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General Announcement and Registration Information for the
Second International Conference on
INTELLIGENT SYSTEMS FOR MOLECULAR BIOLOGY
(ISMB-94)
August 14-17, 1994
Stanford University
Stanford, California
Fairchild Auditorium
PURPOSE
The Second International Conference on Intelligent Systems for Molecular
Biology (ISMB) will take place at Stanford University, Palo Alto,
California on August 14-17, 1994. The ISMB conference is intended to bring
together scientists who are applying the technologies of advanced data
modeling, machine learning, artificial intelligence, robotics, parallel
computing, and other computational methods to problems in molecular
biology. The scope extends to any computational or robotic system
supporting a biological task that is cognitively challenging, involves a
synthesis of information from multiple sources at multiple levels, or in
some other way exhibits the abstraction and emergent properties of an
"intelligent system."
Last year's conference in Bethesda, MD attracted an overflow crowd, yielded
a diverse offering of papers, invited speakers, posters and tutorials,
provided an exciting opportunity for researchers to meet and exchange
ideas, and was an important forum for the developing field. We are
continuing the tradition of pre-published, rigorously refereed proceedings,
and opportunities for fruitful personal interchange.
The four-day conference will feature introductory and advanced
tutorials (on August 14), and presentations of original refereed papers
and invited talks (on August 15-17). A preliminary program including
original papers will be distributed in early May. Tutorials are
described below.
The conference will be held at:
Fairchild Auditorium
Stanford University Medical Center
Stanford, California
Stanford is in the San Francisco Bay area, approximately 25 minutes south
of San Francisco International Airport and approximately 25 minutes north
of San Jose International Airport.
Limited funds are available to support travel to ISMB-94 for students and
post-docs, as well as for women and minority scientists. Applications are
available by contacting ismb at camis.stanford.edu or using the mailing
address given below.
ORGANIZING COMMITTEE
Russ Altman, Stanford University
Doug Brutlag, Stanford University
Peter Karp SRI
Richard Lathrop MIT
David Searls U. of Pennsylvania
PROGRAM COMMITTEE
K. Asai ETL, Tsukuba
D. Benson NCBI, Bethesda
B. Buchanan U of Pittsburgh
C. Burks LANL, Los Alamos
S, Brunak DTN, Lyngby, Denmark
D. Clark ICRF, London
F. Cohen UCSF, San Francisco
T. Dietterich OSU, Corvallis
S. Forrest UNM, Albuquerque
J. Glasgow Queen's U., Kingston
P. Green Wash U, St. Louis
M. Gribskov SDSC, San Diego
D. Haussler UCSC, Santa Cruz
S. Henikoff FHRC, Seattle
L. Hunter NLM, Bethesda
T. Klein UCSF, San Francisco
A. Lapedes LANL, Los Alamos
M. Mavrovouniotis Northwestern U
G. Michaels George Mason U, Fairfax
G. Myers U. Arizona, Tucson
K. Nitta ICOT, Tokyo
C. Rawlings ICRF, London
J. Sallatin LIRM, Montpellier
C. Sander EMBL, Heidelberg
J. Shavlik U Wisconsin, Madison
D. States Wash U, St. Louis
G. Stormo U Colorado, Boulder
E. Uberbacher ORNL, Oak Ridge
M. Walker Stanford U, Stanford
T. Webster Stanford U, Stanford
X. Zhang PHZ Parnters, Cambridge
PROCEEDINGS:
Full-length papers from both talks and posters will be published in
archival proceedings. Copies will be distributed at the conference to
registered attendees, and extra copies will be available for purchase from
the publisher subsequently. The citation is:
Proceedings of the Second International Conference on Intelligent Systems
for Molecular Biology (eds. R. Altman, D. Brutlag, P. Karp, R. Lathrop and
D. Searls) AAAI Press, Menlo Park CA, 1994.
In addition to covering the cost of the proceedings, the registration fee
covers refreshments and general program expenses.
