From owner-bio-matrix@net.bio.net Sun Apr 03 23:00:00 1994 Path: biosci!agate!howland.reston.ans.net!wupost!ukma!seqanal.mi.uky.edu!mpm From: mpm@seqanal.mi.uky.edu (Mark Mattson) Newsgroups: bionet.molbio.bio-matrix Subject: BinHex locale? Date: 4 Apr 1994 14:13:06 GMT Organization: University of Kentucky, Dept. of Math Sciences Lines: 6 Message-ID: <2np79i$8aa@s.ms.uky.edu> NNTP-Posting-Host: seqanal.mi.uky.edu X-Newsreader: TIN [version 1.1 PL9] Can anyone point me to a public domain copy of BinHex 4.0? Thanks, Steven W. Barger, Ph.D. Sanders-Brown Center on Aging From owner-bio-matrix@net.bio.net Mon Apr 04 23:00:00 1994 Path: biosci!CHPC.UTEXAS.EDU!mwitten From: mwitten@CHPC.UTEXAS.EDU Newsgroups: bionet.molbio.bio-matrix Subject: COMPMED 94 FINAL SCHEDULE Date: 5 Apr 1994 12:39:10 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 50 Sender: daemon@net.bio.net Distribution: bionet Message-ID: <9404051939.AA08469@morpheus> NNTP-Posting-Host: net.bio.net FINAL PROGRAM ANNOUNCEMENT FIRST WORLD CONGRESS ON COMPUTATIONAL MEDICINE AND PUBLIC HEALTH 24-28 April 1994 Hyatt on the Lake, Austin, Texas The final program for the First World Congress On Computational Medicine and Public Health has now been set. Over 200 speakers will be presenting work in a variety of applications areas related to medicine and public health. Registration is still open for attendees. Registration details and/or a copy of the schedule at a glance, schedule-in-detail may be requested by sending an email request to compmed94@chpc.utexas.edu or by calling 512-471-2472 or by faxing 512-471-2445 There is no ftp form of the conference schedule due to the size of the file. We will be happy to fax/send a copy to anyone who requests it. The conference proceedings will appear as a series of volumes published by World Scientific. If you are interested in possibly submitting a paper for the proceedings, please contact mwitten@chpc.utexas.edu or call 512-471-2457 The overwhelming response to this congress has already justified having a second world congress in the future. The tentative schedule is to have in in 3 years. If you are interested in participating at the 2nd World Congress On Computational Medicine and Public Health, please contact Dr. Matthew Witten Congress Chair mwitten@chpc.utexas.edu From owner-bio-matrix@net.bio.net Mon Apr 04 23:00:00 1994 Path: biosci!CHPC.UTEXAS.EDU!mwitten From: mwitten@CHPC.UTEXAS.EDU Newsgroups: bionet.molbio.bio-matrix Subject: COMPMED 94 FINAL SCHEDULE Date: 5 Apr 1994 12:38:53 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 50 Sender: daemon@net.bio.net Distribution: bionet Message-ID: <9404051939.AA08440@morpheus> NNTP-Posting-Host: net.bio.net FINAL PROGRAM ANNOUNCEMENT FIRST WORLD CONGRESS ON COMPUTATIONAL MEDICINE AND PUBLIC HEALTH 24-28 April 1994 Hyatt on the Lake, Austin, Texas The final program for the First World Congress On Computational Medicine and Public Health has now been set. Over 200 speakers will be presenting work in a variety of applications areas related to medicine and public health. Registration is still open for attendees. Registration details and/or a copy of the schedule at a glance, schedule-in-detail may be requested by sending an email request to compmed94@chpc.utexas.edu or by calling 512-471-2472 or by faxing 512-471-2445 There is no ftp form of the conference schedule due to the size of the file. We will be happy to fax/send a copy to anyone who requests it. The conference proceedings will appear as a series of volumes published by World Scientific. If you are interested in possibly submitting a paper for the proceedings, please contact mwitten@chpc.utexas.edu or call 512-471-2457 The overwhelming response to this congress has already justified having a second world congress in the future. The tentative schedule is to have in in 3 years. If you are interested in participating at the 2nd World Congress On Computational Medicine and Public Health, please contact Dr. Matthew Witten Congress Chair mwitten@chpc.utexas.edu From owner-bio-matrix@net.bio.net Mon Apr 04 23:00:00 1994 Path: