Newsletter Archives
1) INTENSIVE
SHORT COURSE/COMPUTATIONAL MOLEC. BIOL. (NOTE DATE CHANGE)
THE COURSE DATES HAVE BEEN CHANGED from July 26-30 TO AUGUST 2-8 1999
Intensive Short Course, Computational Molecular Biology
[E72-BME537A.51]
August 2-6, 1999
Eric P. Newman Educational Center
http://www.ibc.wustl.edu/CMB/shortcourse99.html
REGISTRATION/COST
The following information
is to inform you of the upcoming summer course 'Computational Molecular Biology'
which will be held August 2-6, 1999 (formerly July 26-30). For those of you
who have not yet registered and would like to receive the proper forms or
a copy of the Summer 1999 Course Listing, please contact the Engineering Summer
School at 314-935-5484 (fax: 314-935-5449; email: conted@seas.wustl.edu) to
request a registration and authorization to register form.
Seating is limited and we encourage you to call as soon as possible. Students
may register in person at Lopata Hall, Room 303. The office is open Monday
- Thursday 8:30 - 7:00 PM and Friday 8:30 - 5:00 PM. The cost is: $1,570.00.
Registration began April 1st and ends the first day of class, August 2. If
you need further information you can contact the Engineering Summer School
Office by telephone at 314-935-5484; fax 314-935-5449 or email: conted@seas.wustl.edu.
WEB SITE
The following text can be found at:
http://www.ibc.wustl.edu/CMB/shortcourse99.html
The faculty of the computational molecular biology program at Washington University
in St. Louis offers this introduction to computational molecular biology as
a 5 day intensive short course. The course combines an introduction to the
theory and practice of molecular sequence analysis with an intensive session
on programming in PERL. The course is offered at a graduate level and is intended
to be accessible to professional scientists in molecular biology and biotechnology.
Our aim is to provide an understanding of how and why different analytic approaches
are used including their limitations as well as capabilities. We emphasize
the use of public domain software tools rather than focusing on a specific
commercial package. The PERL programming sessions are offered in two sections,
one targeted to professional software developers and the other to scientists
with a limited background in computer programming. The format is a 5-day course
with 6 hours of class time each day (3 hrs. in the morning and 3 hrs in the
afternoon) for a total of 30 contact hours. The course (BME-72-537A) is offered
through the Washington University Summer School and carries two units of graduate
credit at Washington University. It is an intensive and challenging course
that covers most of the material offered in our regular graduate course on
computational biology in a format that is accessible to working scientists
as well as faculty and staff with interests in learning new technology.
A CD-ROM containing course
lecture notes, problem sets, programming exercises, public domain software
and reference material will be distributed. All students are encouraged to
bring a laptop computer (Windows/Intel) for use in the programming sessions.
LOCATION
Lectures and section meetings will be held in the Eric P. Newman Educational
Center (EPNEC), 320 S. Euclid Avenue (at Children's Place) and in the 2nd
floor classroom of the Institute for Biomedical Computing (IBC), Rm 2204,
700 S. Euclid Ave. (at McKinley), St. Louis, MO.
LODGING
For those of you coming from out of town, listed below are a few hotels and
one B&B that are either in walking distance; that provide shuttle services;
or has adequate, quick access to public transportation.
Best Western Inn at the Park, 4630 Lindell (off Euclid Ave.), St. Louis, MO 63108, 314-367-7500; 4-6 blocks walking distance; shuttles are on request between 8 AM & 5 PM; $71 one adult; $81 two adults per night.
Cheshire Inn, 6300 Clayton Road (off Skinker Blvd.), St. Louis, MO 63117, 314-647-7300; shuttle service 7-11 PM, approx. 10-15 minute ride to/from EPNEC or IBC; $65-75 one adult/night; $89-$99 two adults/night.
Drury Inn & Suite Union Station, 201 So. 20th Street (at Market St.), St. Louis, MO 63103, 314-231-3900; access to the MetroLink Rail System-- a 7-10 minute ride which stops at the Central West End-- one block from EPNEC or IBC; $105.99 double; $111.99 king. Free parking, continental breakfast. If your company is sending 10 or more you can call 1-800-444-4421 for possible group rates.