TUTORIALS:
All tutorials will be offered on Sunday, August 14. There will be parallel
sessions geared for introductory issues and advanced issues. Tutorials
costs are $50 for a single tutorial and $70 for two tutorials.
AM Tutorials (August 14, 1994, 9:00 AM - 12:00 PM)
Introductory AM Tutorials:
T1. INFORMATION SCIENCE FOR MOLECULAR BIOLOGISTS.
Dr. Douglas Brutlag (Stanford University)
will provide an introduction to and overview of
the methods of information science particularly
relevant to molecular biology. These include
multiple representations, machine learning, search
and constraint methods, sequence analysis techniques,
and pattern matching, with specific examples.
T2. MOLECULAR BIOLOGY FOR COMPUTER SCIENTISTS.
Dr. Gary Stormo (University of Colorado, Boulder)
will provide an introduction to and overview of
the basic concepts of modern molecular biology
particularly relevant to computational methods.
These include the fundamentals of DNA, RNA and
protein sequences, their structures and functions,
concepts of homology and phylogenetic relationships,
and basic cell biology and metabolism. In addition,
information will be provided about experimental methods,
databases, and the genome project.
Advanced AM Tutorials:
T3. MINIMAL LENGTH ENCODING IN MOLECULAR BIOLOGY.
Dr. Aleksandar Milosavljevic (Argonne National
Laboratory) will introduce the minimal length
encoding (MLE) method to computational biologists
who are designing sequence analysis algorithms, to
computer scientists who are in interested in learning
more about macromolecular sequence analysis, and to
biologists who are more advanced users of sequence
analysis programs. The emphasis will be on the use of
the MLE method as a tool for comparative analysis.
T4. MACHINE LEARNING APPROACHES IN COMPUTATIONAL MOLECULAR
BIOLOGY. Dr. Pierre Baldi (California Institute of
Technology) will provide an introduction to the basic
machine learning methods often used in sequence analysis:
including hidden markov models, neural networks,
the Bayesian framework and maximum likelihood estimation,
model fitting and model classes, learning and optimization
algorithms, and applications. (This tutorial is the first
of a two-part sequence with T9. The cost for T4
and T9 is $70.)
PM Tutorials (August 14, 1994, 1:30 PM to 4:30 PM)
Introductory PM Tutorials:
T5. COMPUTATIONAL CHALLENGES FOR INTELLIGENT SYSTEMS IN
MOLECULAR BIOLOGY. Drs. Russ Altman (Stanford University)
and Peter Karp (SRI) will provide a breadth first survey
of important application areas within ISMB, and discuss
outstanding accomplishments and challenges. Topics will
include biological databases, sequence analysis, protein
and nucleic acid structure prediction, signal to symbol
transformations, molecular evolution, metabolic pathways,
and machine learning. (T1 or T2 or equivalent recommended)
T6. NEURAL NETWORKS
Dr. David Bisant (Stanford University)
will teach the basics of neural network models.
The session will also highlight the application
of neural networks to sequence analysis and other
problems in molecular biology. The tutorial will start
with the most basic concepts and proceed from there.
Advanced PM Tutorials:
T7. CONSTRAINT SATISFACTION IN MOLECULAR BIOLOGY.
Drs. Christopher Rawlings and Dominic Clark
(Imperial Cancer Research Fund) will show how
a wide variety of biological problems, especially those
with very large hypothesis spaces, can be formulated
as constraint satisfaction problems. They will discuss
solution methods for constraint satisfaction
problems using ideas (such as search, optimization and
network consistency) from classical artificial
intelligence as well as more recent developments
from related disciplines.
T8. GENETIC ALGORITHMS AND GENETIC PROGRAMMING.
Dr. John Koza (Stanford University)
will introduce the genetic algorithm, an
increasingly popular approach to highly non-linear
multidimensional optimization problems, that was
originally inspired by a biological metaphor. This
tutorial will cover both the biological motivations, and
the actual implementation and characteristics of the
algorithm. Genetic programming (an extension for
problems in which the size and shape of the solution
is a major part of the problem) will also be addressed.