biosci!rutgers!cis.ohio-state.edu!news.sei.cmu.edu!bb3.andrew.cmu.edu!cantaloupe.srv.cs.cmu.edu!fs7.ece.cmu.edu!europa.eng.gtefsd.com!darwin.sura.net!lhc!lhc!hunter From: hunter@work.nlm.nih.gov (Larry Hunter) Newsgroups: bionet.molbio.bio-matrix Subject: HICSS-28 Biotechnology Computing Track call for papers Message-ID: Date: 31 Mar 94 18:06:42 GMT Sender: news@nlm.nih.gov Reply-To: Hunter@nlm.nih.gov Organization: National Library of Medicine Lines: 152 Call for Papers Biotechnology Computing Track Hawaii International Conference on System Sciences 28 Maui, Hawaii --- January 3-6, 1995 The twenty-eighth annual Hawaii International Conference on System Sciences (HICSS) will include a three day conference track on Biotechnology Computing. The Biotechnology Computing Track provides a forum for the interchange of ideas, research results, and system building activities in all areas of computation related to biology. It includes presentations of original research, tutorials, advanced seminars and a distinguished guest lecture. The conference is sponsored by the University of Hawaii in cooperation with the Association for Computing Machinery (ACM), the IEEE Computer Society, and the Pacific Research Institute for Information Systems and Management (PRIISM). Advances in biotechnology generally and in the international Human Genome Project are creating an explosion of fundamental biological data underlying all life processes. The computational problems in gathering, managing and analyzing this explosion are daunting, but the challenges are exciting and the potential payoff is very high. Every aspect of computer science is involved, from algorithm development, systems integration and advanced database management to image analysis, parallel computing, artificial intelligence and robotics. The Biotechnology Computing Track presents the leading edge of this research in five minitracks, each focused on a rapidly evolving research area. Relevant papers are solicited for each of the minitrack areas listed below. Papers must be previously unpublished, and should be from 22-26 double spaced pages in length, including figures. Submitted papers are subject to a rigorous peer review process with written reviews from at least five referees. Accepted papers will be published in the conference proceedings which is also made generally available by the IEEE Computer Society Press. Prospective authors are urged to contact the appropriate minitrack chair as early as possible. Please leave adequate time for international mail, as all deadlines are firm. For general information, or proposals for tutorials, advanced seminars and review papers, contact the track chair: Lawrence Hunter (hunter@nlm.nih.gov) National Library of Medicine Building 38A, Mail Stop 54 Bethesda, MD 20894 USA +1 (301) 496-9300 +1 (301) 496-0673 (fax) The other members of the Track steering committee are: * Tom Marr, Cold Spring Harbor Laboratory, USA * John Wootton, National Center for Biotechnology Information, USA * Minoru Kanehisa, Kyoto University, Japan * Peter Edwards, Aberdeen University, Scotland DEADLINES: Full manuscripts must be RECEIVED by June 15, 1994 Notification of accepted papers will be sent by August 31, 1994 Accepted camera ready copy must be RECEIVED by October 1, 1994 International mail can be slow. We recommend use of courier services to international destinations. BIOTECHNOLOGY COMPUTING MINITRACKS AND CHAIRS. Please contact the relevant minitrack chair as soon as possible for further information on the requirements and deadlines for that minitrack. * Project-Oriented Databases and Knowledge Bases in Genome Research: Database and knowledge base tools and technologies that support the management of specific research groups or purposes, e.g. community databases for specialized research groups, laboratory notebooks, data management system supporting experiments, links between different databases, biological function knowledge bases, knowledge representation for biological functions and data models and structures for genome data. Toshihisa Takagi (takagi@ims.u-tokyo.ac.jp) Human Genome Center, The Institute of Medical Science, The University of Tokyo 4-6-1 