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---


From owner-molmodel@hgmp.mrc.ac.uk  Fri Mar  3 16:50:08 2000
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X-Newsgroups: bionet.molec-model
Subject: Announcement: BioCoRe
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Urbana, Illinois - The Theoretical Biophysics Group at the
University of Illinois is proud to announce the initial public release
of BioCoRE, a collaborative research environment.  BioCoRE software is
freely available for use at the Theoretical Biophysics Group website.
BioCoRE development is supported by the NIH National Center for
Research Resources.

Modern computational structural biology requires scientists to employ a
wide range of tools and techniques to solve complex problems while
keeping accurate and complete records of research activities.
Additional complications are introduced by the need to effectively
engage in interdisciplinary collaborations with geographically
dispersed colleagues. The software BioCoRE, a collaborative research
environment for molecular modeling and simulations, addresses these
challenges.

Initial design work has led to a web-based architecture focused on four
primary interface paradigms:

  + a WORKBENCH interface includes features for controlling molecular
modeling, simulation, and bioinformatics tools with convenient and
uniform access to collaboratory data.  Initial tools in this category
include the ability to start and monitor molecular dynamics simulations
via a web browser interface.

  + a NOTEBOOK interface automates recording of research activities.
Initial tools in this category include a notebook tool which can be used
by researchers to engage in offline discussions as well as review and
search the entire text of any prior chat session.

  + a CONFERENCE interface enables scientists to discuss their research
across distances in real time or time-delayed sessions and will spawn
software for teleconferencing and synchronized visualization of shared
data at distant sites.  Initially, this category includes a text-based
chat mechanism where the researchers can choose topics and converse with
other researchers who are working on the same project.

  + a DOCUMENTS interface permits the preparation of multi-author
documents in a cross-platform revision control system.

BioCoRE consists of html and javascript and java where needed.

For additional information, please visit the BioCoRE website at
<http://www.ks.uiuc.edu/Research/collaboratory/>.

The Theoretical Biophysics group encourages BioCoRE users to be closely
involved in the development process through reporting bugs, contributing
fixes, periodical surveys and via other means.  Questions or comments
may be directed to collaboratory@ks.uiuc.edu.

We are eager to hear from you, and thank you for using our software!    





From owner-molmodel@hgmp.mrc.ac.uk  Mon Mar  6 21:22:23 2000
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--and--
Chemical Structure Drawing,
C-13 NMR Shift Prediction for Windows,
http://home.ici.net/~hfevans/chempen.htm



From owner-molmodel@hgmp.mrc.ac.uk  Mon Mar  6 23:19:34 2000
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From: "Sara Valafar" <svalafar@cns.bu.edu>
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Subject: METMBS 2000 DEADLINE EXTENSION (MARCH 6)
Date: Thu, 2 Mar 2000 22:21:58 -0500
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The 2000 International Conference on Mathematics and Engineering
Techniques in Medicine and Biological Sciences
(METMBS'2000)
<http://www.cns.bu.edu/metmbs/>
(E-mail submissions are encouraged)

June 26 - 29, 2000
Monte Carlo Resort, Las Vegas, Nevada, USA
Call for Papers/Abstracts



Recent advances in computer technology have provided the tools and the
environment to study, analyze, and better understand complex systems. This
technological development has enabled researchers to collect and analyze
massive amounts of data to a scale previously not possible. The impact of
this technology is now being felt in the medical field and in the biological
sciences.   In recent years, research in interdisciplinary areas such as
Bioinformatics and computer assisted medical decision-making has
dramatically intensified.  METMBS'2000 aims to provide a platform for
researchers to present and discuss recent breakthroughs in this area.

The METMBS'2000 Conference will be held concurrently (i.e., same location
and dates) with the International Conference on Parallel and Distributed
Processing Techniques and Applications (PDPTA'2000), the International
Conference on Imaging Science, Systems, and Technology (CISST) and the
International Conference on Artificial Intelligence (IC-AI).

You are invited to submit a one-page abstract or a draft paper of about 4
pages, and/or a proposal to organize a technical session (see below for
submission information).  All accepted submissions will be published in the
conference proceedings.

