From owner-software@net.bio.net Mon Sep 01 23:00:00 1997 Path: biosci!rutgers!uwm.edu!vixen.cso.uiuc.edu!ais.net!infeed1.internetmci.com!newsfeed.internetmci.com!192.220.251.22!netnews.nwnet.net!news-hub.interserv.net!news.interserv.com!email-now4.com From: "SPECIAL !!!" special@email-now4.com Newsgroups: bionet.software Subject: S O F T W A R E ==>> 9 0 % O F F <<== Date: Tue, 02 Sep 1997 01:14:47 -0700 Organization: ABCD Lines: 5 Message-ID: <020997011447@email-now4.com> NNTP-Posting-Host: hd68-011.hil.compuserve.com <<<<<<< COMPUTER SOFTWARE / HARDWARE >>>>>>> >>> UP TO 90 % OFF <<< http://www.quantcom.com/auctionfirst/ >=<<=<<==<<>>=>>=>=> From owner-software@net.bio.net Mon Sep 01 23:00:00 1997 Path: biosci!ACSU.BUFFALO.EDU!mczhang From: mczhang@ACSU.BUFFALO.EDU (Manchao Zhang) Newsgroups: bionet.software Subject: cytotoxicity software needed!!! Date: 2 Sep 1997 06:36:59 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 11 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net Dear Netters, We have lots of NK cell data to caculate lytic units (LU), dose anybody help us to recommend some software? Thank you very much! M.Zhang Dept Pathol SUNY at Buffalo e-mail: mczhang@acsu.buffalo.edu From owner-software@net.bio.net Mon Sep 01 23:00:00 1997 Path: biosci!agate!ihnp4.ucsd.edu!gondor!newshub.sdsu.edu!newshub.csu.net!csulb.edu!logbridge.uoregon.edu!newsfeed1-hme1!newsfeed.internetmci.com!166.93.8.12!natasha.rmii.com!news1.rmi.net!not-for-mail From: richard_steinman@cmagroup.com Newsgroups: bionet.software Subject: USA-CO; Boulder/Longmont; Software Engineer; C++, Signal Processing Date: 2 Sep 1997 23:25:11 GMT Organization: Career Marketing Associates Lines: 22 Message-ID: <5ui78n$7ge$1@news.rmi.net> NNTP-Posting-Host: 206.247.5.4 USA-CO; Boulder/Longmont; Software Engineer; C++, Signal Processing C, C++ programmer, signal processing, Windows/NT, GUI, convert low level Bio signals into data for PC presentaation. Brain waves, EEG, humans and animals. Real-time data acquisition. Nerve impulse recording. Would like lab experience-data analysis and reduction, familiar with instrumentation. New grad to 3 years experience. Small company-software engineers get the whole enchillada not just a small piece. Needs to be hungry and eager to learn. Really need C++, MFC, WIN32, Windows NT, 95 as well as somewhat of a scientific or engineering background. Please refer to JO# 2431JMS in your response. Richard Steinman Team Leader rjs@cmagroup.com IT & Software Solutions Team Career Marketing Associates http://www.cmagroup.com/IT.html From owner-software@net.bio.net Mon Sep 01 23:00:00 1997 Path: biosci!VUB.VUB.AC.BE!kdesmet From: kdesmet@VUB.VUB.AC.BE (Karen De Smet) Newsgroups: bionet.software Subject: toxicology.software Date: 2 Sep 1997 05:25:44 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 9 Sender: daemon@net.bio.net Distribution: world Message-ID: <340C14F3.1BF8@vub.vub.ac.be> NNTP-Posting-Host: net.bio.net Hello everybody, We are looking for any software-package (PC or Macintosh) to be used in practical course of Toxicology for pharmacy students (4th grade). Does this exist at all??? If it does, where could we get this? Thank you very much, Karen & Sonja From owner-software@net.bio.net Tue Sep 02 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!news-spur1.maxwell.syr.edu!news.maxwell.syr.edu!news-peer.sprintlink.net!news-sea-19.sprintlink.net!news-in-west.sprintlink.net!news.sprintlink.net!Sprint!204.94.112.34!news.aloha.net!news-w.ans.net!newsfeeds.ans.net!dahlia.singnet.com.sg!newsfeed.singnet.com.sg!id4.nus.edu.sg!nuscc.nus.sg!leonis.nus.sg!sci40034 From: Gan Kwang Yeang Damien Newsgroups: bionet.software Subject: SOS REAMPLIFICATION Date: Wed, 3 Sep 1997 16:07:35 +0800 Organization: National University of Singapore Lines: 8 Message-ID: NNTP-Posting-Host: sci40034@leonis.nus.sg Mime-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII HI! I am a student doing my Honours thesis on RAPD fingerprinting of guppies. I need desperately need help in a suitable method I can employ to reamplify RAPD bands excised from silver-stained PAGE gels. IS elution absolutely necessary and if so what is an efficient method to use?? Can someone please HELP!!!!! From owner-software@net.bio.net Wed Sep 03 23:00:00 1997 Path: biosci!fcs280s.ncifcrf.gov!cpk-news-feed4.bbnplanet.com!cpk-news-feed1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!news-peer.sprintlink.net!news.sprintlink.net!Sprint!EU.net!news0.Belgium.EU.net!Belgium.EU.net!chaos.kulnet.kuleuven.ac.be!usenet From: Guy Droogmans Newsgroups: bionet.biophysics,bionet.neuroscience,bionet.software Subject: WinASCD: analysis of single channel and whole cell currents Date: Thu, 04 Sep 1997 09:46:50 +0200 Organization: kuleuven.ac.be Lines: 46 Message-ID: <340E676A.3433D85D@med.kuleuven.a.c.be> NNTP-Posting-Host: fysiologie-12.med.kuleuven.ac.be Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 4.01 [en] (Win95; I) X-Priority: 3 (Normal) Xref: biosci bionet.biophysics:3494 bionet.neuroscience:20217 bionet.software:19430 WinASCD is a program to analyze single channel and whole-cell pClamp data (Clampex, Fetchex, AxoTape). It is a 32-bit (WIn95/NT) updated version of an original DOS program that I started writing more than 10 years ago. It includes the following main features: 1. a data correction module for baseline restoration (drift correction) background subtraction (correction for leak and capacitative current) 2. a module for calculating average and peak currents ensemble averaged current avg current for continuous data avg and peak current for triggered data 3. a module to construct linear combinations of records belonging to the same or different files 4. a module to fit sum of exponentials or a kinetic model to indivudual current traces, ensemble averaged currents and composed records 5. a module for the Analysis of Single Channel Data, including Amplitude histogram construction and fit with Gauss peaks Kinetic Analysis: idealization, dwell time histograms, first latencies, burst analysis, analysis of the number of events 6. a module for the analysis of current fluctuations, including current variance analysis and FFT. Each window (graphical or text) can be printed (not a screen dump) or saved as a TAB delimited ASCII file for import in e.g. a presentation software package. A demo version of the program in which output is disabled is available from ftp://cc5.kuleuven.ac.be/pub/droogmans/winascd.zip -- Guy Droogmans Laboratorium voor Fysiologie Campus Gasthuisberg, KU Leuven B-3000 Leuven (Belgium) Tel 32 16 345 726 Fax 32 16 345 991 From owner-software@net.bio.net Wed Sep 03 23:00:00 1997 Path: biosci!news.Stanford.EDU!su-news-hub1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!news-peer.sprintlink.net!news-pull.sprintlink.net!news-in-east.sprintlink.net!news.sprintlink.net!Sprint!206.172.150.11!news1.bellglobal.com!sunqbc.risq.qc.ca!newsfeed.microtec.net!news3.sprint-canada.net!wolf.interlynx.net!not-for-mail From: "Lars Thomsen" Newsgroups: bionet.software Subject: testing...dont read..having trouble posting.. Date: Wed, 3 Sep 1997 00:09:59 -0400 Organization: Interlynx Lines: 4 Message-ID: <5uio2l$g4r$1@wolf.interlynx.net> NNTP-Posting-Host: port136.hm.interlynx.net X-Newsreader: Microsoft Outlook Express 4.71.1008.3 X-MimeOle: Produced By Microsoft MimeOLE Engine V4.71.1008.3 adfasdf From owner-software@net.bio.net Wed Sep 03 23:00:00 1997 Path: biosci!news.Stanford.EDU!su-news-hub1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!news-peer.sprintlink.net!news-pull.sprintlink.net!news-in-east.sprintlink.net!news.sprintlink.net!Sprint!206.172.150.11!news1.bellglobal.com!sunqbc.risq.qc.ca!newsfeed.microtec.net!news3.sprint-canada.net!wolf.interlynx.net!not-for-mail From: "Lars Thomsen" Newsgroups: bionet.software Subject: Re: help needed! Date: Mon, 1 Sep 1997 12:16:08 -0400 Organization: Interlynx Lines: 9 Message-ID: <5ueps1$pjb$1@wolf.interlynx.net> References: <34059706.214A@acsu.buffalo.edu> NNTP-Posting-Host: port67.hm.interlynx.net X-Newsreader: Microsoft Outlook Express 4.71.1008.3 X-MimeOLE: Produced By Microsoft MimeOLE Engine V4.71.1008.3 What is the algoritm ...I could write a program would do it....if you then included me somewhere on the article then I would be extremely happy....wouldnt cost you anything else... Best Regards Lars Thomsen From owner-software@net.bio.net Wed Sep 03 23:00:00 1997 Path: biosci!agate!ihnp4.ucsd.edu!news.sdsc.edu!newshub.csu.net!zdc!super.zippo.com!lotsanews.com!su-news-hub1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!news-peer.gsl.net!news-tokyo.gip.net!news.gsl.net!gip.net!nspixp!news.imnet.ad.jp!not1!ynakamu From: ynakamu@kazusa.or.jp (Yasukazu Nakamura) Newsgroups: bionet.software Subject: Btab for blast2 Date: 4 Sep 1997 08:25:45 GMT Organization: Kazusa DNA Research Institute, Japan. Lines: 10 Distribution: world Message-ID: <5ulraa$6nv@not1.kazusa.or.jp> NNTP-Posting-Host: not1.kazusa.or.jp X-Newsreader: mnews [version 1.18] 1994-05/16(Mon) Hi, Have anyone written Btab (like) program for BLAST2 output? Thanks in advance. Yaskaz NAKAMURA Yasukazu ynakamu@kazusa.or.jp Laboratory of Gene Structure 2, Kazusa DNA Research Institute From owner-software@net.bio.net Wed Sep 03 23:00:00 1997 Path: biosci!agate!hammer.uoregon.edu!vixen.cso.uiuc.edu!howland.erols.net!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!portc02.blue.aol.com!newsfeed.pitt.edu!bb3.andrew.cmu.edu!honeysuckle!das-news2.harvard.edu!oitnews.harvard.edu!purdue!mozo.cc.purdue.edu!news From: flora@sage.cc.purdue.edu (Katie Clark) Newsgroups: bionet.software Subject: Daylength calculator Date: Fri, 05 Sep 1997 02:17:31 GMT Organization: Purdue University Lines: 25 Message-ID: <5unfsc$7ht@mozo.cc.purdue.edu> NNTP-Posting-Host: kmd.agry.purdue.edu X-Newsreader: Forte Free Agent 1.0.82 Recently a student was looking for the photoperiod which occurs in Crete. He is trying to grow a plant which is endemic in Crete, in a growth chamber, and wanted to mimic natural conditions. The long and short of it, is that we finally figured out that daylength is the same around the world if you're at the same latitude. So, after finding out what latitude Crete was at, using standard reference sources, we were ready to find out the daylength. I'm writing to tell you of a resource we found which calculates daylength, given the latitude: Jarmo's solar Calculator: http://www.netti.fi/~jjlammi//sun.html (the program is also available for download, as an excel file!) If you tell it your time zone, relative to Greenwich standard time, it will also give you the times for sundown and sunrise, for a given date. Katie Clark Life Sciences Library Purdue University West Lafayette IN From owner-software@net.bio.net Wed Sep 03 23:00:00 1997 Path: biosci!fcs280s.ncifcrf.gov!cpk-news-feed4.bbnplanet.com!cpk-news-feed1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!newsfeed1-hme1!newsfeed.internetmci.com!204.238.120.130!jump.net!grunt.dejanews.com!not-for-mail Date: Thu, 04 Sep 1997 08:41:34 -0600 From: uj442ar@sunmailhost.lrz-muenchen.de (Julia Krüger) Subject: Where can i get a program like BLAST? Newsgroups: bionet.software Message-ID: <873377951.5569@dejanews.com> Organization: Deja News Posting Service X-Article-Creation-Date: Thu Sep 04 12:59:11 1997 GMT X-Originating-IP-Addr: 131.159.0.51 (hpsystem5.informatik.tu-muenchen.de) proxy [1.0 wwwcache.leo.org:8009 (Squid/1.NOVM.15)] for client [141.84.66.5] X-Http-User-Agent: Mozilla/2.02 (Macintosh; I; 68K) X-Authenticated-Sender: uj442ar@sunmailhost.lrz-muenchen.de (Julia Krüger) Lines: 7 I am looking for a program that can act as a database for sequence (DNA+ protein) information, but that can also compare the data and look for similarities and identities. Is such a program available? -------------------==== Posted via Deja News ====----------------------- http://www.dejanews.com/ Search, Read, Post to Usenet From owner-software@net.bio.net Wed Sep 03 23:00:00 1997 Path: biosci!news.Stanford.EDU!su-news-hub1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!newsfeed1-hme1!newsfeed.internetmci.com!206.172.150.11!news1.bellglobal.com!sunqbc.risq.qc.ca!newsfeed.microtec.net!news3.sprint-canada.net!wolf.interlynx.net!not-for-mail From: "Lars Thomsen" Newsgroups: bionet.software Subject: Cbase...recipe program/chemical database.. Date: Mon, 1 Sep 1997 10:34:23 -0400 Organization: Interlynx Lines: 26 Message-ID: <5uejtj$iim$1@wolf.interlynx.net> NNTP-Posting-Host: port67.hm.interlynx.net X-Newsreader: Microsoft Outlook Express 4.71.1008.3 X-MimeOle: Produced By Microsoft MimeOLE Engine V4.71.1008.3 Take a look at the screenshots at : http://home.interlynx.net/~lthomsen/cbase.htm (you can also download the program as a selfexpanding file containing the setup) The program contains a recipe database and a chemical database, which are coupled together so that you can type e.g. the formula name and the program will perform a lookup and transfer the remaining info and make the approatiate calculations regarding your recipe. We use it in the lab....it works really good... The printouts are really nice and can be customized by clicking on second mouse button over the print button. The program supports unspecified units instead of normal MW. You can also use the chemical database to hold your stock solutions. Best Regards Lars PS. Im uploading the program right now so if its not availble then wait 20 minutes. From owner-software@net.bio.net Thu Sep 04 23:00:00 1997 Path: biosci!rutgers!nntp.upenn.edu!newsserver.jvnc.net!ganglia.bms.com!not-for-mail From: nathan@dna.bms.com (Nathan O. Siemers) Newsgroups: bionet.software Subject: Re: Btab for blast2 Date: 04 Sep 1997 21:37:35 -0400 Organization: Bristol-Myers Squibb Lines: 132 Message-ID: References: <5ulraa$6nv@not1.kazusa.or.jp> Reply-To: siemers@bms.com NNTP-Posting-Host: dna.bms.com X-Newsreader: Gnus v5.4.23/Emacs 19.34 ynakamu@kazusa.or.jp (Yasukazu Nakamura) writes: > Hi, > > Have anyone written Btab (like) program for BLAST2 output? > > Thanks in advance. > > Yaskaz > Just another Perl Hacker. Baby Perl, at that. nathan | Nathan Siemers - Department of Applied Genomics - Bristol-Myers | | Squibb Pharmaceutical Research Institute - K23-05, PO Box 4000, | | Princeton, NJ 08543-4000 - (609) 252-6568 - siemers@bms.com | blast22table.pl: #!/usr/local/bin/perl5 # blast22table.pl # make tab delimited table of blast2 results # Nathan Siemers # just to be nice: $intorecord = 0; $count = 0; $defcount = 0; $line = 0; while (<>) { # lines we wish were not there... if (/^SCORE_MISMATCH/) { next; } @words = split(" "); $line++; if ($line == 1) { $search = $words[0]; } if (/^Query=/){ $query = $words[1]; } if (/^ +\(.