Shirokanedai, Minato-ku, Tokyo 108 JAPAN Tel. +81-3-3443-8111 ex.613 Fax: +81-3-3440-6173 * Parallel Computing for Computational Biology: The use of parallel and distributed computer systems and software in computational biology, including for molecular modeling, protein folding, sequence analysis, linkage analysis and other problems in the biological sciences. Timothy G. Mattson (tgm@ssd.intel.com) L. Ridgway Scott (scott@uh.edu) Intel Corp., Supercomputer Systems Division Mail Stop CO6-09 14924 N.W. Greenbrier Pkwy Beaverton, Oregon 97229 USA phone: +1 (503) 531-5627 fax: +1 (503) 531-5501 * Stochastic Models and Grammars for Bioinformatics: including hidden Markov models, regular grammar, context-free grammar, stochastic grammars and other stochastic approaches to recognize or analyze genetic/protein sequences and their structures. Kiyoshi Asai (asai@etl.go.jp) Hidetoshi Tanaka (htanaka@icot.or.jp) Institute for New Generation Computer Technology Mita Kokusai Bldg. 21F, 1-4-28, Mita, Minato-ku, Tokyo 108 Japan FAX : +81-3-3456-1618 * Computer Tools for Molecular Modeling: current research in computer algorithms and systems for molecular modeling and drug design. Teri E. Klein (klein@cgl.ucsf.edu) Mark C. Surles (surles@sdsc.edu) University of California, San Francisco 513 Parnassus Avenue, Box 0446 San Francisco, California 94143 USA phone: +1 (415) 476-0663 fax: +1 (415) 502-1755 * Protein Structure Prediction: Novel computational advances relevant to protein structure prediction from the primary sequence, including direct and "inverse" folding, homology-derived, statistical, machine learning, analytic, modeling, pattern-based, and related methods. Richard Lathrop (rickl@ai.mit.edu) Keith Dunker (dunker@bobcat.csc.wsu.edu) MIT AI Laboratory NE43-795 545 Technology Square Cambridge, MA 02139 USA +1 (617) 253-8833 +1 (617) 258-8682 (fax) -- Lawrence Hunter, PhD. National Library of Medicine Bldg. 38A, MS-54 Bethesda. MD 20894 USA tel: +1 (301) 496-9300 fax: +1 (301) 496-0673 internet: hunter@nlm.nih.gov encryption: public key via RIPEM server or "finger hunter@work.nlm.nih.gov" From owner-bio-matrix@net.bio.net Tue Apr 05 23:00:00 1994 Path: biosci!bcm!cs.utexas.edu!usc!nic-nac.CSU.net!ctp.org!not-for-mail From: jng@eis.calstate.edu (Joseph S. Ng) Newsgroups: bionet.molbio.bio-matrix Subject: Staphylotoxins Date: 6 Apr 1994 12:35:15 -0700 Organization: California Technology Project of The Calif State Univ Lines: 12 Message-ID: <2nv2tj$26f@eis.calstate.edu> NNTP-Posting-Host: eis.calstate.edu Anyone out there with some information regarding the antigenic mature of toxins produced by Staphylococcus auresus and its related microbial complexes is kindly invited to share your insights... -- --- JoE Ng, that is... Squire in absentia DAWOOD'S KNIGHTS OF THE NOT SO ROUND COFFEE SHOP TABLE From owner-bio-matrix@net.bio.net Wed Apr 06 23:00:00 1994 Path: biosci!biosci!not-for-mail From: noordewi@binnacle.rutgers.edu (Michiel) Newsgroups: bionet.announce,bionet.general,bionet.molbio.bio-matrix Subject: Machine Learning 94 Workshop on Computational Molecular Biology Date: 6 Apr 1994 20:55:31 -0700 Organization: Rutgers Univ., New Brunswick, N.J. Lines: 64 Sender: kristoff@net.bio.net Approved: bionews-moderator@net.bio.net Distribution: bionet Message-ID: NNTP-Posting-Host: net.bio.net Cc: noordewi@cs.rutgers.edu Xref: biosci bionet.announce:1061 bionet.general:8537 bionet.molbio.bio-matrix:478 Computational Molecular Biology and Machine Learning Workshop Machine Learning Conference 1994 Program Committee: Michiel Noordewier (Rutgers University) Lindley Darden (Rockefeller University) Description and Focus --------------------- This workshop will focus on the application of methods from machine learning to the promising problem area of molecular biology. A goal is to consolidate a machine learning faction in the emerging field of computational biology. One problem area is identified as genetic sequence search and analysis, and protein structure prediction. Biological sequences have become a ready source of sample data for machine learning approaches to classification. Recently such sequences