THE NAMES OF TECHNICAL SESSION CHAIRS WILL APPEAR AS ASSOCIATE EDITORS ON
THE COVER OF THE CONFERENCE PROCEEDINGS.



SCOPE

Topics of interest include, but are not limited to, the following:

o Bioinformatics: This includes informatics techniques in genomics gene
sequencing, gene pattern discovery, gene pattern-function studies, and other
genomics related studies).

o Data mining in medicine and biological sciences.

o Pattern recognition in medicine and biological sciences.

o Signal processing in medicine and biological sciences (e.g. biomedical
signal processing, etc.)
o Image processing in medicine and biological sciences (e.g. biomedical
image processing, biomedical imaging, etc.)

o Medical decision-making.
o Medical Physics.
o Biomedical Engineering.
o Biomedical Electronics.
o Biosignal interpretation.
o Any application of computers in Medicine and biological sciences (protein
structure-function analysis, drug and protein design, molecular modeling and
simulation, etc.)
o Application of information technology in biomedicine (e.g. medical
database management, information retrieval and use of computers in
hospitals)
o Application of Computational Intelligence (artificial neural networks,
fuzzy logic, and evolutionary computing) in medicine and biological sciences
o Medical and bio-computing.
o Computer-based medical systems (automation in medicine, etc.)
o Recent history (1990-1999) of Mathematics and engineering techniques in
medicine and biological sciences, and what to expect during the next decade
(2000-2009); New horizons. Review articles)
o Other aspects and applications relating to technological advancements in
medicine and biological sciences.



SUBMISSION OF PAPERS

Prospective authors are invited to submit three copies of their one-page
abstract or draft paper (about 4 pages) to F. Valafar (address is given
below) by March 6, 2000.  E-mail and Fax submissions are also
acceptable.  The length of the Camera-Ready papers (if accepted) will be
limited to 7 pages.  Papers must not have been previously published or
currently submitted for publication elsewhere.

The abstract and the first page of the draft paper should include: title of
the paper, name, affiliation, postal address, E-mail address, telephone
number, and Fax number for each author.  The first page should also include
the name of the author who will be presenting the paper (if accepted) and a
maximum of 5 keywords.


PROPOSAL FOR ORGANIZING TECHNICAL SESSIONS

Each technical session will have at least 6 paper presentations.  The
session chairs will be responsible for all aspects of their sessions,
including soliciting papers, reviewing, selecting, ...

The names of session chairs will appear as Associate Editors in the
conference proceedings.  After the conference, some sessions will be
considered for publication in appropriate journals as Special Issues with
the session proposer as the Guest Editor of the journal.

Proposals to organize technical sessions should include the following
information: name and address (+ E-mail) of the proposer, title of session,
a 100-word description of the topic of the session, and a short description
on how the session will be advertised (in most cases, session proposers
solicit papers from colleagues and researchers whose work is known to the
session proposer).

Mail your proposal to F. Valafar (address is given below); E-mail
submissions are preferred.


EVALUATION PROCESS

Papers will be evaluated for originality, significance, clarity, and
soundness.  Two researchers in the topical area will referee each paper.
The Camera-Ready papers will be reviewed by one person.


PUBLICATION

The conference proceedings will be published by CSREA Press (ISBN).  The
proceedings will be available at the conference.  Some accepted papers will
also be considered for journal publication (soon after the conference).


ORGANIZERS/SPONSORS

A number of university faculty members and their staff, in cooperation with
the Monte Carlo Resort (Conference Division, Las Vegas), will be organizing
the conference.  The conference will be sponsored by Computer Science
Research, Education, & Applications Press (CSREA: USA Federal EIN #
58-2171953) in cooperation with research centers, international
associations, international research groups, and developers of
high-performance machines and systems.  The complete list of sponsors and
co-sponsors will be available at a later time.

The last conference's sponsors included: CSREA, the National Supercomputing
Center for Energy and the Environment - DOE, The International Association
for Mathematics and Computers in Simulation, The International Technology
Institute (ITI), The Java High Performance Computing research group, Korea
Information Processing Society, World Scientific and Engineering Society,
Sundance Digital Signal Processing Inc., the Computer Vision Research and
Applications Tech., and more.