* letters\)/) { $words[0] =~ s/\(//; $querylength = $words[0]; $querylength =~ s/\,//g; } if (/^Database\:/) { $db = $words[1]; } if (/^ *Length =/) { if ($search eq "TBLASTN" || $search eq "BLASTX" || $search eq "BLASTN") { $lengthline = $intorecord; $scoreline = $lengthline + 4; $idline = $scoreline + 1; $qalignline = $idline + 2; $salignline = $qalignline + 2; } if ($search eq "BLASTP") { $lengthline = $intorecord; $scoreline = $lengthline + 2; $idline = $scoreline + 1; $qalignline = $idline + 2; $salignline = $qalignline + 2; } $hitgenelength[$count] = $words[2]; $hitgenelength[$count] =~ s/\,//g; } if ( $intorecord == $scoreline) { $score[$count] = $words[2]; $expect[$count] = $words[7]; $expect[$count] =~ s/\,//; } if ($intorecord == $idline) { $t = $words[2]; $t =~ s/.*\///g; $hitlength[$count] = $t; $t = $words[3]; $t =~ s/[\(\)\%\,]//g; $id[$count] = $t; $frame[$count] = $words[10]; } if ($intorecord == $qalignline) { $qstart[$count] = $words[1]; } if ($intorecord == $salignline) { $sstart[$count] = $words[1]; } #scan for first line of annotation if (/^\>/) { $intorecord = 1; $count++; $accession[$count] = $words[0]; $accession[$count] =~ s/^>//; shift @words; $description[$count] = join " ", @words; } $intorecord++ if ($intorecord); } # print the suckers out #ignore identical entries! for ($i = 1; $i <= $count; $i++) { if ($query ne $accession[$i]) { print "$query\t$querylength\t$search\t$db\t$accession[$i]\t", "$description[$i]\t$hitgenelength[$i]", "\t$frame[$i]\t$score[$i]\t$expect[$i]\t$id[$i]\t$hitlength[$i]\t$qstart[$i]\t$sstart[$i]\n"; } } From owner-software@net.bio.net Thu Sep 04 23:00:00 1997 Path: biosci!agate!howland.erols.net!feta.direct.ca!newsfeed.direct.ca!news.he.net!news.pagesat.net!news.itis.com!not-for-mail From: Petr Kuzmic Newsgroups: bionet.software Subject: Software available: Biochemical kinetics and equilibria Date: Fri, 05 Sep 1997 11:24:56 -0500 Organization: BioKin Consulting Lines: 51 Message-ID: <34103258.1753190B@biokin.com> NNTP-Posting-Host: j29.itis.com Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 4.01 [en] (Win95; I) X-Priority: 3 (Normal) _____________________________________________________ PUBLIC DOMAIN PROGRAM DYNAFIT AVAILABLE DynaFit is a program for simulation and least-squares fitting of biochemical kinetic data. The user enters the reaction mechanism symbolically, such as this: ; "Slow, tight" inhibition of HIV proteinase [mechanism] E + S <==> ES : k ks ES ---> E + P : kr E + I <==> EI : k1 k2 EI <==> EJ : k3 k4 The machine then derives the underlying system of differential equations (to compute the time-course of the reaction) or algebraic equations (to compute the composision at equilibrium). _____________________________________________________ TEST PROBLEMS The program should be downloaded along with a set of test examples, all of them based on real experimental mostly from biochemical kinetics, but the same methods can be used for other areas of chemistry and biology. _____________________________________________________ REVIEWS A reviewer had this to say about DynaFit: "If you do any kind of kinetic data analysis as part of your research program, be sure to download DynaFit from the BioKin Web site." (HMS Beagle Newsletter "Software Alert", volume 1997 No. 9). _____________________________________________________ LINKS http://www.biokin.com/ BioKin home http://www.biokin.com/dynafit/index.shtml ... DynaFit _____________________________________________________ REFERENCES P. Kuzmic (1996) Anal. Biochem. 237, 260-273. _____________________________________________________________ Petr Kuzmic Ph.D. * BioKin Ltd. * Madison, WI 53708-8336, USA pkuzmic@biokin.com * http://www.biokin.com * 608.256.1269 fax From owner-software@net.bio.net Thu Sep 04 23:00:00 1997 Path: biosci!agate!newsfeed.kornet.nm.kr!howland.erols.net!vixen.cso.uiuc.edu!news.indiana.edu!not-for-mail From: gilbertd@bio.indiana.edu (Don Gilbert) Newsgroups: bionet.software Subject: loopDloop, RNA secondary structure display editor [java version] update Date: 5 Sep 1997 00:29:31 GMT Organization: Biology, Indiana University - Bloomington Lines: 47 Message-ID: <5unjpb$ntv$1@dismay.ucs.indiana.edu> NNTP-Posting-Host: chipmunk.bio.indiana.edu loopDloop in Java an application for visualizing RNA secondary structure version 2.07b, August 1997 loopDloop is a tool for drawing RNA secondary structures in molecular biology. It reads files of biosequence data with base pairing information, and displays graphic views of the secondary structure. Options allow you to modify, adorn and edit the structure. Standard application functions to save, print, edit and manage preferences are included. This program will not produce base pairings needed for secondary structure. This software is available at ftp://iubio.bio.indiana.edu/molbio/loopdloop/java/ http://iubio.bio.indiana.edu/soft/molbio/loopdloop/java/ LoopDloop is now written as a Java application. This means that it will run on most personal computers and workstations as a standard program or application. The current release is lacking some features of prior Macintosh releases. Please read the installation instructions included in loopdloop-doc.html with the software. The current release takes some work to install, including perhaps a java runtime system for your computer. Java versions of other molecular biology applications built with the same framework are or will soon be updated : SeqPup - a biological sequence editor and analysis program Phylodendron - a phylogenetic tree drawing application FlyNapp - a FlyBase Drosophila database network application The Java language has several important aspects and some current drawbacks for biocomputing software. Please try some of these programs and let me know if you think these are going in the right direction. Developers will find the source code all these applications in the iubio:/molbio/java/source folders. The four current applications share about 60% code. This framework may make a useful basis for other biocomputing applications. -- -- d.gilbert--biocomputing--indiana u--bloomington--gilbertd@bio.indiana.edu From owner-software@net.bio.net Thu Sep 04 23:00:00 1997 Path: biosci!agate!newsgate.cuhk.edu.hk!logbridge.uoregon.edu!newsfeed1-hme1!newsfeed.internetmci.com!199.117.161.1!csn!nntp-xfer-1.csn.net!natasha.rmii.com!news1.rmi.net!not-for-mail From: richard_steinman@cmagroup.com Newsgroups: bionet.software,co.jobs,misc.jobs.offered,us.jobs.offered Subject: USA-CO; Boulder/Longmont; Software Engineer; C++, Signal Processing Date: 5 Sep 1997 20:46:16 GMT Organization: Career Marketing Associates Lines: 22 Message-ID: <5upr2o$2v4$1@news.rmi.net> NNTP-Posting-Host: 206.247.5.4 USA-CO; Boulder/Longmont; Software Engineer; C++, Signal Processing C, C++ programmer, signal processing, Windows/NT, GUI, convert low level Bio signals into data for PC presentaation. Brain waves, EEG, humans and animals. Real-time data acquisition. Nerve impulse recording. Would like lab experience-data analysis and reduction, familiar with instrumentation. New grad to 3 years experience. Small company-software engineers get the whole enchillada not just a small piece. Needs to be hungry and eager to learn. Really need C++, MFC, WIN32, Windows NT, 95 as well as somewhat of a scientific or engineering background. Please refer to JO# 2431JMS in your response. Richard Steinman Team Leader rjs@cmagroup.com IT & Software Solutions Team Career Marketing Associates http://www.cmagroup.com/IT.html From owner-software@net.bio.net Sat Sep 06 23:00:00 1997 From: planning@cyberpromo.com Subject: Insurance Update Newsgroups: bionet.software Organization: Advanced Planning Solutions NNTP-Posting-Host: 207.99.47.138 Message-ID: <341229b4.0@nntp1.nac.net> Date: 7 Sep 97 04:12:36 GMT Lines: 35 Path: biosci!agate!hammer.uoregon.edu!vixen.cso.uiuc.edu!news-peer.sprintlink.net!news.sprintlink.net!Sprint!news.maxwell.syr.edu!nac!nntp1.nac.net!207.99.47.138 The past year has seen a dramatic reduction in the cost of term life insurance from many quality companies. The San Fransisco Chronicle reported, "Price War Creates Consumer Bargains in Term Life Insurance," and the New York Times, "Premiums have fallen to record lows." You may not be aware that your life insurance company could now be charging new policyholders less than you are now paying for the same coverage. Your traditional life insurance agent has access to a small number of life insurance companies. Through the internet, you can compare rates to every other policy available. Our free price comparison service gives you access to over 550 term policies from over 175 life insurance companies. For a free comparison please go to: http://www.2plan.com/quote.htm From owner-software@net.bio.net Sat Sep 06 23:00:00 1997 Path: biosci!bloom-beacon.mit.edu!eru.mt.luth.se!news-ge.switch.ch!newscore.univie.ac.at!newsfeed.ecrc.net!news-feed1.eu.concert.net!news.worldonline.nl!not-for-mail From: "The Ghost" Newsgroups: bionet.software Subject: YOU'RE LOOKING FOR NEW SOFTWARE?? Date: 7 Sep 1997 06:43:08 GMT Organization: World Online Lines: 8 Message-ID: <01bcbb59$4df952c0$1f82f1c3@deghost> NNTP-Posting-Host: ldn1-p31.worldonline.nl X-Newsreader: Microsoft Internet News 4.70.1155 VISIT MY HOMEPAGE FOR THE NEW CD-ROM LIST CRAZY BITES THE LEGACY WINFILES WINZIP XFILES AND MUTCH MORE http://home.worldonline.nl/~deghost From owner-software@net.bio.net Sat Sep 06 23:00:00 1997 Path: biosci!agate!newsfeed.kornet.nm.kr!howland.erols.net!news.maxwell.syr.edu!eerie.fr!jussieu.fr!rain.fr!wanadoo.fr!not-for-mail From: Frederic Juge Newsgroups: bionet.software Subject: Dissection web site ? Date: Sun, 07 Sep 1997 11:00:38 +0200 Organization: IPS Lines: 15 Message-ID: <34126D36.669@wanadoo.fr> NNTP-Posting-Host: avi1-32.abo.wanadoo.fr Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 2.02E [fr]-NAVIGATEU (Win95; I) Hi, I'm french and my brother is making medecines studies. He asks me for a well known web site dedicated to dissection. In fact, the body of a prisonner sentenced to death, has been frozen and "cutted into slices". It is possible now to see all the parts of the body on a web site. Have you ever heard about this ? If yes, could you give me the URL ? Tnaks a lot. Forgiven my bad english. -------------------------------------------------------- Frederic JUGE Tarkus@Wanadoo.fr "There's nothing to try, You do it or you don't. Yoda.". -------------------------------------------------------- From owner-software@net.bio.net Sat Sep 06 23:00:00 1997 Path: biosci!agate!newsfeed.kornet.nm.kr!howland.erols.net!rill.news.pipex.net!pipex!tank.news.pipex.net!pipex!tcp.co.uk!not-for-mail From: crosley@tcp.co.uk Newsgroups: bionet.software Subject: Message for Dennison Moore Date: Sun, 07 Sep 97 10:38:02 PDT Organization: Total Connectivity Providers - Internet access for the UK Lines: 9 Message-ID: NNTP-Posting-Host: ak189.du.pipex.com Mime-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII X-Newsreader: NEWTNews & Chameleon -- TCP/IP for MS Windows from NetManage 7/Sep/97 Dear Dennison Moore, Thank you for your reply to my cry for help. Owing to a computer problem I have lost your email address. Please send so I can reply. John Shaw.  From owner-software@net.bio.net Sun Sep 07 23:00:00 1997 Path: biosci!agate!newsfeed.kornet.nm.kr!news-stock.gsl.net!news-dc.gsl.net!news.gsl.net!gip.net!duke.telepac.pt!news.telepac.pt!usenet From: "Joăo Pedro ( JAZIGO )" Newsgroups: bionet.software Subject: Wanted: Game Runner 3 Date: 8 Sep 1997 04:01:02 GMT Lines: 2 Message-ID: <01bcbc03$c7c48480$55e341c2@primax> NNTP-Posting-Host: 194.65.227.85 X-Newsreader: Microsoft Internet News 4.70.1155 CAN SOMEONE GET ME THE QUARTERDECK'S "GAME RUNNER 3" ??? answer to MOP12352@mail.telepac.pt From owner-software@net.bio.net Sun Sep 07 23:00:00 1997 Path: biosci!CCVAX.MMC.EDU!willia48 From: willia48@CCVAX.MMC.EDU Newsgroups: bionet.software Subject: Workshop Announcement Date: 8 Sep 1997 10:42:30 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 75 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net Workshop Announcement on Computer Applications in Neuroscience and Molecular Biology A workshop organized by Meharry Medical College will be held in Nashville, TN at Opryland Hotel, November 14-15, 1997 entitled, "Computers and the biological sciences" The workshop is intended to serve a broad audience of individuals, from advanced undergraduates to senior researchers wishing to incorporate new technologies into their research programs. Topics will range from approaches to database searching of protein sequences, and primary structure-function analyses to computational neuroscience, including modeling hippocampal function and studies of neural correlates of visual awareness. All individuals interested in potential uses of computer analyses in neuroscience and molecular biology are welcome. Applications for attendance are currently being solicited and early response is encouraged as the number of individuals who can participate will be limited in order to keep the workshop proceedings informal. In addition, there are a limited number of scholarships available to cover hotel and registration fees. A registration fee of $75 will be charged those not covered by scholarship. Speakers are listed below: Dr. George Wilcox, University of Minnesota Dr. Christian Halloy, University of Tennessee Dr. Neil Burgess, University College, London Dr. Apostostolos Georgopoulus, Minnesota Dr. Fabrizio Gabbiani, Cal Tech Dr. Stephen Altschul, NIH Dr. Barry Honig, Columbia University Dr. Temple Smith, Boston University In order to formally apply or for more information contact the Minority Biomedical Research Support (MBRS) Program at Meharry office at the following numbers: 615-327-6847 615-327-6179 (FAX) or address: MBRS Program Meharry Medical College 1005 DB Todd Blvd. Nashville, TN 37208 Alternatively, you may contact via e-mail either: Dr. Sanika Chirwa at chirwa83@ccvax.mmc.ed or Dr. Scott Williams at willia48@cccvax.mmc.edu Note applications should include a CV, a letter indicating your interest in this symposium and how it would benefit your career/educational program. Minorities are encouraged to apply. From owner-software@net.bio.net Sun Sep 07 23:00:00 1997 Path: biosci!agate!newsfeed.kornet.nm.kr!newsfeed.dacom.co.kr!logbridge.uoregon.edu!newsfeed.ecrc.net!newscore.univie.ac.at!news-ge.switch.ch!news.unige.ch!news From: grandcha@cmu.unige.ch (Kenneth Grandchamp) Newsgroups: bionet.software Subject: Scatchard Analysis and MacLigand and /or PC equivalent... Date: 8 Sep 1997 16:15:14 GMT Organization: Centre Medical Universitaire Lines: 13 Message-ID: <5v18ai$ltu@uni2f.unige.ch> NNTP-Posting-Host: 129.194.97.221 Mime-Version: 1.0 Content-Type: Text/Plain; charset=US-ASCII X-Newsreader: WinVN 0.99.6 Hello ! We would like to know if there is a modern version of MACLIGAND so as to do a SCATCHARD analysis. Does anyone know if there is a PC equivalent that allows the same analysis ? Thanks ! Ken. From owner-software@net.bio.net Sun Sep 07 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!europa.clark.net!205.252.116.205!howland.erols.net!news-peer.sprintlink.net!news-pull.sprintlink.net!news-in-east.sprintlink.net!news.sprintlink.net!Sprint!199.98.171.3!news.Sage.EDU!hopper!moored From: Dennison Moore Newsgroups: bionet.software Subject: Re: Message for Dennison Moore Date: Mon, 8 Sep 1997 17:28:18 -0400 Organization: The Sage Colleges Lines: 17 Message-ID: References: NNTP-Posting-Host: outpost.sage.edu Mime-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII In-Reply-To: Dear Mr. Shaw, this is Dennison Moore and my email address moored@sage.edu I hope the information was useful. On Sun, 7 Sep 1997 crosley@tcp.co.uk wrote: > > 7/Sep/97 > Dear Dennison Moore, Thank you for your reply to my cry > for > help. Owing to a computer problem I have lost your > email > address. Please send so I can reply. John Shaw. >  > > > From owner-software@net.bio.net Sun Sep 07 23:00:00 1997 Path: biosci!agate!