have also provided problems for sophisticated pattern recognition paradigms, including those borrowed from computational linguistics, Bayesian methods, and artificial neural networks. This workshop will bring together workers using such diverse approaches, and will focus on the rich set of problems presented by the recent availability of extensive biological sequence information. Another area of applicability of ML techniques to molecular biology is in the application of computational discovery methods. Such methods are employed for forming, ranking, evaluating, and improving hypotheses. Learning strategies using analogies or homologies among molecules or processes from different organisms or species are also of interest. The format of the workshop will be the presentation of short papers followed by panel discussions. Submission Requirements ----------------------- Persons wishing to attend the workshop should submit three copies of a 1-2 page research summary including a list of relevant publications, along with a phone number and an electronic mail address. Persons wishing to make presentations at the workshop should submit three copies of a short paper (no more than 10 pages) or extended abstract, in addition to the research summary. All submissions must be received by May 1, 1994. Notification of acceptance or rejection will be mailed to applicants by May 15, 1994. A set of working notes will be distributed at the workshop. Camera ready copies of papers accepted for inclusion in the working notes of the workshop will be due on June, 15, 1994. The timetable is as follows: Abstracts, papers, etc due to chair 1 May Decisions made, submitters get feedback 15 May Final working-note submissions rcv'd by chair 15 June workshop date 10 July, 1994 From owner-bio-matrix@net.bio.net Wed Apr 06 23:00:00 1994 Path: biosci!UAFSYSB.UARK.EDU!MF06096 From: MF06096@UAFSYSB.UARK.EDU Newsgroups: bionet.molbio.bio-matrix Subject: signoff Date: 6 Apr 1994 23:12:11 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 6 Sender: daemon@net.bio.net Distribution: bionet Message-ID: <199404070612.XAA00403@net.bio.net> NNTP-Posting-Host: net.bio.net unsubscribe bio-matrix -Mark Franklin ************************************************************************ * MARK FRANKLIN UNIVERSITY OF ARKANSAS (501) 575-2905 * ************************************************************************ From owner-bio-matrix@net.bio.net Thu Apr 07 23:00:00 1994 Path: biosci!internet!biosci!not-for-mail From: kristoff (David Kristofferson) Newsgroups: bionet.molbio.bio-matrix Subject: IMPORTANT BIOSCI INFORMATION Date: 8 Apr 1994 02:00:15 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 244 Sender: daemon@net.bio.net Distribution: bionet Message-ID: <199404080900.CAA16294@net.bio.net> NNTP-Posting-Host: net.bio.net Three important items follow: BIOSCI archive searching by e-mail, the BIOSCI FAQ, and the BIOSCI User Address Directory form. If you have not yet listed yourself in our e-mail address directory, please take a few minutes to complete and return the form below. If your address information has changed since you listed yourself, please send us an updated form. Sincerely, Dave Kristofferson BIOSCI/bionet Manager biosci-help@net.bio.net **** SEARCHING BIOSCI ARCHIVES WITH WAISMAIL **** E-mail users can search the BIOSCI archives by using our waismail e-mail server. For instructions send the message help to waismail@net.bio.net. Leave the Subject: line blank. Other methods of searching the archives via WAIS and gopher are described in the BIOSCI FAQ. **** BIOSCI FREQUENTLY ASKED QUESTIONS (FAQ) SHEET **** New users of BIOSCI/bionet may want to read the "Frequently Asked Questions" or "FAQ" sheet for BIOSCI. The FAQ provides details on how to participate in these forums and is available for anonymous FTP from net.bio.net [134.172.2.69] in pub/BIOSCI/doc/biosci.FAQ or for retrieval by gopher to net.bio.net, port 70. It may also be requested by sending e-mail to biosci-help@net.bio.net (use plain English for your request). The FAQ is also posted on the first of each month to the newsgroup BIONEWS/bionet.announce