Spring 1999

IMA "HOT TOPICS" Workshop:

Challenges and Opportunities in Genomics:
Production, Storage, Mining and Use

with partial support from 3M

April 24-27, 1999

Organizers:

Sangtae Kim
Parke-Davis Pharmaceutical Research
kim01@aa.WL.com

Vipin Kumar
Department of Computer Science
University of Minnesota
http://www.cs.umn.edu/~kumar
kumar@cs.umn.edu

David Misemer
3M
dkmisemer@mmm.com

Dennis Polla
Electrical & Computer Engineering
University of Minnesota
polla@ee.umn.edu

and

Isidore Rigoutsos
Computational Biology Center
IBM Thomas J. Watson Research Center
http://www.research.ibm.com/people/r/rigoutso/home.html
rigoutso@us.ibm.com

Schedule

Participants

Registration

Spurred by progress in the Human Genome Project, and driven by the need for cheap, fast and accurate gene sequencing, there has been an explosion of interest in the development and usage of the laboratory-on-a-chip for such purposes as gene testing, high throughput drug screening, and infectious disease diagnostics. This workshop will focus on scientific and mathematical issues arising in production, storage, and mining of genomic data, and use of the knowledge in application. It will be an opportunity for the scientific community to see a snapshot of the state of the arts in this field. Invited participants will be mathematicians, chemists, medical researchers and engineers; in particular, members of the bioinformatics community. Among the topics considered will be

WORKSHOP SCHEDULE

All talks are in Lecture Hall EE/CS 3-180 unless otherwise noted.

SATURDAY, APRIL 24
7:00-9:00 pm	Reception and Registration	Radisson Hotel, Metrodome
SUNDAY, APRIL 25
8:30-9:00 am	Registration and Coffee	Reception Room EE/CS 3-176
9:00 am	IMA Directors	Welcome
9:15 am	Ronald C. McGlennen University of Minnesota	Genomics: Discovery to Delivery
10:15-10:30 am	Coffee Break	Reception Room EE/CS 3-176
10:30 am	James W. Jacobson Luminex	Multi-Analyte Profiling with Suspension ArraysTM
11:15 am-12:00 pm	Gregory Stephanopoulos Massachusetts Institute of Technology	Mining of DNA Microarray Data
1:30 pm	Roland Somogyi Incyte Pharmaceuticals, Inc.	Inference of Functional Programs from Gene Expression Data
2:15 pm	Ross Overbeek Argonne National Laboratories	Exploitation of Chromosomal Locations to Establish Functions of Genes
3:00-3:15 pm	Coffee Break	Reception Room EE/CS 3-176
3:15-4:00 pm	Nikos Kyrpides University of Illinois Urbana-Champaign	Methanococcus Jannaschii Genome: Annotations, Evolution and Evolution of Annotations
MONDAY, APRIL 26
9:00-9:15 am	Coffee	Reception Room EE/CS 3-176
9:15 am	Roger Brent Molecular Science Institute	Intellectual Fallout from Biology's Success: Can Mathematics Help Us Out?
10:15 am	Coffee Break	Reception Room EE/CS 3-176
10:30 am	Anne R. Kopf-Sill Caliper Technologies Corporation	Lab-on-a-Chip Technology Including Tools for Genomics Applications
11:15 am	Isidore Rigoutsos IBM	Pattern Discovery and Its (Numerous) Applications in Computational Biology
1:30 pm	Gary Benson Mount Sinai School of Medicine	Algorithms for Detection and Analysis of Tandem Repeats in DNA Sequences
2:15 pm	John V. Carlis University of Minnesota	Adapting and Applying Simplical Complex Q-Analysis to Studying Sequence Similarity Databases
3:00-3:15 pm	Coffee Break	Reception Room EE/CS 3-176
3:15-4:00 pm	John R. Yates University of Washington	Mining Proteomes Using Mass Spectrometry: New Approaches to Help Define Function
4:00-4:45 am	William Swope Almaden/IBM	An Annotation Capture/Query System For Genomic Data
4:45-6:00 pm	Panel Members: Sangtae Kim (Parke-Davis Pharmaceutical Research) Ron McGlennan (University of Minnesota David Misemer (3M Isidore Rigoutsos (IBM TJ Watson Research Center)	Panel Discussion The panel will attempt to assess the state of the art in this field and define future promising research directions. There will be special attention on interesting mathematical issues that need resolution.
6:30-8:00 pm	Pizza Party	IMA East, 400 Lind Hall
TUESDAY, APRIL 27
9:00-9:15 am	Coffee	Reception Room EE/CS 3-176
9:15 am	Larry Carson 3M Corporate Research	An Assessment of Micro-Array Technologies for High Throughput Genetic Analysis
10:00 am	Coffee Break	Reception Room EE/CS 3-176
10:30 am	Vipin Kumar University of Minnesota	Data Mining for Genomics
11:15--12:30 pm	Panel Members: Sangtae Kim (Parke-Davis Pharmaceutical Research) Ron McGlennan (University of Minnesota David Misemer (3M Isidore Rigoutsos (IBM TJ Watson Research Center)	Panel Discussion The panel will further discuss the issues raised in the first panel on Tuesday.

Saturday

Sunday

Monday

Tuesday

LIST OF CONFIRMED PARTICIPANTS

Back to Workshop Schedule

"Hot Topics" Workshops

1998-1999 Mathematics in Biology

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