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!news.voicenet.com!dsinc!nntp.upenn.edu!taurus.fccc.edu!sauder From: sauder@polaris.fccc.edu (John Michael Sauder) Newsgroups: bionet.software Subject: Re: Dissection web site ? Date: 8 Sep 1997 21:15:49 GMT Organization: Fox Chase Cancer Center, Philadelphia, PA Lines: 9 Message-ID: <5v1pu5$jil$1@taurus.fccc.edu> References: <34126D36.669@wanadoo.fr> NNTP-Posting-Host: polaris.fccc.edu In article <34126D36.669@wanadoo.fr> Frederic Juge writes: >Hi, > >I'm french and my brother is making medecines studies. He asks me for a >well known web site dedicated to dissection. In fact, the body of a >prisonner sentenced to death, has been frozen and "cutted into slices". > Tarkus@Wanadoo.fr http://www.nlm.nih.gov/research/visible/visible_human.html From owner-software@net.bio.net Sun Sep 07 23:00:00 1997 Path: biosci!agate!newsfeed.kornet.nm.kr!nntp.kreonet.re.kr!xfer.kren.nm.kr!news.maxwell.syr.edu!howland.erols.net!vixen.cso.uiuc.edu!news.indiana.edu!not-for-mail From: "Joseph A. Near" Newsgroups: bionet.software Subject: Re: Scatchard Analysis and MacLigand and /or PC equivalent... Date: Mon, 08 Sep 1997 13:52:56 -0500 Organization: Indiana University Lines: 22 Message-ID: <34144988.10F7@indiana.edu> References: <5v18ai$ltu@uni2f.unige.ch> NNTP-Posting-Host: wart.medsci.indiana.edu Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01Gold (Win95; I) Is this the program adapted by G.A.McPherson from LIGAND? If so, there is a PC equivalent. Kind of quirky but it works OK. Latest version I have is about 7 years old, runs in W95, published by BIOSOFT, 68 Hills Rd., Cambridge CB2 1LA, UK. I get junk mail from them every once in a while, but always throw it away so can't give you a current address. Joe Near Kenneth Grandchamp wrote: > > Hello ! > > We would like to know if there is a modern version of > MACLIGAND so as to do a SCATCHARD analysis. > > Does anyone know if there is a PC equivalent that allows > the same analysis ? > > Thanks ! > > Ken. From owner-software@net.bio.net Sun Sep 07 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!europa.clark.net!199.60.229.5!feta.direct.ca!newsfeed.direct.ca!news1.chicago.cic.net!iagnet.net!newsspool.doit.wisc.edu!news.itis.com!not-for-mail From: Petr Kuzmic Newsgroups: bionet.software Subject: Re: Scatchard Analysis and MacLigand and /or PC equivalent... Date: Mon, 08 Sep 1997 12:35:20 -0500 Organization: BioKin Consulting Lines: 49 Message-ID: <34143758.A5BF2016@biokin.com> References: <5v18ai$ltu@uni2f.unige.ch> NNTP-Posting-Host: wa3.itis.com Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 4.01 [en] (Win95; I) X-Priority: 3 (Normal) Kenneth Grandchamp wrote: > We would like to know if there is a modern version of > MACLIGAND so as to do a SCATCHARD analysis. > > Does anyone know if there is a PC equivalent that allows > the same analysis ? Equilibrium binding data following any arbitrary mechanism (stoichiometry) can be analyzed by using the program DYNAFIT [P. Kuzmic (1996) Anal. Biochem. 237, 260-273]. The program is available as a freeware from BioKin Consulting. An example problem distributed with DYNAFIT describes the binding of a trimeric protein P (the enzyme nuclease) to DNA at two different sites. The analysis is performed by using a 'script' file, where the binding mechanism is described as follows: [mechanism] P + P + P <=> T : K(tri) equil T + D <==> TD : K(1) equil TD + T <==> T2D : K(2) equil The machine then automatically constructs the mathematical model for the bindind data and gives back the best-fit values of the equilibrium constants (here, K(tri), K(1), and K(2). Another relevant example describes two-site cooperative binding in the presence of non-specific interactions: [mechanism] L + R <==> LR : K1 equil L + LR <==> L2R : K2 equil L + N <==> LN : Kn equil ; nonspecific! The program runs on the PC, Macintosh, and several Unix platforms. LINKS: http://www.biokin.com/ http://www.biokin.com/dynafit/index.shtml http://www.biokin.com/dynafit/tutorial/nuclease.shtml http://www.biokin.com/dynafit/tutorial/nonspec.shtml ------------------------+------------------------ Petr Kuzmic, Ph.D. | (608) 256-4790 BioKin Consulting | fax (708) 256-1269 P.O. Box 8336 | pkuzmic@biokin.com Madison WI 53708 | http://www.biokin.com ------------------------+------------------------ From owner-software@net.bio.net Sun Sep 07 23:00:00 1997 Path: biosci!agate!hammer.uoregon.edu!vixen.cso.uiuc.edu!newsfeed1-hme1!newsfeed.internetmci.com!128.230.129.106!news.maxwell.syr.edu!pumpkin.pangea.ca!news.mira.net.au!news.netspace.net.au!news.mel.connect.com.au!news.per.connect.com.au!news.wantree.com.au!NewsWatcher!user From: csf@curtinfurn.com.au (Heath) Newsgroups: bionet.software Subject: Now Up-to-Date & Contact Date: Mon, 08 Sep 1997 16:41:49 +0800 Organization: Curtin System Furniture Lines: 4 Message-ID: NNTP-Posting-Host: 203.33.199.158 We are looking to talk to someone who has used Now Up-to-Date & Contact Organiser program. Please email Heath at: csf@curtinfurn.com.au From owner-software@net.bio.net Mon Sep 08 23:00:00 1997 Newsgroups: bionet.software Path: biosci!daresbury!server5.netnews.ja.net!nntp.news.xara.net!xara.net!newsfeed.nacamar.de!feta.direct.ca!newsfeed.direct.ca!newsfeed1-hme1!newsfeed.internetmci.com!131.187.1.131!malgudi.oar.net!picker!news From: Sue Simon Subject: OH/CLEV Product Line Manager Content-Type: text/plain; charset=us-ascii Message-ID: <34159815.5B99@xray.picker.com> Sender: news@picker.com Nntp-Posting-Host: 144.54.95.187 Content-Transfer-Encoding: 7bit Organization: Picker International Mime-Version: 1.0 Date: Tue, 9 Sep 1997 18:40:21 GMT X-Mailer: Mozilla 3.0 (Win95; I) Lines: 26 PRODUCT LINE, BUSINESS DEVELOPMENT MANAGERS (Surgical): Identify and develop business opportunities for global product portfolio in surgical and/or special procedures. Lead the product marketing process including pricing & margin plans, marketing & business plans, and tracking clinical applications. Provide confident and effective leadership to cross functional teams through the entire product development life cycle. BS with MBA preferred with 5-8 years of product management and business marketing/development experience in a high technology (preferably surgical/medical). Proven success at market planning and launching new products into highly competitive, economically-challenged markets. Highly effective communication skills required with 20% travel anticipated. PICKER INTERNATIONAL provides the worldwide medical community with cutting-edge X-ray equipment that allow specialists the insight to save and change lives for the better. Situated in Solon, OH, our X-ray Division specializes in the research, design, development and manufacture of premium X-ray equipment. We are an Affirmative Action/Equal Opportunity employer and comply with the Drug Free Workplace Act. Contact: (above named person) Picker International, X-ray Division HR, 595 Miner Road, Highland Hts, OH, 44143. FAX: (216) 473-2624. E-Mail: ggeorge@xray.picker.com SEE OUR CORPORATE / PRODUCT WEB SITE: http://www.picker.com/ SEE OUR NEW CAREER WEB SITE: http://www.pickerct.com/careers/ From owner-software@net.bio.net Mon Sep 08 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!news-spur1.maxwell.syr.edu!news.maxwell.syr.edu!newsfeed.nacamar.de!newscore.univie.ac.at!03-newsfeed.univie.ac.at!news.uibk.ac.at!not-for-mail From: Stefan Andreatta Newsgroups: bionet.software Subject: simulation program for finding prey in 3D-space ??? Date: Tue, 09 Sep 1997 10:15:24 +0200 Organization: University of Innsbruck Lines: 12 Message-ID: <3415059C.EC726574@uibk.ac.at> NNTP-Posting-Host: pc60-c719.uibk.ac.at Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 4.01 [en] (WinNT; I) X-Priority: 3 (Normal) We are working on the problem of how flagellates are able to find their bacterial prey in the open water. So we would need a program that lets us model the encounter between particles of different size in a 3d-space. Has anyone come across such a program, programmed some costume solution that would be available or knows some environment that would be particular apt to solve this problem? Thanks for any suggestions ____________________________________ Stefan Andreatta University of Innsbruck, Austria Department of Zoology and Limnology From owner-software@net.bio.net Mon Sep 08 23:00:00 1997 Path: biosci!daresbury!uninett.no!sn.no!Norway.EU.net!EU.net!news-peer.sprintlink.net!news-sea-19.sprintlink.net!news-in-west.sprintlink.net!news.sprintlink.net!Sprint!199.0.65.142!news-feed1.tiac.net!cam-news-hub1.bbnplanet.com!cam-news-feed1.bbnplanet.com!news.bbnplanet.com!cocoa.brown.edu!news From: Pascal_Bochet@brown.edu (Pascal_Bochet) Newsgroups: bionet.software Subject: Laptop remote Date: 9 Sep 1997 14:19:15 GMT Organization: Brown University, Providence, RI -- USA Lines: 10 Message-ID: <5v3lt3$dtt@cocoa.brown.edu> NNTP-Posting-Host: 128.148.153.60 Mime-Version: 1.0 Content-Type: Text/Plain; charset=US-ASCII X-Newsreader: WinVN 0.99.7 Hello This is probably not the most appropriate news group but I have the strong feeling that bionet is my corner of the wood. Does anyone know if it is possible to turn a normal computer into a remote controle for TV and VCR using the infra red port? Are there any program to do that ? Thank you for any help. Pascal_Bochet@brown.edu From owner-software@net.bio.net Mon Sep 08 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!europa.clark.net!4.1.16.34!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!baron.netcom.net.uk!netcom.net.uk!server3.netnews.ja.net!news.ox.ac.uk!worf.molbiol.ox.ac.uk!rgrant From: rgrant@see.sig.for.address (Richard P Grant) Newsgroups: bionet.general,bionet.software Subject: Blue/Greybox Fonts Date: 9 Sep 1997 08:45:28 GMT Organization: Oxford University Lines: 16 Message-ID: <5v32b8$ps9$1@news.ox.ac.uk> NNTP-Posting-Host: worf.molbiol.ox.ac.uk Keywords: Fonts for aa display X-Newsreader: TIN [version 1.2 PL2] Xref: biosci bionet.general:28062 bionet.software:19456 A while ago someone announced 3 Mac font suitcases, called Bluebox, Greybox and Blueline for displaying similar amino acids. Now, for some reason, the set I've got on an LC won't display on a PPC, and I'd like to get hold of the originals. Stupidly, I've lost the original post/refernce/URL. Please point me in the right direction. Thanks, Richard -- Richard P. Grant MA DPhil University of Oxford | rgrant@molbiol http://www.molbiol.ox.ac.uk/~rgrant FFPGP | ox ac uk ------# 'At this time we are currently boarding...' - heard at JFK #------ From owner-software@net.bio.net Mon Sep 08 23:00:00 1997 Path: biosci!fcs280s.ncifcrf.gov!cpk-news-feed4.bbnplanet.com!cpk-news-feed1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!su-news-hub1.bbnplanet.com!news.bbnplanet.com!nntp2.crl.com!news7.crl.com!news.west-tech.com!clark.a33.smsu.edu From: info@pagrs.com Newsgroups: bionet.software Subject: FREE MOTOROLA PAGERS & SEIKO WATCHES! Date: 9 Sep 97 04:06:02 GMT Organization: DS Lines: 38 Message-ID: <3414cb2a.0@news.west-tech.com> NNTP-Posting-Host: 165.113.201.24 ******************************************************** FREE MOTOROLA PAGERS OR SEIKO MESSAGE WATCH!!! CALL 1-800-784-6452 CERTIFICATE #4248000 NO CREDIT CHECKS NO CONTRACTS NO HASSLE MANY TO CHOOSE FROM! $80-$150 VALUE! Sign activation required after month is up you cancel and KEEP THE PAGER!! ****************CALL 1-800-784-6452 CERTIFICATE #4248000************** *****Motorola Pronto Flex***** Motorola Express Extra Flex -16 number mem, clock, vibration, time stamps, and many colors avail!! *****Seiko Message Watch***** -buitl in pager, weather,sports,stocks,lotto,ski, and other info!! time zone correction and many other features!! *****Motorola Email Pager***** -instant email from ANY ISP!! Has own email address and telepone number,Tons more features! *****NEW Motoroal Voice Mail Pager***** -instant voice mail messages! Up to 4 minutes recording time! Has full features of a answering machine! 10 volume setting and tons other features! MANY OTHERS TO CHOSE FROM JUST ASK!!! ******************CALL 1-800-784-6452 CERTIFICATE #4248000************* From owner-software@net.bio.net Mon Sep 08 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!europa.clark.net!4.1.16.34!