immediately following the posting of the BIOSCI information sheet. **** BIOSCI USER ADDRESS DIRECTORY **** Please take this opportunity to add your name and address information to the BIOSCI User Address Database if you have not already done so. Below is the address form that we would like each reader of the BIOSCI/bionet newsgroups to complete and return if you would like to be listed in our database. The database serves as a directory that enables biologists, who are currently using (or even just reading) the BIOSCI newsgroups, to look up e-mail addresses and other information about our users. The address database is reindexed nightly for WAIS and waismail access (waismail is our WAIS e-mail server, more below) and will also be available for access via other gopher sites if they wish to permit it. The raw unindexed data is available for FTP from net.bio.net and is atomized sufficiently to allow import into your local RDBMS should you so desire. Please carefully follow the instructions for completing the form below and return it to either of the following two addresses (whichever is more convenient for you). Thanks in advance for taking the time to complete and return the form. Addresses for returning forms Location Network ----------------------------- -------- ------- biovote@net.bio.net U.S.A. Internet/BITNET biovote@daresbury.ac.uk U.K. JANET MAKING SURE THAT YOUR INFORMATION IS CURRENT This notice will be mailed bimonthly to each newsgroup. You should check our WAIS source or waismail e-mail server from time-to-time to see if your address information is still up-to-date. Send the message help to waismail@net.bio.net for instructions on using waismail. Leave the Subject: line in your message blank. Using Gopher to complete the form --------------------------------- If you don't want to use a text editor, you can also use Dan Jacobson's gopher site to fill out the address database form as follows. Otherwise skip this section on gopher and proceed to the instructions for filling out the form below. > To add yourself to the database just point your > gopher client at merlot.gdb.org and select the following: > > --> 15. Searching For Biologists/ > > --> 9. E-mail Addresses of Biosci-Bionet Users/ > > --> 1. Add (or Correct) Your Address to the BIOSCI User Address > Data.. > > > And fill out the form. or Rob Harper's gopher site in Europe as follows: > Europeans can point their gopher client at gopher.csc.fi and add their > information to the database. All entries will be mailed directly to > Dave for incorporation in a wais source. > > The path to the questionare is as follows. > > ---> 10. Finnish EMBnet BioBox/ > > ---> 8. FAQ Files/ > > FAQ Files > > 1. EMBnet: Information. > 2. EMBnet: Internet resources guide. > 3. A Biologist's Guide to Internet Resources/ > 4. All FAQs (Frequently Asked Questions) Searches and Archives/ > --->5. Bionauts Address Database (questionaire) IMPORTANT INSTRUCTIONS - PLEASE READ CAREFULLY Please enter all responses after the : on each line, leaving one (1) blank space after the : (i.e., before the start of your text). Please do NOT extend your responses past the end of each line (80 characters) or alter any of the field identifiers such as "first name: ". Several lines are provided at the end of the form for comments, but, please adhere to the line length restriction. On the date: line, please enter the date in the DD-MM-YY format, e.g., 05-05-93 for 5 May 1993. This line will tell others when the information was last updated. Please be sure to include the 0's for single digit days or months, e.g., 05-05-93, not 5-5-93. Note that the "e-mail network: " line below is for specifying, e.g., "Internet," "BITNET," "EARN," "JANET," or whatever other network that your computer may be on. If you are uncertain about any field, please feel free to leave it blank, but please DO NOT DELETE the field identifier from the form! In the first field below, "New information or Update ...", please enter "N" if this is the first time that you have registered in the directory or "U" if you are correcting a listing that you sent to us previously. The comment: lines may be used for anything that you like but PLEASE DO NOT DELETE THEM FROM THE FORM OR ALTER THEM. One suggested use is to list the names of the newsgroups in which you participate. Please use the MAILING LIST name (see below - the latest version of the list can be requested from biosci@net.bio.net) instead of the USENET name even if you don't participate by e-mail. WAIS might get confused by the periods in the USENET names. This allows one to retrieve via WAIS or waismail the list of participants in a particular group. For example: comment: ARABIDOPSIS PLANT-BIOLOGY BIONEWS On the comment: lines use these names below ---- NOT the USENET names below MAILING LIST NAME USENET Newsgroup Name ----------------- --------------------- ACEDB-SOFT bionet.software.acedb AGEING bionet.molbio.ageing AGROFORESTRY bionet.agroforestry ARABIDOPSIS bionet.genome.arabidopsis BIOFORUM bionet.general BIO-INFORMATION-THEORY bionet.info-theory BIONAUTS bionet.users.addresses BIONEWS bionet.announce BIO-JOURNALS bionet.journals.contents BIO-MATRIX bionet.molbio.bio-matrix BIO-SOFTWARE bionet.software CHROMOSOMES bionet.genome.chromosomes COMPUTATIONAL-BIOLOGY bionet.biology.computational DROSOPHILA bionet.drosophila EMBL-DATABANK bionet.molbio.embldatabank EMPLOYMENT bionet.jobs GDB bionet.molbio.gdb GENBANK-BB bionet.molbio.genbank GENETIC-LINKAGE bionet.molbio.gene-linkage HIV-MOLECULAR-BIOLOGY bionet.molbio.hiv HUMAN-GENOME-PROGRAM bionet.molbio.genome-program IMMUNOLOGY bionet.immunology INFO-GCG bionet.software.gcg JOURNAL-NOTES bionet.journals.note METHODS-AND-REAGENTS bionet.molbio.methds-reagnts MOLECULAR-EVOLUTION bionet.molbio.evolution NEUROSCIENCE bionet.neuroscience N2-FIXATION bionet.biology.n2-fixation PHOTOSYNTHESIS bionet.photosynthesis PLANT-BIOLOGY bionet.plants POPULATION-BIOLOGY bionet.population-bio PROTEIN-ANALYSIS bionet.molbio.proteins PROTEIN-CRYSTALLOGRAPHY bionet.xtallography RAPD bionet.molbio.rapd SCIENCE-RESOURCES bionet.sci-resources TROPICAL-BIOLOGY bionet.biology.tropical VIROLOGY bionet.virology WOMEN-IN-BIOLOGY bionet.women-in-bio YEAST bionet.molbio.yeast Listing newsgroups on the comment: line is optional, of course. Thanks again for your cooperation! --------------- please cut here and return portion below --------------- New information or Update to old record (enter N or U): date (DD-MM-YY): first name: middle initial: family name: job title: e-mail address: e-mail network: phone number: FAX number: institution: address1: address2: address3: city: state/province: country: postal code: research interest: research interest: comment: comment: comment: comment: comment: From owner-bio-matrix@net.bio.net Thu Apr 07 23:00:00 1994 Path: biosci!UMIACS.UMD.EDU!darden From: darden@UMIACS.UMD.EDU (Lindley Darden) Newsgroups: bionet.molbio.bio-matrix Subject: ML94compbioworkshop Date: 8 Apr 1994 11:09:41 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 96 Sender: daemon@net.bio.net Distribution: bionet Message-ID: <199404081810.OAA29365@skippy.umiacs.UMD.EDU> NNTP-Posting-Host: net.bio.net ----------------------------------------------------------------------------- Computational Molecular Biology and Machine Learning Workshop Machine Learning Conference 1994 Rutgers University Program Committee: Michiel Noordewier (Rutgers University) Lindley Darden (Rockefeller University) Description and Focus --------------------- This workshop will focus on the application of methods from machine learning to the promising problem area of molecular biology. A goal is to consolidate a machine learning faction in the emerging field of computational biology. One problem area is identified as genetic sequence search and analysis, and protein structure prediction. Biological sequences have become a ready source of sample data for machine learning approaches to classification. Recently such sequences have also provided problems for sophisticated pattern recognition paradigms, including those borrowed from computational linguistics, Bayesian methods, and artificial neural networks. This workshop will bring together workers using such diverse approaches, and will focus on the rich