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Introduction to Microarray Informatics Workshop
Introduction to Microarray Informatics :
A
1-Day Workshop on March
1, 2004
| The
University of Miami DNA Microarray Facility is
pleased to sponsor a FREE 1-day workshop entitled
"Introduction to Microarray Informatics".
The workshop will be held on March 1, 2004 from
10 a.m. to 4 p.m., at the University
of Miami School of Medicine Campus in the
Computer Classroom at the Calder
Medical Library. Seating is limited by the
hardware in the computer classroom. There are
32 seats available, two per computer. Register
by sending e-mail to Dr.
Lubov Nathanson no later than Monday,
February 23. |
About
the Workshop | Who Should Attend?
| What Does It Cost? | Workshop
Outline | Location |
How to Register
ABOUT
THE WORKSHOP:
This
is a hands-on workshop during which participants will
be introduced to various topics including: image analysis,
data filtering, normalization, and clustering. In
order to most effectively illustrate the various principles
covered, participants will be using GenePix
Pro and Acuity
software, tools currently used by the Microarray Facility
and software for which the University of Miami has
a multi-user license for campus use. Dr. Damian Verdnik
from Axon
Instruments will be leading the sessions. For
more information, please contact Dr.
Lubov Nathanson.
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WHO
SHOULD ATTEND ?:
This
course is appropriate for students, postdocs, faculty
and research staff at the University of Miami who
are using or who are planning to use DNA microarrays.
Please review the workshop outline
below in order to decide if this workshop will be
helpful to you.
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WHAT
DOES IT COST?:
There
is no charge for participating in this workshop.
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WORKSHOP
OUTLINE:
Dr.
Damian Verdnik
from Axon
Instruments, Inc. will
be presenting the following information:
|
10am
- Noon, Morning Session
Scanning and Image Analysis
The
morning session covers image analysis, data
filtering, and normalization. To illustrate
principals covered in the lecture, GenePix Scanners
and the latest GenePix Pro software will be
used for hands-on instruction. Topics will include:
-
Proper use and calibration of the scanner.
-
Using Preview and Data scans, and signal averaging.
- Balancing
PMTs, maximizing dynamic range and signal
to noise.
- Image
analysis.
- Creating
an annotated gene list (GAL file).
-
Automated Block and Feature alignment.
- Methods
to Flag features.
- Background
subtraction.
- Normalization
methods.
-
Using and customizing GenePix Pro scripts.
|
Noon-1pm
Break for lunch on your own
|
1pm-4pm,
Afternoon Session
Downstream Analysis of Microarray Datasets
The
afternoon session will focus on downstream analysis
of microarray datasets generated from image
analysis. In order to illustrate the various
principles covered, we will use Acuity software.
Topics covered will include:
-
Relationship between Acuity and the SQL database.
-
Importing microarray data.
- Viewing
and exploring your data.
- Normalization
in Acuity.
- Filtering
and querying your data to create a dataset.
- Analysis
algorithms:
a. Hierarchical clustering.
b. K-Means, K-Medians, Self Organizing Maps
(SOMs).
c. Gene Shaving.
d. Principal Components Analysis (PCA).
- Tracking
experimental variables.
- Tracking
important gene or EST annotation information.
- Creating
advanced datasets.
- Using
and customizing Acuity scripts.
|
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LOCATION
:
The
workshop will be held on the
University of Miami School of Medicine campus
in the 3rd floor Computer Classroom of the Calder
Medical Library. Signs will be posted throughout
the building to help you find your way to the room.
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HOW
TO REGISTER:
Interested
graduate
students, postdocs, faculty and research staff should
register by sending email to Dr.
Lubov Nathanson
no
later than Monday, February 23. Seating
is limited.
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|