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!mindspring!news.mindspring.com!usenet From: expomed@mindspring.com (&&&&) Newsgroups: bionet.software Subject: Not Another Visible Human Project Web Site Date: 9 Sep 1997 00:50:41 GMT Organization: Expomed Inc. Lines: 38 Message-ID: <5v26h1$qn0@camel15.mindspring.com> NNTP-Posting-Host: ip3.akron.oh.pub-ip.psi.net Mime-Version: 1.0 X-Newsreader: WinVN 0.93.14 We would like to announce a new web site based on the National Library of Medicine's Visible Human Project. The site is VisualMan.Com- http://www.visualman.com/index.htm. There is a demo of the Data Express Visual Man CD in which you can click on a portion of the body and see the corresponding image. The demo will enable you to view images from head to foot. Over time we will be adding a "Gallery" section for some of the other software titles based on the NLM VHP. Images will be added for titles from Gold Standard Multimedia and Research Systems Inc. AND NOW FOR THE SITE OF THE MONTH. The site of the month is a search engine I find very useful. It is called Inference Find and is located at the following URL- http://www.inference.com/ifind/. As it says on the site- "Inference Find is the first and only search toll that calls out in parallel all the best search engines on the internet, merges the results, removes redundancies, and clusters the results into neat understandable groupings". The site queries WebCrawler, Yahoo, Lycos, Altavista, Infoseek, and Excite. I did a search for the term "medical ethics" and the search returned some great sites, very nicely catagorized. Expomed is not connected in any way with this site. Thanks -- *>*>*>*>*>*>*>*>*>*>*>*>*> <*<*<*<*<*<*<*<*<*<*<*<*<*<* Martin Thomas, expomed@mindspring.com http://www.expomed.com/ http://www.visualman.com/ Join our discussion on medical ethics with The Doctor's Dilemma, Essentials of Medical Ethics CD-ROM at: http://www.expomed.com/ethics.htm For a free DOS catalog send email with a mailing address. <><><><><><><>E<>X<>P<>O<>M<>E<>D<><>I<>N<>C<><><><><><><><> From owner-software@net.bio.net Tue Sep 09 23:00:00 1997 Path: biosci!fcs280s.ncifcrf.gov!cpk-news-feed4.bbnplanet.com!cpk-news-feed1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!howland.erols.net!netnews.com!news2.euro.net!news.euro.net!usenet From: mbleeker@euronet.nl (Marco Bleeker) Newsgroups: bionet.software Subject: Desirable Attributes of Ecological Software Date: 10 Sep 1997 00:17:16 GMT Organization: EuroNet Internet Lines: 14 Message-ID: <3415e644.9662233@news.euro.net> NNTP-Posting-Host: p615.asd.euronet.nl X-Newsreader: Forte Free Agent 1.1/32.230 "Desirable Attributes of Ecological Software" is the title of a "paper" I have put on-line at the following URL: http://www.euronet.nl/users/mbleeker/prog/ecoatt-e.html This checklist of desirable attributes might be of use to programmers and reviewers of eco-software, as well as future users. The document has been discussed in our small workgroup in Holland, further contributions are welcome. Thanks, Marco -- ------------------ --- ------------------------------ From owner-software@net.bio.net Tue Sep 09 23:00:00 1997 Path: biosci!bloom-beacon.mit.edu!eru.mt.luth.se!news-ge.switch.ch!news-kar1.dfn.de!newsfeed.nacamar.de!oleane!jussieu.fr!moka.ccr.jussieu.fr!not-for-mail From: ptitjean@ccr.jussieu.fr (Michel PETITJEAN) Newsgroups: bionet.software,bionet.molec-model Subject: protein / predicting 3D-structure perturbation Date: 10 Sep 1997 15:49:29 +0200 Organization: CCR - Universites Paris VI/VII - Paris - France Lines: 9 Message-ID: <5v68h9$1scm@moka.ccr.jussieu.fr> NNTP-Posting-Host: moka.ccr.jussieu.fr Mime-Version: 1.0 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: 8bit Xref: biosci bionet.software:19464 bionet.molec-model:1785 I have the x,y,z coordinates of a protein in PDB format. One of the residues has an H-bonding with the rest of the protein. Now I replace this residue with an other one which offers no H-bonding. How can I predict the perturbations induced on the 3D-structure ? Is there softwares for that (free or not) ? Thanks. Michel Petitjean, Email: petitjean@itodys.jussieu.fr ITODYS (CNRS, URA34) ptitjean@ccr.jussieu.fr From owner-software@net.bio.net Tue Sep 09 23:00:00 1997 Path: biosci!agate!howland.erols.net!news-peer.sprintlink.net!news-sea-19.sprintlink.net!news-in-west.sprintlink.net!news.sprintlink.net!Sprint!169.197.1.4!news.azstarnet.com!dialup04ip01.tus.azstarnet.com!user From: jacobs@azstarnet.com (John S Jacobs Anderson) Newsgroups: bionet.software Subject: Re: Good C compiler for Mac? Date: Wed, 10 Sep 1997 07:28:30 -0700 Organization: Starnet Lines: 20 Distribution: world Message-ID: References: <34165531.566D@interlog.com> NNTP-Posting-Host: dialup04ip01.tus.azstarnet.com X-Newsreader: MT-NewsWatcher 2.3.1 In article <34165531.566D@interlog.com>, oxidizer@INTERLOG.COM wrote: >As part of a fourth-year undergraduate reserach project, I need to >program a population genetic simulation. I'm looking for a good C >compiler for a PowerMac; any suggestions? One word: CodeWarrior. More options than you can shake a stick at, and probably more than you need. You should be able to get a good price (academically). As far as I know (and I looked _hard_ about 9-12 months ago) there aren't any _good_ (ie useable) free C compliers for the Mac. Good Luck John -------------------------------------------------------------------- John S. J. Anderson http://www.azstarnet.com/~jacobs Grad Student, MCB Depšt, U. of Az. mailto:jacobs@azstarnet.com "You want some? ... HUH?" - [Army of Darkness]. From owner-software@net.bio.net Tue Sep 09 23:00:00 1997 Path: biosci!agate!newsfeed.kornet.nm.kr!howland.erols.net!feed1.news.erols.com!winter.news.erols.com!news From: Chris Baba Newsgroups: bionet.software Subject: Great Shareware for the lab! Date: Tue, 09 Sep 1997 22:42:29 -0400 Organization: Erol's Internet Services Lines: 13 Message-ID: <34160914.58D8@erols.com> Reply-To: cbaba@erols.com NNTP-Posting-Host: dam-as8s02.erols.com Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Received-On: 10 Sep 1997 02:43:07 GMT X-Mailer: Mozilla 3.0Gold (Win95; I) If you work in a lab as I do, you should try out the Chemical Calculator program which I wrote. Chemical Calculator (tm) is a shareware program designed for chemists, biologists and other scientific professionals. Its main purpose is to perform the calculations involved in the calculation of the amount of reagent to use when mixing up solutions. Chemical Calculator is a shareware program. You can use a fully functional version for 90 days and if you like it you can register it for $30.00. If you don't register Chemical Calculator you can still use a slightly disabled version for free after the 90 day trial period. Requires Windows 3.1 or later. More information is available on the Chemical Calculator Web Site: "http://www.erols.com/cbaba". The program can also be downloaded from there. From owner-software@net.bio.net Tue Sep 09 23:00:00 1997 Path: biosci!fcs280s.ncifcrf.gov!cpk-news-feed4.bbnplanet.com!cpk-news-feed1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!howland.erols.net!vixen.cso.uiuc.edu!news.indiana.edu!not-for-mail From: gilbertd@bio.indiana.edu (Don Gilbert) Newsgroups: bionet.software Subject: Re: Good C compiler for Mac? Date: 10 Sep 1997 19:16:48 GMT Organization: Biology, Indiana University - Bloomington Lines: 17 Message-ID: <5v6rn0$opu$1@dismay.ucs.indiana.edu> References: <34165531.566D@interlog.com> NNTP-Posting-Host: chipmunk.bio.indiana.edu Check w/ your campus bookstore or other edu software vendor. Metrowerks Codewarrior is the best, and a full professional programming package, including C, C++, Pascal, Java and probably other compilers; including MacOS and MSWin dev environs (at least my copy had both); with an academic price still around $120 (used to be $99). Metrowerks does make a special student edition; I haven't seen it or its price, except is it under $100 in cost. See http://www.metrowerks.com/ if your campus stores haven't got it. -- Don -- -- d.gilbert--biocomputing--indiana u--bloomington--gilbertd@bio.indiana.edu From owner-software@net.bio.net Tue Sep 09 23:00:00 1997 Path: biosci!CORIN.NLM.NIH.GOV!madden From: madden@CORIN.NLM.NIH.GOV (Tom Madden) Newsgroups: bionet.software Subject: New NCBI toolkit and BLAST 2.0 release Date: 10 Sep 1997 10:39:39 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 108 Sender: daemon@net.bio.net Distribution: world Message-ID: <199709101739.NAA03419@corin.nlm.nih.gov> NNTP-Posting-Host: net.bio.net A new release of the NCBI toolkit as well as BLAST 2.0.2 binaries are now available from the NCBI FTP Site (ncbi.nlm.nih.gov). The toolkit archive contains source code to compile BLAST 2.0.2 as well as a small number of incremental changes in the ASN.1 specification. Toolkit archives may be found under 'toolbox/ncbi_tools'. BLAST binaries may be found under 'blast/executables'. BLAST 2.0 - BLAST 2.0 can produce gapped alignments and is capable of position-specific-iterated BLASTp (PSI-BLAST). Compared to the 1.4 release of BLAST, there are also signficant performance enhancements as well as extensive changes to the text report and the format of the databases. BLAST 2.0 uses threads for multi-processing, using the NCBI threads library. Three BLAST programs may be compiled in the demo of the toolbox or obtained from the 'blast/executables' directory. They are: formatdb: formats FASTA files as BLAST databases for BLAST 2.0. blastall: perform all five flavors of blast comparison. blastn and blastp offer fully gapped alignments. blastx and tblastn have 'in-frame' gapped alignments and use sum statistics to link alignments from different frames. tblastx provides only ungapped alignments. blastpgp: performs gapped blastp searches and can be used to perform iterative searches in psi-blast mode. Additional information may be obtained from the README in the BLAST directory of the FTP site and from the NCBI BLAST pages. ASN.1 Spec Changes for 1997 biblio.asn Cit-pat - some fields made optional to allow patent applications to be legal Cit-pat.number OPTIONAL Cit-pat.date-issue OPTIONAL -- Patent number and date-issue were made optional in 1997 to -- support patent applications being issued from the USPTO -- Semantically a Cit-pat must have either a patent number or -- an application number (or both) to be valid medline.asn added ML-field to support other MEDLINE line types added Medline-entry.status added gdb as a valid Medline-si type Medline-entry ::= SEQUENCE { uid INTEGER OPTIONAL , -- MEDLINE UID, sometimes not yet available if from PubMed em Date , -- Entry Month cit Cit-art , -- article citation abstract VisibleString OPTIONAL , mesh SET OF Medline-mesh OPTIONAL , substance SET OF Medline-rn OPTIONAL , xref SET OF Medline-si OPTIONAL , idnum SET OF VisibleString OPTIONAL , -- ID Number (grants, contracts) gene SET OF VisibleString OPTIONAL , pmid PubMedId OPTIONAL , -- MEDLINE records may include the PubMedId pub-type SET OF VisibleString OPTIONAL, -- may show publication types (review, etc) mlfield SET OF Medline-field OPTIONAL , -- additional Medline field types status INTEGER { publisher (1) , -- record as supplied by publisher premedline (2) , -- premedline record medline (3) } DEFAULT medline } -- regular medline record Medline-field ::= SEQUENCE { type INTEGER { -- Keyed type other (0) , -- look in line code comment (1) , -- comment line erratum (2) } , -- retracted, corrected, etc str VisibleString , -- the text ids SEQUENCE OF DocRef OPTIONAL } -- pointers relevant to this text DocRef ::= SEQUENCE { -- reference to a document type INTEGER { medline (1) , pubmed (2) , ncbigi (3) } , uid INTEGER } seq.asn MolInfo.tech - added names for HTG classes already implemented Annotdesc.region - added seqloc. If present, all annots in this SeqAnnot are within this region. Optimization on big seqs. seqfeat.asn added OrgMod.specimen-voucher - new organism qualifier added OrgMod.old-name - used internally at NCBI added BioSource.is-focus - for distinguishing biological focus of multiple source features. added Seq-feat.pseudo so any feature can be flagged explicitly as belonging to a pseudogene added Seq-feat.except-text for an explanation of the exception when Seq-feat.except is TRUE. Currently this text is in Seq-feat.comment in backbone records and GBQuals in some other genbank records. From owner-software@net.bio.net Tue Sep 09 23:00:00 1997 Path: biosci!fcs280s.ncifcrf.gov!cpk-news-feed4.bbnplanet.com!cpk-news-feed1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!newsfeed.internetmci.com!newsfeed.internetmci.com!192.220.251.22!netnews.nwnet.net!news-hub.interserv.net!news.sprynet.com!not-for-mail From: Ambal MD Newsgroups: bionet.software Subject: Neural network software Date: Wed, 10 Sep 1997 17:19:44 -0500 Organization: UAB Lines: 10 Message-ID: <34171CFF.5E11BD92@sprynet.com> Reply-To: ambal@sprynet.com NNTP-Posting-Host: hd37-245.hil.compuserve.com Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 4.01 [en] (Win95; I) X-Priority: 3 (Normal) Hi Everyone! Does anyone know a good source of neural network software that can be easily adapted for biological data and forecasting? -- Ambal MD UAB Birmingham, AL http://home.sprynet.com/sprynet/ambal From owner-software@net.bio.net Tue Sep 09 23:00:00 1997 Path: biosci!INTERLOG.COM!oxidizer From: oxidizer@INTERLOG.COM Newsgroups: bionet.software Subject: Good C compiler for Mac? Date: 10 Sep 1997 00:05:49 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 3 Sender: daemon@net.bio.net Distribution: world Message-ID: <34165531.566D@interlog.com> NNTP-Posting-Host: net.bio.net As part of a fourth-year undergraduate reserach project, I need to program a population genetic simulation. I'm looking for a good C compiler for a PowerMac; any suggestions? From owner-software@net.bio.net Wed Sep 10 23:00:00 1997 Path: biosci!U.WASHINGTON.EDU!egn From: egn@U.WASHINGTON.EDU ("E. Kolker") Newsgroups: bionet.software Subject: (none) Date: 10 Sep 1997 20:28:43 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 202 Sender: daemon@net.bio.net Distribution: world Message-ID: <199709110328.UAA31109@saul7.u.washington.edu> NNTP-Posting-Host: net.bio.net CALL FOR PAPERS SECOND ANNUAL INTERNATIONAL CONFERENCE ON COMPUTATIONAL MOLECULAR BIOLOGY (RECOMB 98) March 22 - 25, 1998 New York City Sponsored by Association for Computing Machinery SIGACT with support from SLOAN Foundation US Department of Energy http://www.mssm.edu/biomath/recomb98.html The Second Annual Conference on Research in Computational Molecular Biology (RECOMB 98), sponsored by the Association for Computing Machinery Special Interest Group on Algorithms and Computation Theory (ACM-SIGACT) with support from the SLOAN Foundation, and US Department of Energy will be held in New York City, March 22 - 25, 1998. Papers reporting on original research (both theoretical and experimental) in all areas of computational molecular biology are sought, including surveys of important recent results/directions. Typical but not exclusive topics of interest include: - Genomics - Molecular sequence analysis - Recognition of genes and regulatory elements - Molecular evolution - Protein structure - Combinatorial libraries and drug design ABSTRACT SUBMISSION: Authors are requested to send 10 copies (preferably two sided copies) of a detailed extended abstract (5-10 pages) to: Professor Pavel Pevzner RECOMB 98 Program Chair University of Southern California Department of Mathematics, DRB 155 Los Angeles, CA 90089-1113 An abstract must be received by October 20, 1997. This is a firm deadline. Simultaneous submission to another conference or journal is allowed. CONFERENCE PROCEEDINGS: The extended abstracts for the Conference will be published by ACM Press and will be available at the Conference. A