T9. HOW TO USE HIDDEN MARKOV MODELS, STOCHASTIC
CONTEXT-FREE GRAMMARS AND OTHER RELATED MODELS
Dr. David Haussler (U.C. Santa Cruz)
will provide a solid foundation in the use of hidden
Markov and related statistical models, including theory
and key algorithms, the time series model, stochastic
graph grammars, segment models, practical issues and
limitations, and detailed examples of biological
applications. (This tutorial is the second of a two-part
sequence with T4. The cost for T4 and T9 is $70.)
HOUSING AND MEAL PLANS
Accommodations are available for the conference at the Governor's Corner
student housing facility on Stanford's Campus (corner of Santa Teresa St.
and Campus Drive West). The housing facility and dining room are a 10 to 15
minute walk from the main conference venue, Fairchild Auditorium. A special
combined room and board rate has been negotiated with the conference
center. By conference center policy, it is not possible for attendees to
make reservations for a room alone, without meals. The food provided at
Governor's Corner receives excellent reviews and is considered to be a
"deluxe" service. Room and board reservations must be made by July 19,
1994.
Note: The conference will last the entire day of Wednesday, August 17, and
so checkout from conference facilities is scheduled for the morning of
Thursday, August 18.
There are two packages available for out of town participants:
1A. Arrival on Saturday, August 13, with checkout on morning of
Thursday, August 18. Breakfast, lunch and dinner provided for August 14
through August 17.
Single occupancy packaged price is $455
Double occupancy packaged price is $392
1B. Arrival on Sunday, August 14, with checkout on morning of
Thursday, August 18. Breakfast, lunch and dinner provided for August 15
through August 17.
Single occupancy packaged price is $352
Double occupancy packaged price is $302
There are two lunch packages for participants who are commuting to the
conference. These will take place in Governor's corner facility, during
2A. Lunches on Sunday, August 14 through
Wednesday, August 17, (Price: $75)
2B. Lunches on Monday, August 15 through
Wednesday, August 17. (Price: $57)
Return Registration Form (with payment) to
ISMB-94
c/o Russ Altman
Section on Medical Informatics
SUMC, MSOB X-215
Stanford, CA 94305-5479
USA
For questions: ismb at camis.stanford.edu
or Fax: (415) 725-7944
CUT HERE:
************************************************************* ISMB-94
REGISTRATION FORM:
Name:__________________________________________________
Affiliation: __________________________________________
Address:_______________________________________________
_______________________________________________
_______________________________________________
Phone: ___________________ Fax: ____________________
Email: _____________________________________________
Status: ________ Student _______ Non-student
________ Male _______ Female
_____ Check if you would like information about travel support.
>Registration (Early = before 7/15)......................$_______
Early Late
Non-student $100 $125
Student $75 $100
>Tutorials (select one or two tutorials).................$_______
One Two
Regular $50 $70
Student $25 $35
AM 8/14:
__ T1: Information Science for Molecular Biologists
__ T2: Molecular Biology for Computer Scientists
__ T3: Minimal Length Encoding in Molecular Biology
__ T4: Machine Learning in Molecular Biology
PM 8/14:
__ T5: Computational Challenges for ISMB
__ T6: Neural Networks
__ T7: Constraint Satisfaction in Molecular Biology
__ T8: Genetic Algorithms and Genetic Programming
__ T9: Hidden Markov Models, SCFGs, and Related Models
>Room/Board (see detailed descriptions)..................$_______
Single Occupancy Double Occupancy
___1A. $455 $392
___1B. $352 $302
___2A. Lunch only, 8/14-8/17 $75
___2B. Lunch only, 8/15-8/17 $57
>>Total (Check or money order $US made to ISMB-94)... ...$_______
Doug Brutlag (415) 723-6593
Department of Biochemistry (415) 328-7837 FAX
Beckman Center, B400 brutlag at cmgm.stanford.edu
Stanford University School of Medicine
Stanford, California 94305-5307
