Heyer |
| 9:15 - 9:30 | Practice Gene Information | Laurie Heyer |
| 9:30 - 10:30 | Explore Data | Laurie Heyer |
| 10:30 - 10:45 | Short Break | Dr. Don T Linger |
| 10:45 - 11:15 | Practice Exploring | Laurie Heyer |
| 11:15 - 12:00 | Clustering Overview (you practice later: online + PDF) | Laurie Heyer |
| 12:00 - 12:45 | Lunch Break | Eat at Cafeteria |
| 12:45 - 1:15 | Wet Lab Overview | Todd Eckdahl and Anne Rosenwald |
| 1:15 - 2:00 | Set up Reverse Transcription and Cy-Dye Incorporation | Todd Eckdahl and Anne Rosenwald |
| 2:00 - 3:15 | Discussion DeRisi Experiment; RNA Isolation, Quality Control |
Todd Eckdahl and Anne Rosenwald |
| 3:15 - 3:45 | Discussion of Labeling Alternatives | Todd Eckdahl and Anne Rosenwald |
| 3:45 - 4:00 | Short Break | |
| 4:00 - 4:30 | RNA Degradation | Todd Eckdahl and Anne Rosenwald |
| 4:30 - 5:00 | Purification of cDNA | Todd Eckdahl and Anne Rosenwald |
| 5:00 - 5:30 | Prehybridization Procedures, & Measurement of Labeling Efficiency |
Todd Eckdahl and Anne Rosenwald |
| 5:30 - 6:00 | Labeled Sample Preparation and Hybridization |
Todd Eckdahl and Anne Rosenwald |
Goal for Day 2: Manipulate and Explore Data Generate cDNA Probes & Hybe Them on Chips |
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| 6:00 - 7:00 | Dinner | Eat at Cafeteria |
| 7:30 - 8:30 | Genomics Lecture |
Cancelled for Medical Reasons |
Day 3 (July 11)
Time |
Activity |
Lead Instructors |
| 7:30 - 8:30 | Breakfast | Eat at Cafeteria |
| 8:00 - 8:45 | Discussion of Quantifying mRNA Levels with RT PCR |
Todd Eckdahl and Anne Rosenwald |
| 8:45 - 9:45 | Discussion of Using Microarrays in Courses Spot Synthesizer |
Todd Eckdahl and Anne Rosenwald |
| 9:45 - 10:00 | Short Break |
|
| 10:00 - 11:00 | Posthybridization Washing | Todd Eckdahl and Anne Rosenwald |
| 11:00 - 12:45 | Microarray Slide Scanning | Todd Eckdahl and Anne Rosenwald |
| 12:45 - 1:30 | Lunch Break | Eat at Cafeteria |
| 1:30 - 2:30 | Discussion of Results | Instructors and Participants |
| 2:30 - 3:30 | Discussion of Using Microarrays in Research | Anne Rosenwald et al. |
| 3:30 - 6:00 | Flexible Catch Up Time | GCAT Instructors |
Goal for Day 3: Wash & Scan Chips Discuss and Trouble Shoot Results |
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| 6:00 - 7:00 | Dinner | Eat at Cafeteria |
| 7:00 - 8:00 | NSF Speakers | Sally O'Connor and Diane Okamuro - NSF Program Officers |
Day 4 (July 12)
Time |
Activity |
Lead Instructors |
| 7:30 - 8:30 | Breakfast | Eat at Cafeteria |
| 8:00 - 8:30 | Refresh Memory | Laurie Heyer and Dave Kushner |
| 8:30 - 10:15 | Generate Ratios from Your Microarray | You |
| 10:15 - 10:30 | Short Break |
Dr. Hur E. Back |
| 10:30 - 12:15 | 1 Column Exploration | Laurie Heyer and Dave Kushner |
| 12:15 - 1:15 | Lunch Break | Eat at Cafeteria |
| 1:15 - 3:00 | Make a Series from Separate 1 Columns | Laurie Heyer and Dave Kushner |
| 3:00 - 3:15 | Short Break | Dr. Kum Bak Soon |
| 3:15 - 6:00 | DeRisi Data Analaysis | Laurie Heyer and Dave Kushner |
Goal for Day 4: Know what to
do after wet lab! |
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| 6:00 - 7:00 | Dinner | Eat at Cafeteria |
| 7:30 - 8:30 | Synthetic Biology Presentation Nabrit/Mapp/McBay Hall, Lecture Room II |
GCAT Faculty |
Time |
Activity |
Lead Instructors |
| 7:30 - 8:30 | Breakfast | Eat at Cafeteria |
| 8:00 - 8:30 | Summarize Past 4 Days | GCAT Instructors |
| 8:30 - 10:15 | Discuss Curriculum Ideas | GCAT Instructors |
| 10:15 - 10:30 | Short Break |
Dr. Juan Las Time |
| 10:30 - 12:15 | Your Quesitons and Workshop Assessment | GCAT Instructors |
| 12:15 - 1:15 | Lunch Break | Eat at Cafeteria |
Goal for Day 5: Know how you
can adapt and adopt GCAT resources. |
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Email Edison Fowlks or Malcolm
Campbell with Questions
See photos from 2003 workshops
See photos from 2004 workshops
See photos from 2005 workshops
This material is based upon work supported by the National Science Foundation under Grant No. DBI-0627478. Any opinions, findings, and conclusions or recommendations expressed in this material are those of the author(s) and do not necessarily reflect the views of the National Science Foundation.
© Copyright 2007 Department of Biology, Davidson College,
Davidson, NC 28035
Send comments, questions, and suggestions to: macampbell@davidson.edu