selection of the accepted extended abstracts in their final journal versions will be invited to appear in a special issue of the Journal of Computational Biology devoted to RECOMB 98. NOTIFICATION: The conference submissions will be refereed by the program committee. Authors will be notified of acceptance or rejection by a letter mailed on or before December 15, 1997. A final copy of each accepted paper is required by January 10, 1997. An author of each accepted paper is expected to attend the Symposium and present the paper; otherwise alternative arrangements should be made to have the paper presented. ABSTRACT PREPARATION: An abstract should start with a succinct statement of the problem, the results achieved, their significance and a comparison with previous work. This material should be understandable to nonspecialists. A technical exposition directed to the specialist should follow. The length, excluding cover page and bibliography, should not exceed 10 pages. The manuscript should be easy to read, preferably using 11 point font size on U.S. standard 8 1/2 by 11 inch paper. If authors believe that more details are necessary to substantiate the claims of the paper, they may include a clearly marked appendix. An E-mail address for the contact author should be included. INVITED SPEAKERS: Charles Cantor (Boston University) Thomas Caskey (Merck) David Cox (Stanford University) Ron Davis (Stanford University) Klaus Gubernator (CombiChem) Joshua Lederberg (Rockfeller University) Michael Levitt (Stanford University) David Schwartz (New York University) John Yates (University of Washington) CONFERENCE EVENTS RECOMB 98 will feature 9 invited lectures including the following conference events: THE STANISLAW ULAM MEMORIAL COMPUTATIONAL BIOLOGY ADDRESS awarded by RECOMB to a scientist who has made major contributions in the computational aspects of the field. Professor Joshua Lederberg of Rockfeller University will deliver the Statislav Ulam Memorial Computational Biology Address. THE DISTINGUISHED BIOLOGY LECTURE awarded by RECOMB to a scientist who has made major contributions in the biological aspects of the field. Professor Ron Davis of Stanford University will deliver the Distinguished Biology Lecture. THE DISTINGUISHED NEW TECHNOLOGIES LECTURE describing emerging, new technologies. Professor David Cox of Stanford University will deliver the Distinguished New Technologies Lecture. BEST PAPER BY A YOUNG SCIENTIST AWARD. This award will be given to the best paper written solely by one or more recent graduates or students. An abstract is eligible if all authors are recent graduates (within 2 years from Ph.D.) or full-time students at the time of submission. This should be indicated in the submission letter. The program committee may decline to make the award or may split it among several papers. STEERING COMMITTEE: Sorin Istrail, RECOMB General Vice-Chair (Sandia National Laboratories) Richard Karp (University of Washington) Thomas Lengauer (GMD-SCAI, Germany) Pavel Pevzner, RECOMB General Chair (University of Southern California) Ron Shamir (Tel-Aviv University, Israel) Michael Waterman, RECOMB General Chair (University of Southern California) PROGRAM COMMITTEE: Craig Benham (Mount Sinai School of Medicine) Gary Benson (Mount Sinai School of Medicine) Bonnie Berger (MIT) Martin Farach (Rutgers University) Phil Green (University of Washington) Dan Gusfield (University of California Davis) David Haussler (University of California Santa Cruz) Sorin Istrail (Sandia National Laboratories) Richard Karp (University of Washington) Minoru Kanehisa (Kyoto University, Japan) Eugene Koonin (National Center for Biotechnology Information) Thomas Lengauer (GMD-SCAI, Germany) Webb Miller (Pennsylvania State University) Gene Myers (University of Arizona) Pavel Pevzner, Program Committee Chair (University of Southern California) David Searls (SmithKline Beecham) Ron Shamir (Tel-Aviv University, Israel) Terry Speed (University of California Berkeley) Martin Vingron (German Cancer Center) Michael Waterman (University of Southern California) ORGANIZING COMMITTEE: Craig Benham (Mount Sinai School of Medicine) Gary Benson, Conference Chair (Mount Sinai School of Medicine) Martin Farach (Rutgers University) Eugene Kolker, Publicity Chair (University of Washington) Information about local arrangements can be obtained by consulting the conference web page http://www.mssm.edu/biomath/recomb98.html or from the Conference Chair: Professor Gary Benson Department of Biomathematical Sciences Box 1023 The Mount Sinai Medical Center One Gustave L. Levy Place New York, NY 10029-6574 (212) 241-5777 phone (212) 860-4630 fax benson@ecology.biomath.mssm.edu -------------------------------------------------------------------- Eugene Kolker Dept of Molecular Biotechnology, Box 357730 Tel: +1-206-685-6941 University of Washington School of Medicine Fax: +1-206-685-7301 Seattle, WA 98195-7730, USA egn@u.washington.edu NEW (!) WEB: http://bozeman.genome.washington.edu/~eugene From owner-software@net.bio.net Wed Sep 10 23:00:00 1997 Path: biosci!rutgers!nntp.upenn.edu!news.misty.com!www.nntp.primenet.com!globalcenter1!news.primenet.com!nntp.primenet.com!howland.erols.net!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!newsfeeds.sol.net!news.pagesat.net!news.itis.com!not-for-mail From: Petr Kuzmic Newsgroups: bionet.software Subject: Re: Good C compiler for Mac? Date: Thu, 11 Sep 1997 08:06:17 -0500 Organization: BioKin Consulting Lines: 19 Message-ID: <3417ECC9.74518DE8@biokin.com> References: <34165531.566D@interlog.com> NNTP-Posting-Host: q7.itis.com Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 4.01 [en] (Win95; I) X-Priority: 3 (Normal) oxidizer@INTERLOG.COM wrote: > I'm looking for a good C > compiler for a PowerMac; any suggestions? Metrowerks is very easy to use, and it's cheap. Apple MPW/C seems to me more easily interfaced with Fortran tools from various vendors. If you were to integrate a lot of existing Fortran code into you application, that would be the only reason I'd at least take a look at MPW. I don't know about the legality of the following suggestion, but... there must be a lot of people (like me) with several old versions of Apple MPW and MetroWerks Code Warrior sitting around. How about getting hold (by a license transfer or whatever) of an obsolete copy? It should do fine for your student project. _____________________________________________________________ Petr Kuzmic Ph.D. * BioKin Ltd. * Madison, WI 53708-8336, USA pkuzmic@biokin.com * http://www.biokin.com * 608.256.1269 fax From owner-software@net.bio.net Wed Sep 10 23:00:00 1997 Path: biosci!agate!usenet.INS.CWRU.Edu!news.apk.net!uunet!in4.uu.net!204.253.208.40!insync!news.maxwell.syr.edu!newsfeed.direct.ca!newshub1.home.com!news.home.com!news1.best.com!nntp1.ba.best.com!not-for-mail From: Scott Le Grand Newsgroups: bionet.software,bionet.molec-model Subject: Re: protein / predicting 3D-structure perturbation Date: Wed, 10 Sep 1997 21:27:54 -0700 Lines: 19 Message-ID: <3417734A.78C3C568@teslaNOSPAM.mbi.uclaFNORD.edu> References: <5v68h9$1scm@moka.ccr.jussieu.fr> NNTP-Posting-Host: dynamic6.pm12.mv.best.com Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0 (X11; I; Linux 2.0.7 i586) Xref: biosci bionet.software:19472 bionet.molec-model:1786 Michel PETITJEAN wrote: > > I have the x,y,z coordinates of a protein in PDB format. > One of the residues has an H-bonding with the rest of the protein. > Now I replace this residue with an other one which offers no H-bonding. > How can I predict the perturbations induced on the 3D-structure ? > Is there softwares for that (free or not) ? > Thanks. There are numerous prediction packages available. None of them have been shown to be of any predictive value whatsoever anywhere but within the scientific papers that describe them. However, I'm sure the developers of said packages would insist on disagreeing with this statement Your best bet at prediction would be to assume the structure did not change as a result of the mutation. Scott Le Grand From owner-software@net.bio.net Wed Sep 10 23:00:00 1997 Path: biosci!GENOME.BIOTECH.WASHINGTON.EDU!eugene From: eugene@GENOME.BIOTECH.WASHINGTON.EDU (Eugene Kolker) Newsgroups: bionet.software Subject: RECOMB98 Invited Speakers Date: 11 Sep 1997 14:26:00 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 204 Sender: daemon@net.bio.net Distribution: world Message-ID: <199709112125.OAA27201@genome.biotech.washington.edu> NNTP-Posting-Host: net.bio.net CALL FOR PAPERS SECOND ANNUAL INTERNATIONAL CONFERENCE ON COMPUTATIONAL MOLECULAR BIOLOGY (RECOMB 98) March 22 - 25, 1998 New York City Sponsored by Association for Computing Machinery SIGACT with support from SLOAN Foundation US Department of Energy http://www.mssm.edu/biomath/recomb98.html The Second Annual Conference on Research in Computational Molecular Biology (RECOMB 98), sponsored by the Association for Computing Machinery Special Interest Group on Algorithms and Computation Theory (ACM-SIGACT) with support from the SLOAN Foundation, and US Department of Energy will be held in New York City, March 22 - 25, 1998. Papers reporting on original research (both theoretical and experimental) in all areas of computational molecular biology are sought, including surveys of important recent results/directions. Typical but not exclusive topics of interest include: - Genomics - Molecular sequence analysis - Recognition of genes and regulatory elements - Molecular evolution - Protein structure - Combinatorial libraries and drug design ABSTRACT SUBMISSION: Authors are requested to send 10 copies (preferably two sided copies) of a detailed extended abstract (5-10 pages) to: Professor Pavel Pevzner RECOMB 98 Program Chair University of Southern California Department of Mathematics, DRB 155 Los Angeles, CA 90089-1113 An abstract must be received by October 20, 1997. This is a firm deadline. Simultaneous submission to another conference or journal is allowed. CONFERENCE PROCEEDINGS: The extended abstracts for the Conference will be published by ACM Press and will be available at the Conference. A selection of the accepted extended abstracts in their final journal versions will be invited to appear in a special issue of the Journal of Computational Biology devoted to RECOMB 98. NOTIFICATION: The conference submissions will be refereed by the program committee. Authors will be notified of acceptance or rejection by a letter mailed on or before December 15, 1997. A final copy of each accepted paper is required by January 10, 1997. An author of each accepted paper is expected to attend the Symposium and present the paper; otherwise alternative arrangements should be made to have the paper presented. ABSTRACT PREPARATION: An abstract should start with a succinct statement of the problem, the results achieved, their significance and a comparison with previous work. This material should be understandable to nonspecialists. A technical exposition directed to the specialist should follow. The length, excluding cover page and bibliography, should not exceed 10 pages. The manuscript should be easy to read, preferably using 11 point font size on U.S. standard 8 1/2 by 11 inch paper. If authors believe that more details are necessary to substantiate the claims of the paper, they may include a clearly marked appendix. An E-mail address for the contact author should be included. INVITED SPEAKERS: Charles Cantor (Boston University) Thomas Caskey (Merck) David Cox (Stanford University) Ron Davis (Stanford University) Klaus Gubernator (CombiChem) Joshua Lederberg (Rockfeller University) Michael Levitt (Stanford University) David Schwartz (New York University) John Yates (University of Washington) CONFERENCE EVENTS RECOMB 98 will feature 9 invited lectures including the following conference events: THE STANISLAW ULAM MEMORIAL COMPUTATIONAL BIOLOGY ADDRESS awarded by RECOMB to a scientist who has made major contributions in the computational aspects of the field. Professor Joshua Lederberg of Rockfeller University will deliver the Statislav Ulam Memorial Computational Biology Address. THE DISTINGUISHED BIOLOGY LECTURE awarded by RECOMB to a scientist who has made major contributions in the biological aspects of the field. Professor Ron Davis of Stanford University will deliver the Distinguished Biology Lecture. THE DISTINGUISHED NEW TECHNOLOGIES LECTURE describing emerging, new technologies. Professor David Cox of Stanford University will deliver the Distinguished New Technologies Lecture. BEST PAPER BY A YOUNG SCIENTIST AWARD. This award will be given to the best paper written solely by one or more recent graduates or students. An abstract is eligible if all authors are recent graduates (within 2 years from Ph.D.) or full-time students at the time of submission. This should be indicated in the submission letter. The program committee may decline to make the award or may split it among several papers. STEERING COMMITTEE: Sorin Istrail, RECOMB General Vice-Chair (Sandia National Laboratories) Richard Karp (University of Washington) Thomas Lengauer (GMD-SCAI, Germany) Pavel Pevzner, RECOMB General Chair (University of Southern California) Ron Shamir (Tel-Aviv University, Israel) Michael Waterman, RECOMB General Chair (University of Southern California) PROGRAM COMMITTEE: Craig Benham (Mount Sinai School of Medicine) Gary Benson (Mount Sinai School of Medicine) Bonnie Berger (MIT) Martin Farach (Rutgers University) Phil Green (University of Washington) Dan Gusfield (University of California Davis) David Haussler (University of California Santa Cruz) Sorin Istrail (Sandia National Laboratories) Richard Karp (University of Washington) Minoru Kanehisa (Kyoto University, Japan) Eugene Koonin (National Center for Biotechnology Information) Thomas Lengauer (GMD-SCAI, Germany) Webb Miller (Pennsylvania State University) Gene Myers (University of Arizona) Pavel Pevzner, Program Committee Chair (University of Southern California) David Searls (SmithKline Beecham) Ron Shamir (Tel-Aviv University, Israel) Terry Speed (University of California Berkeley) Martin Vingron (German Cancer Center) Michael Waterman (University of Southern California) ORGANIZING COMMITTEE: Craig Benham (Mount Sinai School of Medicine) Gary Benson, Conference Chair (Mount Sinai School of Medicine) Martin Farach (Rutgers University) Eugene Kolker, Publicity Chair (University of Washington) Information about local arrangements can be obtained by consulting the conference web page http://www.mssm.edu/biomath/recomb98.html or from the Conference Chair: Professor Gary Benson Department of Biomathematical Sciences Box 1023 The Mount Sinai Medical Center One Gustave L. Levy Place New York, NY 10029-6574 (212) 241-5777 phone (212) 860-4630 fax benson@ecology.biomath.mssm.edu Sorry, if you get this mail twice. -------------------------------------------------------------------- Eugene Kolker Dept of Molecular Biotechnology, Box 357730 Tel: +1-206-685-6941 University of Washington School of Medicine Fax: +1-206-685-7301 Seattle, WA 98195-7730, USA egn@u.washington.edu NEW (!) WEB: http://bozeman.genome.washington.edu/~eugene From owner-software@net.bio.net Wed Sep 10 23:00:00 1997 Path: biosci!rutgers!gatech!nntp.msstate.edu!news.memphis.edu!news.wku.edu!not-for-mail From: john white Newsgroups: bionet.software Subject: Drugnet: A Web-based Survey of Successful Adults Who Use Recreational Drugs Date: Thu, 11 Sep 1997 15:19:22 -0500 Organization: Western Kentucky Univeristy Lines: 46 Message-ID: <3418524A.7471@wku.edu> NNTP-Posting-Host: ph3-402.sth.wku.edu Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0 (Win95; I) Drugnet: A Web-based Survey of Successful Adults Who Use Recreational Drugs Are you successful? Do you have a stable home life? Are you a happy adult? Do you occasionally enjoy the recreational use of Marijuana or other drugs (e.g., Cocaine, LSD, etc.)