LOCATION OF CONFERENCE

The conference will be held in the Monte Carlo Resort Hotel, Las Vegas,
Nevada, USA.  This is a mega hotel with excellent conference facilities and
over 3000 rooms.  The hotel is minutes from the Las Vegas airport with free
shuttles to and from the airport.  This hotel has many vacation and
recreational attractions, including: waterfalls, casino, spa, pools & kiddie
pools, sunning decks, Easy River water ride, wave pool with cascades,
lighted tennis courts, health spa (with workout equipment, whirlpool,
sauna,...), arcade virtual reality game rooms, nightly shows, snack bars, a
number of restaurants, shopping area, bars, ...  Many of these attractions
are open 24 hours a day and most are suitable for families and children.
The negotiated hotel's room rate for conference attendees is very reasonable
($79 + tax) per night (no extra charge for double occupancy) for the
duration of the conference.

The hotel is within walking distance from most other Las Vegas attractions
(major shopping areas, recreational destinations, fine dining and night
clubs, free street shows, and more).

For the benefit of our international colleagues: the state of Nevada
neighbors with the states of California, Oregon, Idaho, Utah, and Arizona.
Las Vegas is only a few driving hours away from other major cities and
attractions, including: Los Angeles, San Diego, Phoenix, the Grand Canyon,
and more.


EXHIBITION

An exhibit is planned for the duration of the conference.  We have reserved
20+ exhibit spaces.  Interested parties should contact F. Valafar (address
is given below).  All exhibitors will be considered to be the co-sponsors of
the conference.


IMPORTANT DATES

March 6, 2000 (Monday): One-page Abstracts or Draft papers (about 4
pages) due
April 3, 2000 (Monday):  Notification of acceptance
May 1, 2000 (Monday):  Camera-Ready papers & Preregistration due
June 26 - 29, 2000:  METMBS'2000 Conference

Proposals to organize technical sessions should be submitted as soon as
possible.  All accepted papers are expected to be presented at the
conference.


MEMBERS OF PROGRAM & ORGANIZING COMMITTEES

The Program Committee is currently being formed.  Those interested in
joining the Program Committee should e-mail F. Valafar (faramarz@cns.bu.edu
<mailto:faramarz@cns.bu.edu>) the following information: Name, affiliation
and position, complete mailing address, e-mail address, tel/fax numbers, a
short biography together with research interests.


OTHER INFORMATION

Last year PDPTA, CISST, and IC-AI had research contributions from over 44
countries (over 900 participants from all over the world.)  To make this a
more complete suite of conferences, we have added METMBS.  METMBS will also
have a strong international flavor and offers its participants an
introduction to a wide range of related interdisciplinary subjects through
the other three conferences.


CONFERENCE CONTACT:

          Faramarz Valafar
          Cognitive and Neural Systems
          Boston University
          677 Beacon Street
          Boston, MA 02215

          Tel: (617) 353-5134
          Fax: (617) 353-7755
          E-mail: Faramarz@cns.bu.edu <mailto:Faramarz@cns.bu.edu>





























































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From: "elgansNet" <elegansnet@hotmail.com>
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Subject: New Website: Model Organism Bioinformatics & Research Menu Hubsite
Date: Mon, 6 Mar 2000 10:22:09 -0600
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Dear Researcher,

We are announcing a new website which might be useful to many of you.  It
has been recently recognized by several online sources (HMS Beagle, etc..).
The title and a brief description is provided for you below.

TITLE: elegansNet: Model Organism Bioinformatics & Research Menu Hubsite for
Biomedical Scientists.


DESCRIPTION: Framed Comprehensive Index with Frequent Updates of Research
Menu: Databases (alphabetically organized), services (data bases are
functionally organized according to tasks), protocols, literature search,
news, MEDICINE, DISEASE, aging, model organisms (Drosophila, mouse,
nematodes, Xenopus, yeast), development, cell death, ion channels,
oxidative-stress links and more are served by three channels of C. elegans
network.

