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GCAT Best Practices Workshop #2
July 28 - August 1
Atlanta, GA @ Morehouse College


Clickable Schedule Overview

Instructors:

Todd Eckdahl, Anne Rosenwald, Mary Lee Ledbetter, Laurie Heyer,
Laura Hoopes, Malcolm Campbell, Edison Fowlks

Day 1 (July 28) Thursday

Time
Activity
Lead Instructors
Prior to Lunch Last Minute Laptop Preparation Laurie Heyer and Malcolm Campbell
12:00 - 1:00 Lunch Eat at Morehouse Cafeteria
1:15 - 1:45 Greetings and Overview J. K. Haynes and Edison Fowlks
1:45 - 2:15

Introduction to Microarrays, MAGIC Tool web, Raw Data

Launch

Malcolm Campbell

Laurie Heyer

2:15 - 2:30 Short Break Dr. Pleez B. Prompt
2:30 - 3:15 Making a Project Laurie Heyer
3:15 - 3:35 Practice Making Projects Laurie Heyer
3:35 - 4:15 Slide Layout and Gene List Laurie Heyer
4:15 - 4:45 Practice Layout and Gene List Laurie Heyer
4:45 - 5:15 Gridding Laurie Heyer
5:15 - 6:00 Practice Gridding Laurie Heyer

Goals for Day 1: Learn MAGIC Tool

Prepare Tiff Files for Quantification

6:00 - 7:00 Dinner Eat at Morehouse Cafeteria
7:00 - 8:00 NSF Presentations in Lecture Room II in Nabrit/Mapp/McBay Hall Sally O'Connor and Diane Okamuro

Schedule Overview

Day 2 (July 29) Friday

Time
Activity
Lead Instructors
7:30 - 8:30 Breakfast Eat at Morehouse Cafeteria
8:30 - 9:30 Refresher and Segmentation Laurie Heyer
9:30 - 10:00 Practice Segmentation Laurie Heyer
10:00 - 10:30 Generate Multiple Ratio Expression Files Laurie Heyer
10:30 - 10:45

Short Break

Dr. B. Ohn Thyme
10:45 - 11:15 Log Transforming Data Laurie Heyer
11:15 - 11:30 Practice Log Transforming Data Laurie Heyer
11:30 - 12:00

Gene Information

Laurie Heyer

12:00 - 12:15 Practice Gene Information Laurie Heyer
12:15 - 1:15 Lunch Break Eat at Morehouse Cafeteria
1:15 - 2:30 Explore Data Laurie Heyer
2:30 - 2:45 Short Break Dr. Don T Linger
2:45 - 3:15 Practice Exploring Laurie Heyer
3:15 - 4:15 Clustering (you practice later: online + PDF) Laurie Heyer
4:15 - 6:00 Flexible Catch Up Time GCAT Instructors
 

Goal for Day 1: Manipulate and Explore Data

Start Wet Lab Process

 
6:00 - 7:00 Dinner Eat at Morehouse Cafeteria
7:00 - late Trouble Shooting and Practice Session Available GCAT Instructors

Schedule Overview

GCAT Wet Lab Protocols

Day 3 (July 30) Saturday

Time

Activity

Lead Instructors

7:30 - 8:00 Breakfast Hope Hall, Second Floor

8:00 - 8:30

Overview of Wet Lab

Todd Eckdahl, Anne Rosenwald, Mary Lee Ledbetter, Laura Hoopes

8:30 - 9:15

Set up Reverse Transcription and Cy-Dye Incorporation

Todd Eckdahl

9:15 - 10:30

Discussion DeRisi Experiment, RNA Isolation, Quality Control

Laura Hoopes

10:30 - 10:45

Short Break

Dr. Don T Linger

10:45 - 11:15

Discussion of Labeling Alternatives

Mary Lee Ledbetter

11:15 - 11:45

RNA Degradation

Todd Eckdahl

11:45 - 12:15

Purification of cDNA

Todd Eckdahl

12:15 - 12:45

Lunch Break

Eat at Morehouse Cafeteria

12:45 - 1:30

Discussion of Quantifying mRNA Levels with RT PCR

Todd Eckdahl, Laura Hoopes

1:30 - 2:00

Measurement of Labeling Efficiency

Todd Eckdahl

2:00 - 2:30

Prehybridization Procedures

Todd Eckdahl

2:30 - 3:00

Labeled Sample Preparation and Hybridization

Laura Hoopes

3:00 - 3:15

Short Break

3:15 - 4:15

Discussion of Using Microarrays in Courses

Mary Lee Ledbetter

4:15 - 5:15

Discussion of Using Microarrays in Research

Anne Rosenwald

Goal for Day 4: Set Up Microarray Hybridizations

6:00 - 7:00

Dinner

Eat at Morehouse Cafeteria

7:00 - late

Trouble Shooting and Practice Session Available

Eckdahl, Hoopes, Ledbetter, Rosenwald, et al.

GCAT Wet Lab Protocols

Schedule Overview

Day 4 (July 31) Sunday

Time
Activity
Lead Instructors
7:30 - 8:00 Breakfast Hope Hall, Second Floor
8:00 - 9:00 Posthybridization Washing Todd Eckdahl
9:00 - 10:30 Microarray Slide Scanning Todd Eckdahl
10:30 - 10:45

Short Break

 

10:45 - 12:15 Discussion of Results Instructors and Participants
12:15 - 1:15 Lunch Break Eat at Morehouse Cafeteria
1:15 - 135 Refresh Memory Laurie Heyer
1:35 - 3:00 Generate Ratios from Your Microarray Laurie Heyer
3:00 - 3:15 Short Break Dr. Kum Bak Soon
3:15 - 6:00 1 Column Exploration Laurie Heyer

Goal for Day 4: Wash, Scan and Trouble Shoot Chips

Know what to do after wet lab!

6:00 - 7:00 Dinner Eat at Morehouse Cafeteria
7:00 - late Trouble Shooting and Practice Session Available GCAT Instructors

After Dinner Discussions and Assessment

Time
Activity
Lead Instructors
7:00 - 7:30 Summarize Workshop GCAT Instructors
7:30 - 8:30 Discuss Curriculum Ideas GCAT Instructors
8:30 - 10:00 Your Quesitons GCAT Instructors
Goal for Day 4: Know how you can adapt and adopt GCAT resources.

Schedule Overview

Day 5 (August 1) Monday

Time
Activity
Lead Instructors
7:30 - 8:00 Breakfast Eat at Morehouse Cafeteria
8:00 - 10:15 Make a Series from Separate 1 Columns Laurie Heyer
10:15 - 10:30 Short Break Dr. Juan Las Time
10:30 - 12:00

DeRisi Data Analaysis

Laurie Heyer

12:00 - 12:30 Workshop Assessment You!
12:30 - 1:00 Lunch Break Eat at Morehouse Cafeteria
Goal for Day 5: Increase your confidence with microarrays!

Schedule Overview



Email Edison Fowlks or Malcolm Campbell with Questions

See photos from 2003 workshop

See photos from 2004 workshops


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Send comments, questions, and suggestions to: macampbell@davidson.edu