set of problems presented by the recent availability of extensive biological sequence information. Another area of applicability of ML techniques to molecular biology is in the application of computational discovery methods. Such methods are employed for forming, ranking, evaluating, and improving hypotheses. Learning strategies using analogies or homologies among molecules or processes from different organisms or species are also of interest. The format of the workshop will be the presentation of short papers followed by panel discussions. Submission Requirements ----------------------- Persons wishing to attend the workshop should submit three copies of a 1-2 page research summary including a list of relevant publications, along with a phone number and an electronic mail address. Persons wishing to make presentations at the workshop should submit three copies of a short paper (no more than 10 pages) or extended abstract, in addition to the research summary. All submissions must be received by May 1, 1994. Notification of acceptance or rejection will be mailed to applicants by May 15, 1994. A set of working notes will be distributed at the workshop. Camera ready copies of papers accepted for inclusion in the working notes of the workshop will be due on June, 15, 1994. The timetable is as follows: Abstracts, papers, etc due to chair 1 May Decisions made, submitters get feedback 15 May Final working-note submissions rcv'd by chair 15 June workshop date 10 July, 1994 Please send one copy to each organizer: Michiel Noordewier Department of Computer Science Rutgers University Hill Center; Busch Campus New Brunswick, NJ 08903 Lindley Darden The Rockefeller University c/o Lederberg Lab; Box 174 1230 York Avenue NY, NY l0021-6399 (212) 327-7812 (212) 327-8651 (fax) darden@umiacs.umd.edu This workshop is being held in conjunction with ML '94 COLT '94 Eleventh International Conference Seventh ACM Conference on on Machine Learning Computational Learning Theory July 10-13, 1994 July 12-15, 1994 For general registration and housing information, please contact Priscilla Rasmussen (rasmussen@cs.rutgers.edu; 908-932-2768). From owner-bio-matrix@net.bio.net Thu Apr 14 23:00:00 1994 Path: biosci!biosci!not-for-mail From: brutlag@cmgm.stanford.edu (Doug Brutlag) Newsgroups: bionet.announce,bionet.software,bionet.molbio.bio-matrix,comp.ai,comp.ai.neural-nets,sci.bio,sci.engr.biomed,sci.med,news.announce.conferences Subject: ISMB-94 General and Registration Info Followup-To: sci.bio Date: 14 Apr 1994 19:20:43 -0700 Organization: Stanford University Lines: 351 Sender: kristoff@net.bio.net Approved: bionews-moderator@net.bio.net Distribution: bionet Message-ID: Reply-To: ismb@camis.stanford.edu NNTP-Posting-Host: net.bio.net Xref: biosci bionet.announce:1075 bionet.software:7913 bionet.molbio.bio-matrix:482 comp.ai:7358 comp.ai.neural-nets:7091 sci.bio:8123 sci.engr.biomed:1310 sci.med:34355 news.announce.conferences:3098 ***************************************************************** 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@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: $57) Return Registration Form (with payment) to ISMB-94 c/o Russ Altman Section on Medical Informatics SUMC, MSOB X-215 Stanford, CA 94305-5479 USA For questions: ismb@camis.stanford.edu or Fax: (415) 725-7944 CUT HERE: ************************************************************* ISMB-94 REGISTRATION FORM: Name:__________________________________________________ Affiliation: __________________________________________ Address:_______________________________________________ _______________________________________________ _______________________________________________ Phone: ___________________ Fax: ____________________ Email: _____________________________________________ Status: ________ Student _______ Non-student ________ Male _______ Female _____ Check if you would like information about travel support. >Registration (Early = before 7/15)......................$_______ 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@cmgm.stanford.edu Stanford University School of Medicine Stanford, California 94305-5307