This site which is very responsive to user needs simplifies navigation in
several ways by providing:
1. An open-face index hierarchy.
2. Three channels (frames) for information delivery: Channel 1, index;
Channel 2: highlights recent notable publication abstracts in the context of
PubMed interface; Channel 3: Technology highlights and more...
3. Provides a framed interface to model organism servers/resources.

elegansNet is a no-profit website and can be linked to at:
http://peds.mc.vanderbilt.edu/c_elegans/index.htm


Please direct questions and comments to elegansNet@hotmail.com

Thank you,

elegansNet




From owner-molmodel@hgmp.mrc.ac.uk  Thu Mar  9 10:45:10 2000
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From: gordoe@topmail.com.ar (Juan Carlos Petela)
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Subject: Interesting site
Date: Thu, 09 Mar 2000 09:54:45 GMT
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Hello! I don't write frequently, but this time is for sending to all
this address that I've found searching the net and it's not listed  in
the major chemical sites, this people sells the ball-stick models,
I've ordered one set because I'm teacher and I use it always.

Just visit they at:  www.chemicalmodels.com.ar 

Greetings.
Juan


From owner-molmodel@hgmp.mrc.ac.uk  Sun Mar 12 14:52:57 2000
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From: Xme@Xsynapse.ndo.co.uk (Jamie)
X-Newsgroups: bionet.molec-model
Subject: Info needed on "bio-math" business
Date: Sun, 12 Mar 2000 18:53:31 GMT
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Info needed on "bio-math" business

Hi,

I'm trying to do some background research in preparation for a job
inteview.

I'd like any information (like a web address) of companies or
consulants offering mathematical and statistical modelling services to
problems in the biomedical and environmental sciences. 
(My search using the standard search engines hasn't been fruitful.)

My interview is on the 20th of March so, if you have any information,
please email me (removing the "Xs'") because my newsgroup reader isn't
updated very often.

I'd appeciate any infromation you might have about these kinds of
businesses.

Thanking you in advance for your help.

Sincerely,

Jamie


EMAIL  Xjamie3@Xsynapse.ndo.co.uk
Note: remove all X's from my email address in order to send email to me (it's an "anti-spamming" thingy.)


From owner-molmodel@hgmp.mrc.ac.uk  Sun Mar 19 03:24:48 2000
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From: bein@edu.21cn.com (bein)
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Subject: workstation suited for molecular modeling
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Hi

I am going to perchase a workstations for population genetics analysis with the package 
POINTER (run on UNIX). But my boss said this workstation should be able to perform most 
used molecular modeling programs and GCG sequence search with inhouse database in the 
near future. Since I am not familiar in these fields, I'd like to ask what should I buy.

Is the following workstation suited for us?
 SUN Ultra 60 system with dual 450M UltraSPARC-II processor with 4-Mbyte UltraCAche, 
256-Mbyte Memory, Elite 3D M3 Graphics, 9.1Gbute 7200RPM Internal Disk. X7004A Opt 
Memory 256M

How is the suited size of memory and harddisk? How many CPUs are favourable?

Thank you very much

yours

Bein F.

---


From owner-molmodel@hgmp.mrc.ac.uk  Tue Mar 21 10:54:09 2000
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From: Bent Nagstrup <Bent@Nagstrup.dk>
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Subject: Re: workstation suited for molecular modeling
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bein wrote:
> POINTER (run on UNIX). But my boss said this workstation should be able to perform most
> used molecular modeling programs and GCG sequence search with inhouse database in the
> near future. Since I am not familiar in these fields, I'd like to ask what should I buy.

The obvious answer is that it depends on the software, since a lot of
software is only available as precompiled binaries for specific
platforms. I have no idea what is needed for your "inhouse databse",
but I do know that molecular modelling is either Silicon Graphics or
Linux.

For Silicon Graphics you should consider Sybyl (www.tripos.com) and
Insight (www.msi.com) - these are professional tools, and so is the
price....

On a smaller budget, your best choice is probably getting a high-end
PC and using WhatIf (http://www.cmbi.kun.nl/whatif/) and Modeller
(http://guitar.rockefeller.edu/modeller/modeller.html)

Modeller will also run quite happily on a Silicon Graphics machine,
but WhatIf really prefers its Linux-box

hope this helps you a bit


From owner-molmodel@hgmp.mrc.ac.uk  Fri Mar 24 20:58:10 2000
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---


From owner-molmodel@hgmp.mrc.ac.uk  Mon Mar 27 03:52:28 2000
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From: workersprogram1@aussiemail.com.au
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