Holiday Inn Clayton, 7730 Bonhomme Ave (at Bemiston), Clayton, MO 63105, 314-863-0400 (shuttle available, 15-20 minutes from EPNEC or IBC) Rate: $99.00 one/two adults per night.
West Pine Bed and Breakfast, Amy or Edwin Massey, 4200 West Pine (off Boyle St), St. Louis, MO 63108, 314-531-3107 [can drop visitors off, but it's only a 10-15 minute walk to the EPNEC or IBC]; $55.00 one adult; $65 two adults/night; Extended lodging: $30.00 day [two week minimum stay] but does not include breakfast.
SYLLABUS
Monday AM, David States, Introduction to probability & statistics, model
based data analysis, motifs, patterns, HMMs, gene modeling and gene finding
-----PM, David States, Energetics, protein models, threading Tuesday, AM,
Michael Zuker, Dynamic programming, optimal and suboptimal alignment
-----PM, Michael Zuker, RNA, RNA gene finding, single sequence folding, multiple
alignment, covariance
Wednesday, AM, Warren
Gish, Log odds scores, information measures, scoring entropy, Karlin Altschul
statistics
-----PM, Warren Gish, BLAST and database searching, Poisson statistics, Sum
statistics, gapped BLAST
Thursday, AM, Michael Zuker, Multiple sequence alignment, generalized DP,
trees, clustal
-----PM, Volker Nowotny, Phylogeny and molecular evolution
Friday AM, Volker Nowotny, Physical mapping
-----PM, Volker Nowotny, Genome dynamics, repeats
INTENDED AUDIENCE
The course is targeted to students at the level of a first or second year
doctoral candidate. We assume a familiarity with molecular biology andmathematics
to the level of college calculus, but do not require programming skills or
higher-level computer science. The course should be accessible to scientific
staff active in molecular biosciences.
For any other questions regarding the class or to receive a catalog of the
Summer 1999 Course Listing, please contact the Engineering Summer School Office
at (314-935-5484; fax: 314-935-5449; email: conted@seas.wustl.edu).
Participation is invited from the international scientific community active in the development of concepts and applications in the general focus of the conference. Contributions are solicited in the form of full papers (8-12 pages) or extended abstracts (3-7 pages). Accepted contributions will be included in the conference proceedings, and will be given an oral presentation at the conference. In some cases, the presentation may include a live software demonstration.
For a selection of the extended abstracts (but not the full papers) presented at the conference, the scientific committee will invite authors to provide a full paper version for publication in a special issue of BIOINFORMATICS (formerly: CABIOS). These manuscripts will be subject to the regular BIOINFORMATICS review procedure (3 referees).
Full Papers as well as
extended abstracts should be single-spaced and set in 12 point type, including
title, abstract, figures, tables, and bibliography. Postal and electronic
mailing addresses, telephone, and fax numbers must be included. Electronic
submission is strongly encouraged; please send postscript files via e-mail
to gcb99@TechFak.Uni-Bielefeld.DE.
Key dates for full paper and extended abstract submission:
Submission deadline: June 30
Author notification: August 10
Final version due: September 10
Call for Posters
A poster exhibition will be arranged with the GCB99 conference. This exhibition
will be accessible not only to the conference participants, but also to all
visitors of the BIOTECHNICA fair. Submissions for the poster exhibition should
have 1-3 pages; alternatively, if legible, a complete poster reduced to A4
or US letter format may be submitted. Postal and electronic mailing addresses,
telephone, and fax numbers must be included. Electronic submission is strongly
encouraged; please send postscript files via e-mail to gcb99@TechFak.Uni-Bielefeld.DE.
Alternatively, two paper copies of the submission should be sent to:
GCB '99 Program Chair
Robert Giegerich
Technische Fakult”t
Universit”t Bielefeld
Postfach 100131
33501 Bielefeld
Germany
Key dates for poster submission:
Submission deadline: August 15
Author notification: September 1
Final version must be brought to the conference.