? Past research on drug use has concentrated on drug abusers (i.e., people in treatment), elementary, high-school, or college students. We are conducting a survey to demonstrate the existence of successful adult drug users in our society. If you fit the above qualifications, we would like you to take our survey. All information is anonymous. You don't have to e-mail us *ANYTHING* that carries your e-mail address. All you have to do is set your web-browser to: http://wkuweb1.wku.edu/~drugnet All you need to take this survey is a little time (approximately 20-30 minutes, depending upon your level of experience with a mouse and recreational drugs). All responses will be kept confidential! This is for REAL! This is *not* an attempt to identify drug users for police records. We are researchers at academic institutions who are interested in Drug Policy. If you have any questions about this study, you may contact us at the address listed below. If you have taken this survey before, during our pilot study last year, we'd like for you to take it *again*!. Based on respondent feedback, we've added new questions and made other modifications. So please, tell us about your expereinces using this newer format. NOTE: This survey should work with any web browser that supports forms and tables. This includes Netscape 2.0+, Internet Explorer 2.0+, and similar software. Tom Nicholson, Ph.D. John B. White, Ph.D. Department of Public Health Western Kentucky University 1 Big Red Way Bowling Green, KY 42101 Voice: 502/745-4797 From owner-software@net.bio.net Wed Sep 10 23:00:00 1997 Path: biosci!agate!newsfeed.kornet.nm.kr!nntp.kreonet.re.kr!xfer.kren.nm.kr!su-news-hub1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!worldnet.att.net!newsadm From: "Naum Burman" Newsgroups: bionet.software Subject: Real Time talking like on a phone thru the Internet using software or hardware Date: 11 Sep 1997 19:40:15 GMT Organization: AT&T WorldNet Services Lines: 14 Message-ID: <01bcbee9$936ec9a0$2f3174cf@default> NNTP-Posting-Host: 207.116.49.47 X-Newsreader: Microsoft Internet News 4.70.1155 Dear Friends, Yesterday I heard about a new program which uses software or hardware ( i am not sure which one ). So you can talk through the internet in real time like on the phone. You can also receive phone calls, send and receive faxes. And it costs about 2 dollars per hour. And I would like to know where I can find this type of program and how much it works. Or if you know a program that is similar to the one described above. Thank you and awaiting your response with warm regards. I would appreciate if you would send responses to my e-mail address which is Nick.B@worldnet.att.net. Sincerely, Julia Burman From owner-software@net.bio.net Wed Sep 10 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!europa.clark.net!208.134.241.18!newsfeed.internetmci.com!newsfeed.internetmci.com!194.72.7.126!news-peer.bt.net!btnet!baron.netcom.net.uk!netcom.net.uk!server3.netnews.ja.net!news.ox.ac.uk!lady0266 From: lady0266@ermine.ox.ac.uk (Richard Grant) Newsgroups: bionet.software Subject: Re: CCD Video Capture Date: 11 Sep 1997 16:51:53 GMT Organization: Oxford University, England Lines: 18 Message-ID: <5v97j9$6sl$1@news.ox.ac.uk> References: NNTP-Posting-Host: ermine.ox.ac.uk X-Newsreader: TIN [version 1.2 PL2] Tim Green (green@salk.edu) wrote: : This relates to hardware as well as software, but this was the most : relevant newsgroup. Check out http://www.improvision.com/ Utterly Mac-based, personal service, they have a distributor in the US now too. R -- Richard P. Grant MA DPhil rpgrant@molbiol.ox.ac.uk Nuffield Department of Obstetrics and Gynaecology, University of Oxford. http://sable.ox.ac.uk/~lady0266 Fax +44 1 865 69141 It's only ones and zeroes. From owner-software@net.bio.net Wed Sep 10 23:00:00 1997 Path: biosci!agate!newsgate.cuhk.edu.hk!news.hku.hk!hkupc From: sw (Your full name) Newsgroups: bionet.software Subject: Information on Tox Calc ver 5.0 requested Date: Thu, 11 Sep 97 16:51:22 GMT Organization: HKU Lines: 18 Message-ID: <5v97ng$fc31@hkusud.hku.hk> NNTP-Posting-Host: p149.du.hku.hk Summary: Tox Calc ver 5.0 information requested X-Newsreader: News Xpress 2.0 Beta #0 Keyword: Tox Calc Dear all, I am currently involving an assessment of outfall locations with respective to certain criteria. One of which is toxicity assessment, I shall be grateful if any one can provide me information and contact point for the following software:- ToxCalc Comprehensive Toxicity Data Analysis and Database Software ver 5.0. Please reply to my e-mail account and thanks in advance for your help and attention. K.F.Leung E-mail: kfleung@hkucc.hku.hk From owner-software@net.bio.net Wed Sep 10 23:00:00 1997 Path: biosci!agate!ihnp4.ucsd.edu!news.scripps.edu!jerky.salk.edu!user From: green@salk.edu (Tim Green) Newsgroups: bionet.software Subject: CCD Video Capture Date: Thu, 11 Sep 1997 09:18:26 -0700 Organization: Salk Institute Lines: 17 Message-ID: NNTP-Posting-Host: jerky.salk.edu Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit This relates to hardware as well as software, but this was the most relevant newsgroup. We are interested in purchasing a microscope and CCD video capture system for neural imaging (in situs and imaging of neurons in culture). As a primarily mac based lab, we would prefer a mac based capture card and software. Does anyone have any experience/suggestions on available cards and cameras, distributors in the US and prices? We have quotes from Leica and Zeiss, but both have specified Win95 capture cards. Thanks in advance Tim Green -- MNL-H Salk Institute From owner-software@net.bio.net Wed Sep 10 23:00:00 1997 Path: biosci!agate!ihnp4.ucsd.edu!news1.ucsd.edu!jstrout From: jstrout@ucsd.edu (Joseph J. Strout) Newsgroups: bionet.software Subject: Re: Neural network software Date: Wed, 10 Sep 1997 20:09:05 -0700 Organization: UCSD Lines: 15 Message-ID: References: <34171CFF.5E11BD92@sprynet.com> NNTP-Posting-Host: gandalf.ucsd.edu Mime-Version: 1.0 Content-Type: text/plain; charset=ISO-8859-1 Content-Transfer-Encoding: 8bit X-Newsreader: Yet Another NewsWatcher 2.4.0 In article <34171CFF.5E11BD92@sprynet.com>, ambal@sprynet.com wrote: >Does anyone know a good source of neural network software that can be >easily adapted for biological data and forecasting? I'm not sure what level of modeling you're looking for, but you could consider CONICAL: http://www-acs.ucsd.edu/~jstrout/conical/ Regards, -- Joe ,------------------------------------------------------------------. | Joseph J. Strout Department of Neuroscience, UCSD | | jstrout@ucsd.edu http://www-acs.ucsd.edu/~jstrout/ | `------------------------------------------------------------------' From owner-software@net.bio.net Thu Sep 11 23:00:00 1997 Path: biosci!biosci!not-for-mail From: Yu Wai Chen Newsgroups: bionet.software.xplor,bionet.software,bionet.xtallography Subject: Update URL of online crystallography tools Date: 12 Sep 1997 07:17:36 -0700 Organization: MRC Centre for Protein Engineering Lines: 20 Sender: daemon@net.bio.net Distribution: world Message-ID: <341682C8.1FB18239@mrc-lmb.cam.ac.uk> NNTP-Posting-Host: net.bio.net Xref: biosci bionet.software:19484 bionet.xtallography:3741 Dear all, Please note that our online crystallography tools service has now been relocated again. The new URL is: Please update your bookmarks and links accordingly. Our previous URL's on the hosts: "laue.biochem.ubc.ca" and "dta.med.harvard.edu" are no longer supported. -- =================================================================== Yu Wai CHEN, Ph.D. .................. email: ywc@mrc-lmb.cam.ac.uk Centre for Protein Engineering, tel: 44-(1223) 402148 MRC Centre, Cambridge CB2 2QH, U.K. fax: 44-(1223) 402140 WWW homepage: http://www.mrc-cpe.cam.ac.uk/people/wai.html From owner-software@net.bio.net Thu Sep 11 23:00:00 1997 Newsgroups: bionet.software,bionet.molec-model Path: biosci!fcs280s.ncifcrf.gov!cpk-news-feed4.bbnplanet.com!cpk-news-feed1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!baron.netcom.net.uk!netcom.net.uk!uknet!bcc.ac.uk!news From: Marketa J Zvelebil Subject: Re: protein / predicting 3D-structure perturbation Message-ID: <3419B76F.2F1C@ludwig.ucl.ac.uk> Date: Fri, 12 Sep 1997 21:43:11 GMT Content-Transfer-Encoding: 7bit Content-Type: text/plain; charset=us-ascii References: <5v68h9$1scm@moka.ccr.jussieu.fr> <3417734A.78C3C568@teslaNOSPAM.mbi.uclaFNORD.edu> Mime-Version: 1.0 X-Mailer: Mozilla 3.01 (X11; I; IRIX64 6.2 IP28) Organization: University College London Lines: 46 Xref: biosci bionet.software:19482 bionet.molec-model:1790 Scott Le Grand wrote: > > Michel PETITJEAN wrote: > > > > I have the x,y,z coordinates of a protein in PDB format. > > One of the residues has an H-bonding with the rest of the protein. > > Now I replace this residue with an other one which offers no H-bonding. > > How can I predict the perturbations induced on the 3D-structure ? > > Is there softwares for that (free or not) ? > > Thanks. > > There are numerous prediction packages available. None of them > have been shown to be of any predictive value whatsoever anywhere > but within the scientific papers that describe them. However, > I'm sure the developers of said packages would insist on > disagreeing with this statement > > Your best bet at prediction would be to assume the structure > did not change as a result of the mutation. > > Scott Le Grand It would depend what kind and how large are the perturbations you want to measure. Easiest is to model the mutation as you have and simply minimize the structure and look at local changes. If you want to go further you can try local dynamics. If you really want to get deeply into it, with probably very little extra information, you could try things like how has it effected the charge distribution around that residue etc. That is all available within insightII (Biosym). Marketa -- Dr. Marketa J Zvelebil, Ludwig Institute for Cancer Research, 91 Riding House Street London W1P 8BT, ENGLAND. Tel: (44) 0171 878-4012 ,Fax: (44) 0171 878-4040 e-mail: marketa@ludwig.ucl.ac.uk http://www.ludwig.ucl.ac.uk/st/hello.html * "Computers make excellent and efficient servants but I have no wish to serve under them." (Spock - The Ultimate Computer) From owner-software@net.bio.net Thu Sep 11 23:00:00 1997 Path: biosci!bloom-beacon.mit.edu!eru.mt.luth.se!feed1.news.erols.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!baron.netcom.net.uk!netcom.net.uk!server3.netnews.ja.net!is.bbsrc.ac.uk!Andy.Law From: Andy.Law@bbsrc.ac.uk (Andy Law) Newsgroups: bionet.software Subject: Re: Good C compiler for Mac? Date: Fri, 12 Sep 1997 09:16:41 +0100 Organization: Roslin Institute Lines: 19 Message-ID: References: <34165531.566D@interlog.com> <3417ECC9.74518DE8@biokin.com> NNTP-Posting-Host: pc0734.ri.bbsrc.ac.uk Mime-Version: 1.0 Content-Type: text/plain; charset=ISO-8859-1 Content-Transfer-Encoding: 8bit X-Newsreader: Yet Another NewsWatcher 2.3.4 In article <3417ECC9.74518DE8@biokin.com>, Petr Kuzmic wrote: > I don't know about the legality of the following suggestion, but... > there must be a lot of people (like me) with several old versions of > Apple MPW and MetroWerks Code Warrior sitting around. How about getting > hold (by a license transfer or whatever) of an obsolete copy? It should > do fine for your student project. Completely illegal if you are currently using (or intend to use in the future) the up to date version of the said programs. Codewarrior Academic is pretty cheap ( approx $100?) and you can get Fortan compilers as well at an academic discount. Andy Law ------------------ ( Andy.Law@bbsrc.ac.uk ) ( Big Nose in Edinburgh ) From owner-software@net.bio.net Thu Sep 11 23:00:00 1997 Newsgroups: bionet.software Path: biosci!bloom-beacon.mit.edu!thetimes.pixel.kodak.com!news.kodak.com!news-pen-16.sprintlink.net!newsfeed.nysernet.net!news.nysernet.net!206.229.87.50!news-pull.sprintlink.net!news-in-east.sprintlink.net!news.sprintlink.net!Sprint!158.43.192.17!rill.news.pipex.net!pipex!join.news.pipex.net!pipex!server1.netnews.ja.net!server5.netnews.ja.net!leeds.ac.uk!news From: garyt@bmb.leeds.ac.uk (Gary Sheldon Thompson) Subject: Re: Good C compiler for Mac? Message-ID: <3418ECE2.41C6@bmb.leeds.ac.uk> NNTP-Posting-Host: bmbsgi14.leeds.ac.uk X-Mailer: Mozilla 3.01 (X11; I; IRIX 5.3 IP22) Content-Type: text/plain; charset=us-ascii Organization: Biochemistry and Molecular Biology, University of Leeds MIME-Version: 1.0 Date: Fri, 12 Sep 1997 08:17:34 +0100 (BST) References: <34165531.566D@interlog.com> <3417ECC9.74518DE8@biokin.com> Lines: 46 Content-Transfer-Encoding: 7bit Petr Kuzmic wrote: > > oxidizer@INTERLOG.COM wrote: > > > I'm looking for a good C > > compiler for a PowerMac; any suggestions? > > Metrowerks is very easy to use, and it's cheap. Apple MPW/C seems to me > more easily interfaced with Fortran tools from various vendors. If you > were to integrate a lot of existing Fortran code into you application, > that would be the only reason I'd at least take a look at MPW. > > I don't know about the legality of the following suggestion, but... > there must be a lot of people (like me) with several old versions of > Apple MPW and MetroWerks Code Warrior sitting around. How about getting > hold (by a license transfer or whatever) of an obsolete copy? It should > do fine for your student project. > > _____________________________________________________________ > Petr Kuzmic Ph.D. * BioKin Ltd. * Madison, WI 53708-8336, USA > pkuzmic@biokin.com * http://www.biokin.com * 608.256.1269 fax Also you should note that 1. metrowerks have very reasonable academic rates 70ps 2. Codewarrior comes with MPW on the CD GARY -- end ********************************************************************* Dr. Gary S. Thompson Address: Wellcome Postdoctoral Fellow Biochemistry and Molecular Biology, Sheena Radford's Laboratory Woodhouse Lane, University of Leeds, Studying the structure and Leeds, LS2 9JT. folding of proteins by nmr. England. e-mail: garyt@bmb.leeds.ac.uk. tel: 0113 233 3134 fax: 0113 233 3167 ********************************************************************* From owner-software@net.bio.net Thu Sep 11 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!newsfeed.internetmci.com!newsfeed.internetmci.com!206.229.87.25!news-peer.sprintlink.net!news.sprintlink.net!Sprint!uunet!in4.uu.net!202.82.1.1!bull.hkstar.net!hkstar2!news From: "King Kong" Newsgroups: bionet.software Subject: !!!!!!!!!Help Me Please!!!!!!!!!!!! Date: 12 Sep 1997 14:24:06 GMT Organization: Hong Kong Star Internet Ltd. Lines: 7 Message-ID: <01bcbf86$b914c400$b9f152ca@kin> NNTP-Posting-Host: 202.82.241.185 X-Newsreader: Microsoft Internet News 4.70.1161 If you know which software can rec a cd song, (like CDDA) Please send it to me... But don't send the CDDA, because my CD-ROM can't use it. Thanks My E-Mail address is: a2403@hkstar.com And my Icq uin is: 2397362 From owner-software@net.bio.net Thu Sep 11 23:00:00 1997 Path: biosci!fcs280s.ncifcrf.gov!cpk-news-feed4.bbnplanet.com!cpk-news-feed1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!newsfeed.nacamar.de!news-out2.du.gtn.com!news-in2.du.gtn.com!RRZ.Uni-Koeln.DE!usenet From: Daniel Schlieper Newsgroups: bionet.software,bionet.molbio.methds-reagnts Subject: Re: Help Wanted: A free program to draw circular plasmids: for Mac or PC Followup-To: bionet.software,bionet.molbio.methds-reagnts Date: 12 Sep 1997 21:15:34 +0200 Organization: Regional Computing Center, University of Cologne Lines: 15 Message-ID: References: <341968b2.24147966@news.mat.uc.pt> NNTP-Posting-Host: rs3.rrz.uni-koeln.de Mime-Version: 1.0 (generated by tm-edit 7.92) Content-Type: text/plain; charset=US-ASCII X-Newsreader: Gnus v5.3/Emacs 19.34 Xref: biosci bionet.software:19487 bionet.molbio.methds-reagnts:61159 Hello, if you use Linux or any other kind of Unix, you should try xfig. It is available at ftp.x.org in /contrib/applications/drawing_tools/xfig for free. It is just a normal drawing prorgam, but I managed to draw a very nice plasmidmap in short time. Best regards, Daniel Schlieper -- Daniel Schlieper Institut fuer Biochemie Zuelpicher Strasse 47 Daniel.Schlieper@Uni-Koeln.De Universitaet zu Koeln Tel.: +49 221 470 6443 D-50674 Koeln From owner-software@net.bio.net Thu Sep 11 23:00:00 1997 From: Lu.Do@Home.DiVa.nl (L.P.J.J. Noldus) Newsgroups: bionet.software Subject: Product Specialist scientific software (DC area) Date: Fri, 12 Sep 1997 22:04:01 GMT Organization: Noldus Information Technology b.v. Reply-To: Lu.Do@Home.DiVa.nl Message-ID: <3419bc3c.52593422@News.DiVa.NL> X-Newsreader: Forte Free Agent 1.11/32.235 NNTP-Posting-Host: wg01.diva.nl Lines: 27 Path: biosci!agate!hammer.uoregon.edu!news.oru.edu!news-spur1.maxwell.syr.edu!news.maxwell.syr.edu!howland.erols.net!surfnet.nl!wau.nl!wg01.diva.nl Job opening: Product Specialist Noldus Information Technology Inc., developer of software and instrumentation for behavioral research, has an immediate opening for a Product Specialist who will serve as the technical intermediary between Noldus products and its (new) users. You will be responsible for a range of activities which help prospects understand how our products can fulfill their research needs. Your job will include the following tasks, in order of priority: provide high-quality sales services for customers by supplying information and presenting the full range of Noldus products and services, support Noldus sales efforts through product demonstrations at scientific conferences or at customers' locations, and support our direct marketing efforts to promote new products and upgrades. Required: service-oriented personality; strong verbal and written communication skills; excellent organizational and interpersonal skills; initiative, enthusiasm, high-energy and positive attitude; PC hardware and operating systems knowledge- Problem solving ability; must be willing to travel. Mail resume and cover letter to Noldus Information Technology Inc., Attn: Human Resources, 6 Pidgeon Hill Drive, Suite 180, Sterling, VA 20165, U.S.A. For any further information, feel free to call Bart van Roekel at 1-800-355-9541. More information about our company can be found on our web site http://www.noldus.com. From owner-software@net.bio.net Thu Sep 11 23:00:00 1997 Path: biosci!daresbury!uninett.no!sn.no!Norway.EU.net!EU.net!news.maxwell.syr.edu!news-peer.gsl.net!news-stkh.gip.net!news.gsl.net!gip.net!news3.funet.fi!news.funet.fi!news.helsinki.fi!not-for-mail From: Dag Stenberg Newsgroups: bionet.software Subject: Re: CCD Video Capture Date: 12 Sep 1997 13:57:48 GMT Organization: University of Helsinki Lines: 37 Message-ID: <5vbhos$3jp$1@oravannahka.Helsinki.FI> References: NNTP-Posting-Host: vesuri.helsinki.fi X-Trace: oravannahka.Helsinki.FI 874072668 3705 (None) 128.214.205.10 X-Complaints-To: usenet@oravannahka.Helsinki.FI X-Newsreader: TIN [UNIX 1.3 unoff BETA 970613; alpha OSF1 V4.0] Tim Green wrote: > We are interested in purchasing a microscope and CCD video capture system > for neural imaging (in situs and imaging of neurons in culture). As a > primarily mac based lab, we would prefer a mac based capture card and > software. Does anyone have any experience/suggestions on available cards > and cameras, distributors in the US and prices? We have quotes from Leica > and Zeiss, but both have specified Win95 capture cards. We bought our systeme about 5 years ago, so part of the information is perhaps not up to date. After quite careful consideration and comparisons, we got: - Nikon Labophot-2 microscope (bright-field, dark-field) - Sony XC77-CE b/w CCD camera (could not afford the DAGE MTI C72) - Signal Analytics' IPLab program for the Mac with some extra modules. This came with a - Scion LG-3 card, which we equipped with 16 Mb extra memory. NIH Image for this card came without extra cost. We have no regrets, and use the system mainly for in situ hybridization analysis. Dag Stenberg ------------------------------------------------------------------ Dag Stenberg MD PhD stenberg@cc.helsinki.fi Institute of Biomedicine tel: int.+358-9-1918532 Department of Physiology fax: int.+358-9-1918681 P.O.Box 9 (Siltavuorenpenger 20 J) FIN-00014 University of Helsinki,Finland X.400: /C=FI/A=FUMAIL/P=INET/O=HELSINKI/OU=CC/S=STENBERG/ ------------------------------------------------------------------ From owner-software@net.bio.net Thu Sep 11 23:00:00 1997 Path: biosci!bloom-beacon.mit.edu!spool.mu.edu!uwm.edu!vixen.cso.uiuc.edu!news-peer.sprintlink.net!news.sprintlink.net!Sprint!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!newsfeed.nacamar.de!newscore.univie.ac.at!news-ge.switch.ch!news.rccn.net!morgana.mat.uc.pt!usenet From: oba@oba.oba (Obabá) Newsgroups: bionet.software,bionet.molbio.methds-reagnts Subject: Help Wanted: A free program to draw circular plasmids: for Mac or PC Date: Fri, 12 Sep 1997 16:11:19 GMT Organization: Universidade de Coimbra Lines: 11 Message-ID: <341968b2.24147966@news.mat.uc.pt> NNTP-Posting-Host: filip2.uc.pt Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Newsreader: Forte Agent 1.5/32.451 Xref: biosci bionet.software:19486 bionet.molbio.methds-reagnts:61155 Hello Everybody! As you can see from the title of this post, I need a program (preferencially free or shareware), that can make diagrams of circular plasmids. I would appreciate a lot if someone could point out a site in the web where I could get such a program. Thanks in advance! Angelo Tome' Center for Neurosciences of Coimbra Portugal From owner-software@net.bio.net Fri Sep 12 23:00:00 1997 Path: biosci!agate!hammer.uoregon.edu!csulb.edu!logbridge.uoregon.edu!newsfeed1-hme1!newsfeed.internetmci.com!204.156.128.20!news1.best.com!nntp1.ba.best.com!not-for-mail From: Scott Le Grand Newsgroups: bionet.software,bionet.molec-model Subject: Re: protein / predicting 3D-structure perturbation Date: Fri, 12 Sep 1997 20:53:21 -0700 Lines: 23 Message-ID: <341A0E31.3447AF3C@teslaNOSPAM.mbi.uclaFNORD.edu> References: <5v68h9$1scm@moka.ccr.jussieu.fr> <3417734A.78C3C568@teslaNOSPAM.mbi.uclaFNORD.edu> <3419B76F.2F1C@ludwig.ucl.ac.uk> NNTP-Posting-Host: dynamic26.pm02.ba.best.com Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Trace: 874122734 8459 legrand 206.184.139.132 X-Mailer: Mozilla 3.0 (X11; I; Linux 2.0.7 i586) Xref: biosci bionet.software:19490 bionet.molec-model:1792 Marketa J Zvelebil wrote: > It would depend what kind and how large are the perturbations you > want to measure. Easiest is to model the mutation as you have and > simply minimize the structure and look at local changes. If you want > to go further you can try local dynamics. If you really want to get > deeply into it, with probably very little extra information, you > could try things like how has it effected the charge distribution > around that residue etc. That is all available within insightII > (Biosym). Unfortunately, the theoretical models behind insightII and all other force fields out there bear no known resemblance to reality. An energy minimization will do wonders with removing steric conflicts as a result of the mutation, but it will do nothing to assist you in the prediction of genuine structual changes caused by the mutation. The recent CASP and CASP II structure prediction competitions provided the first real opportunities to test these models objectively on blind data. No one came out a winner except in their own mind and that's the hard pill we all ought to swallow, but many won't. Scott Le Grand, Ph. D. From owner-software@net.bio.net Fri Sep 12 23:00:00 1997 Path: biosci!agate!hammer.uoregon.edu!cs.uoregon.edu!news.sgi.com!news.maxwell.syr.edu!iagnet.net!144.92.88.12!newsspool.doit.wisc.edu!news.doit.wisc.edu!ebv.oncology.wisc.edu!aiyar From: aiyar@ebv.oncology.wisc.edu (Ashok Aiyar) Newsgroups: bionet.molbio.methds-reagnts,bionet.software Subject: Re: clustal protein alignment with >50 sequences? Followup-To: bionet.software Date: 13 Sep 1997 16:16:52 GMT Organization: Sugden Lab, McArdle Laboratory for Cancer Research, UW-Madison Lines: 32 Message-ID: References: <5vch4f$sd2$1@news.tamu.edu> Reply-To: aiyar@ebv.oncology.wisc.edu NNTP-Posting-Host: ebv.oncology.wisc.edu X-Newsreader: slrn (0.9.4.3 UNIX) Xref: biosci bionet.molbio.methds-reagnts:61179 bionet.software:19492 On Sat, 13 Sep 1997 00:46:11 GMT, davesmith@bioch.tamu.edu (davesmith@bioch.tamu.edu) wrote: >We have 51 different phage and chromosomal sequences of the protein we >study. None are more than 200 residues in length. After an >exhaustive search of the web, we've been unable to find a program that >will line up more than 25 proteins at once. Does anyone know of a way >to line these up and generate a dendrogram or "family tree" with such >a large number of individual proteins? Get the latest version of ClustalW (1.7) or ClustalX (1.5). They are available from: ftp://ftp-igbmc.u-strasbg.fr/pub/. Binaries for a number of platforms including DOS and MacOS are available from there. The static arrays used to store alignments (in progress) have been replaced by dynamically allocated memory. As a result, there are no limits on the number or length of sequences that can be aligned - as long as the computer doesn't run out of memory. In practical terms, on a Linux PC with 32 megs of real RAM, and 64 megs of swap space, I recently aligned 39 sequences that were each approximately 8 kilobases in length. The alignment ran for about 3 days, but without any memory errors. I believe that a release of DIALIGN which also uses dynamically allocated arrays will soon be released by Burkhard Morgenstern and his collaborators. DIALIGN is available from: ftp://ariane.gsf.de Later, Ashok -- Ashok Aiyar, Ph.D. McArdle Laboratory for Cancer Research aiyar@ebv.oncology.wisc.edu From owner-software@net.bio.net Fri Sep 12 23:00:00 1997 From: cesium@prostar.com (Dennis Mitton) Newsgroups: bionet.software,bionet.molbio.methds-reagnts Subject: Re: Help Wanted: A free program to draw circular plasmids: for Mac or PC Date: Fri, 12 Sep 1997 22:28:22 GMT Message-ID: <3419c1cd.2364226@news.foxinternet.net> References: <341968b2.24147966@news.mat.uc.pt> X-Newsreader: Forte Free Agent 1.11/32.235 NNTP-Posting-Host: 208.8.211.144 Lines: 10 Path: biosci!fcs280s.ncifcrf.gov!cpk-news-feed4.bbnplanet.com!cpk-news-feed1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!newsfeed1-hme1!newsfeed.internetmci.com!192.48.96.123!in1.uu.net!208.8.204.10!news.prostar.com!208.8.211.144 Xref: biosci bionet.software:19491 bionet.molbio.methds-reagnts:61171 Not free but if you can find someone with MS Excel you can make donut charts and expand the inside to about 90% - makes a very nice plasmid. On Fri, 12 Sep 1997 16:11:19 GMT, oba@oba.oba (Obabá) wrote: >Hello Everybody! >As you can see from the title of this post, I need a program >(preferencially free or shareware), that can make diagrams of >circular plasmids. From owner-software@net.bio.net Fri Sep 12 23:00:00 1997 Path: biosci!agate!newsfeed.kornet.nm.kr!news.maxwell.syr.edu!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!newsfeeds.sol.net!news.pagesat.net!news.itis.com!not-for-mail From: Petr Kuzmic Newsgroups: bionet.software Subject: Software available: Biochemical kinetics and equilibria Date: Sat, 13 Sep 1997 14:42:44 -0500 Organization: BioKin Consulting Lines: 51 Message-ID: <341AECB4.99A48580@biokin.com> NNTP-Posting-Host: k11.itis.com Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 4.01 [en] (Win95; I) X-Priority: 3 (Normal) _____________________________________________________ PUBLIC DOMAIN PROGRAM DYNAFIT AVAILABLE DynaFit is a program for simulation and least-squares fitting of biochemical kinetic data. The user enters the reaction mechanism symbolically, such as this: ; "Slow, tight" inhibition of HIV proteinase [mechanism] E + S <==> ES : k ks ES ---> E + P : kr E + I <==> EI : k1 k2 EI <==> EJ : k3 k4 The machine then derives the underlying system of differential equations (to compute the time-course of the reaction) or algebraic equations (to compute the composision at equilibrium). _____________________________________________________ TEST PROBLEMS The program should be downloaded along with a set of test examples, all of them based on real experimental mostly from biochemical kinetics, but the same methods can be used for other areas of chemistry and biology. _____________________________________________________ REVIEWS A reviewer had this to say about DynaFit: "If you do any kind of kinetic data analysis as part of your research program, be sure to download DynaFit from the BioKin Web site." (HMS Beagle Newsletter "Software Alert", volume 1997 No. 9). _____________________________________________________ LINKS http://www.biokin.com/ BioKin home http://www.biokin.com/dynafit/index.shtml ... DynaFit _____________________________________________________ REFERENCES P. Kuzmic (1996) Anal. Biochem. 237, 260-273. _____________________________________________________________ Petr Kuzmic Ph.D. * BioKin Ltd. * Madison, WI 53708-8336, USA pkuzmic@biokin.com * http://www.biokin.com * 608.256.1269 fax From owner-software@net.bio.net Fri Sep 12 23:00:00 1997 Path: biosci!BIOKIN.COM!pkuzmic From: pkuzmic@BIOKIN.COM (Petr Kuzmic) Newsgroups: bionet.software Subject: Re: Good C compiler for Mac? Date: 13 Sep 1997 16:03:54 -0700 Organization: BioKin Consulting Lines: 23 Sender: daemon@net.bio.net Distribution: world Message-ID: <341B1C70.9E070177@biokin.com> NNTP-Posting-Host: net.bio.net oxidizer@INTERLOG.COM wrote: > As part of a fourth-year undergraduate reserach project, I need > (...snip...) a good C compiler for a PowerMac Petr Kuzmic wrote: > How about getting > hold (by a license transfer or whatever) of an obsolete copy? It should > do fine for your student project. Andy Law wrote: > Completely illegal if you are currently using (or intend to use in the > future) the up to date version of the said programs. I guess that would be illegal, wouldn't it... Just thinking, if I were an undergraduate student who is faced with a one-time, small programming project, maybe I would download the trial version of CodeWarrior C/C++ from http://www.metrowerks.com/products/cw/lite/. You can't include additional files into projects, but all source files are editable. It's a start... _____________________________________________________________ Petr Kuzmic Ph.D. * BioKin Ltd. * Madison, WI 53708-8336, USA pkuzmic@biokin.com * http://www.biokin.com * 608.256.1269 fax From owner-software@net.bio.net Sat Sep 13 23:00:00 1997 Newsgroups: bionet.software,bionet.molbio.methds-reagnts Path: biosci!rutgers!uwm.edu!news.he.net!newsfeed.direct.ca!Cabal.CESspool!bofh.vszbr.cz!lyra.csx.cam.ac.uk!server1.netnews.ja.net!server5.netnews.ja.net!server3.netnews.ja.net!server4.netnews.ja.net!bris.ac.uk!bath.ac.uk!bspwrb From: bspwrb@bath.ac.uk (W R Bennett) Subject: Re: Help Wanted: A free program to draw circular plasmids: for Mac or PC Organization: School of Biological Sciences, University of Bath, UK Message-ID: References: <341968b2.24147966@news.mat.uc.pt> Date: Sun, 14 Sep 1997 00:48:26 GMT Lines: 17 Xref: biosci bionet.software:19495 bionet.molbio.methds-reagnts:61187 In the referenced article, oba@oba.oba (Obabá) writes: >Hello Everybody! >As you can see from the title of this post, I need a program >(preferencially free or shareware), that can make diagrams of >circular plasmids. >I would appreciate a lot if someone could point out a site in the >web where I could get such a program. >Thanks in advance! > http://www.hytti.uku.fi/~kiviraum/plasmid/plasmid.html Plasmid Processor. It's by no means perfect, but it's free and it does the job. Cheers, Bill Bennett From owner-software@net.bio.net Sat Sep 13 23:00:00 1997 Path: biosci!daresbury!uninett.no!news-feed.inet.tele.dk!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!europa.clark.net!204.127.161.1!wnfeed!worldnet.att.net!205.252.116.205!howland.erols.net!nntp2.crl.com!news7.crl.com!news.west-tech.com!clark.a43.smsu.edu From: info@pgrs.com Newsgroups: bionet.software Subject: WANT A FREE PAGER? LOOK HERE! Date: 13 Sep 97 22:08:41 GMT Organization: PAGERS Lines: 38 Message-ID: <341b0ee9.0@news.west-tech.com> NNTP-Posting-Host: 165.113.201.24 ******************************************************** FREE MOTOROLA PAGERS OR SEIKO MESSAGE WATCH!!! CALL 1-800-784-6452 CERTIFICATE #4248000 NO CREDIT CHECKS NO CONTRACTS NO HASSLE MANY TO CHOOSE FROM! $80-$150 VALUE! 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MANY OTHERS TO CHOSE FROM JUST ASK!!! ******************CALL 1-800-784-6452 CERTIFICATE #4248000************* From owner-software@net.bio.net Sat Sep 13 23:00:00 1997 Path: biosci!agate!newsgate.cuhk.edu.hk!logbridge.uoregon.edu!europa.clark.net!4.1.16.34!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!rill.news.pipex.net!pipex!tank.news.pipex.net!pipex!usenet From: Mike Tait Newsgroups: bionet.software,bionet.microbiology,sci.bio.microbiology Subject: Bacterial Growth 3 is a winner in the 1997 ToolBook Interactive awards Date: Sun, 14 Sep 1997 23:08:05 -0700 Organization: Scotcal Software Lines: 22 Message-ID: <341CD0C5.A2280EC0@dial.pipex.com> NNTP-Posting-Host: ai165.du.pipex.com Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Trace: soap.uunet.pipex.com 874274975 13083 (None) 193.130.248.165 X-Complaints-To: news@soap.uunet.pipex.com X-Mailer: Mozilla 4.01 [en] (Win95; I; 16bit) X-Priority: 3 (Normal) Xref: biosci bionet.software:19498 bionet.microbiology:10992 Scotcal is pleased to announce that Bacterial Growth 3 is a winner in the 1997 ToolBook Interactive awards. For those microbiology teachers who are unfamiliar with this "outstanding" (according to the judges!) educational software, see the Bacterial Growth 3 Web pages for more information: http://www.demon.co.uk/scotcal/growth3/ There is a free downloadable demo version there. -------------------------------------------------- Dr Mike Tait Scotcal Software 34A Watson Street, Aberdeen AB25 2QL, Scotland, UK Telephone: +44-(0)1224-620040 Facsimile: +44-(0)1224-620040 E-mail: scotcal@dial.pipex.com WWW: http://www.demon.co.uk/scotcal/ -------------------------------------------------- From owner-software@net.bio.net Sat Sep 13 23:00:00 1997 Path: biosci!ACCEFYN.ORG.CO!agarcia From: agarcia@ACCEFYN.ORG.CO (Alexander Garcia Castro) Newsgroups: bionet.software Subject: Re: Help Wanted: A free program to draw circular plasmids: for Mac or PC Date: 13 Sep 1997 21:13:40 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 42 Sender: daemon@net.bio.net Distribution: world Message-ID: <339B8AFF.EEB88838@accefyn.org.co> References: NNTP-Posting-Host: net.bio.net Plasmid Processor is a simple tool for plasmid presentation for scientific and educational purposes. It features both circular and linear DNA, user defined restriction sites, genes and multiple cloning site. In addition you can manipulate plasmid by inserting and deleting fragments. Created drawings can be copied to clipboard or saved to disk for later use. Printing from within program is also supported. For further information please contact the authors by e-mail, plasmid@uku.fi. Visit Plasmid Processor homepage at http://www.uku.fi/~kiviraum/plasmid/plasmid.html Programming team: T. Kivirauma, P. Oikari and J. Saarela. Plasmid Processor is freeware, so you can use and distribute it freely. Hope it helps. W R Bennett wrote: > In the referenced article, oba@oba.oba (Obab=E1) writes: > >Hello Everybody! > >As you can see from the title of this post, I need a program > >(preferencially free or shareware), that can make diagrams of > >circular plasmids. > >I would appreciate a lot if someone could point out a site in the > >web where I could get such a program. > >Thanks in advance! > > > http://www.hytti.uku.fi/~kiviraum/plasmid/plasmid.html > > Plasmid Processor. It's by no means perfect, but it's free and it doe= s > > the job. > > Cheers, > > Bill Bennett From owner-software@net.bio.net Sat Sep 13 23:00:00 1997 Path: biosci!agate!newsfeed.kornet.nm.kr!news.maxwell.syr.edu!news-was.dfn.de!news-fra1.dfn.de!news-ge.switch.ch!serra.unipi.it!mikasa.iol.it!news From: "Alex P&P" Newsgroups: bionet.software Subject: NON LEGFGERTRE Date: 14 Sep 1997 22:30:27 GMT Organization: Italia Online Lines: 1 Message-ID: <01bcc135$be4128a0$5544d2c3@ale-fra> NNTP-Posting-Host: 195.210.68.85 X-Newsreader: Microsoft Internet News 4.70.1157 PRO From owner-software@net.bio.net Sun Sep 14 23:00:00 1997 Path: biosci!agate!hammer.uoregon.edu!news.oru.edu!news-spur1.maxwell.syr.edu!news.maxwell.syr.edu!newsfeeds.sol.net!uwm.edu!gsl-penn-ns.gsl.net!news.gsl.net!gip.net!news.sprintlink.co.za!iafrica.com!uct.ac.za!pc079.scilab.uct.ac.za!prcjas01 From: prcjas01@scilab.uct.ac.za (JASON PURCELL) Newsgroups: alt.comp.shareware,bionet.software Subject: FAX software Date: Mon, 15 Sep 1997 13:32:26 Organization: University of Cape Town Lines: 12 Message-ID: NNTP-Posting-Host: pc079.scilab.uct.ac.za X-Trace: groa.uct.ac.za 874323068 17879 (None) 196.7.57.94 X-Complaints-To: abuse@uct.ac.za X-Newsreader: Trumpet for Windows [Version 1.0 Rev A] I am looking for a shareware program that does faxing. Please e-mail a copy to me if you have one, but only if the program is smaller than 4megs. Also, don't send me a program that runs on Win95 or WinNT. Thank you. "FOOLS RUSH IN WHERE ANGELS FEAR TO TREAD." From owner-software@net.bio.net Sun Sep 14 23:00:00 1997 Path: biosci!daresbury!uninett.no!sn.no!www.nntp.primenet.com!globalcenter1!news.primenet.com!nntp.primenet.com!newsfeed.direct.ca!News1.Vancouver.iSTAR.net!news.istar.net!van-bc!news1.istar.ca!not-for-mail From: "TJ Snider" Newsgroups: bionet.software Subject: Re: Good C compiler for Mac? Date: 14 Sep 97 18:08:17 -0700 Organization: iSTAR Internet Incorporated Lines: 23 Message-ID: References: <341B1C70.9E070177@biokin.com> NNTP-Posting-Host: ts5-09.vcr.istar.ca Mime-Version: 1.0 Content-Type: text/plain; charset=US-ASCII Content-Transfer-Encoding: 7bit X-Mailer: Cyberdog/2.0 X-News-Servers: news.istar.ca X-Newsgroups-TO: nntp://news.istar.ca/bionet.software > >I guess that would be illegal, wouldn't it... Just thinking, if I were >an undergraduate student who is faced with a one-time, small programming >project, maybe I would download the trial version of CodeWarrior C/C++ >from http://www.metrowerks.com/products/cw/lite/. You can't include >additional files into projects, but all source files are editable. It's >a start... > I believe MetroWerks also has a educational discount version and an intro to C++ on the Mac book that is quite cheap... Check out www.metrowerks.com and http://www.metrowerks.com/products/how_to_buy/academic.html Enjoy! TJ From owner-software@net.bio.net Sun Sep 14 23:00:00 1997 Path: biosci!agate!newsgate.duke.edu!nntprelay.mathworks.com!europa.clark.net!204.253.208.40!insync!news.insync.net From: FaxMail@ElectraSoft.com (Bill Krahmer) Newsgroups: alt.comp.shareware,bionet.software Subject: Re: FAX software Date: Mon, 15 Sep 1997 21:37:21 GMT Organization: ElectraSoft Lines: 40 Message-ID: <5vk9uo$rqu$1@synthemesc.insync.net> References: Reply-To: FaxMail@ElectraSoft.com NNTP-Posting-Host: 206.222.164.122 X-Newsreader: Forte Free Agent 1.0.82 prcjas01@scilab.uct.ac.za (JASON PURCELL) wrote: If you want to try the most powerful and fastest send/receive fax program on the market today, go to the www-page listed below and try FaxMail for Windows 3.xx/95 or FaxMail Network for Windows NT/95/Win32s for FREE. You can type-in or import up to 999 name and phone numbers into each FaxBook (Phone Book) and fax to the whole group at once:-) The FaxMail Convert to Fax will convert to a fax at the rate of 1 page per second. If you can print, you can fax. All the Fax Machines in the world are your printers with FaxMail for Windows. >I am looking for a shareware program that does faxing. >Please e-mail a copy to me if you have one, but only if the program is smaller >than 4megs. Also, don't send me a program that runs on Win95 or WinNT. >Thank you. >"FOOLS RUSH IN WHERE ANGELS FEAR TO TREAD." Kind Regards, Bill Krahmer, ElectraSoft E-Mail: FaxMail@ElectraSoft.com or jonk@blkbox.com Get newest version of FaxMail for Windows or FaxMail Network for NT, free: www-page: http://www.ElectraSoft.com/ or http://www.blkbox.com/~jonk/ Author member of Association of Shareware Professionals (ASP) From owner-software@net.bio.net Sun Sep 14 23:00:00 1997 Path: biosci!rutgers!uwm.edu!newsfeeds.sol.net!newsfeed.internetmci.com!194.162.162.196!newsfeed.nacamar.de!fu-berlin.de!news.belwue.de!stremob.pci.chemie.uni-tuebingen.de!user From: kaifr@uni-tuebingen.de (Dr. Kai-Uwe Froehlich) Newsgroups: bionet.software,bionet.molbio.methds-reagnts Subject: Re: Help Wanted: A free program to draw circular plasmids: for Mac or PC Date: Mon, 15 Sep 1997 11:59:14 +0200 Organization: Phys.-chem. Institut, Universitaet Tuebingen Lines: 58 Message-ID: References: <341968b2.24147966@news.mat.uc.pt> NNTP-Posting-Host: stremob.pci.chemie.uni-tuebingen.de Xref: biosci bionet.software:19502 bionet.molbio.methds-reagnts:61204 In article <341968b2.24147966@news.mat.uc.pt>, oba@oba.oba (Obabá) wrote: > Hello Everybody! > As you can see from the title of this post, I need a program > (preferencially free or shareware), that can make diagrams of > circular plasmids. > I would appreciate a lot if someone could point out a site in the > web where I could get such a program. > Thanks in advance! > > Angelo Tome' > Center for Neurosciences of Coimbra > Portugal Hi Angelo, I have written a plasmid drawing program for the Macintosh which I have released as Freeware. It allows to draw circular or linear maps. It was originally intended for our lab use, so it is anything but polished. It converts lists of restriction sites and fragment/gene positions into Postscript files. Its weak points in short - It is a Hypercard stack, so you need Hypercard to run it (luckily, speed is no problem, there are no processor intensive steps involved) - The output are Postscript files in Illustrator format. To view and to further edit the picture (which you will have to, see below), you need either Adobe Illustrator, or the Shareware EPStoPICT, which produces a fully editable, object oriented PICT version of the graphics. - The program does not care for overlapping labels, so in most cases you must do some fine-tuning On the other hand, the program - allows "electronic cloning", so you can quickly construct new plasmids from those already entered in the program - can draw all plasmids at the same size, but also using the same (or any you want) scale (that was the primary reason for me to write the program, most commercial programs had (still have?) no way to specify the drawing scale (except by different magnification in the page setup) - draws linear and circular maps, allows borders of various widths and fills of grays, arrows... - Output quality is great, thanks to Postscript - The price is right For a more detailed description, including screen shots of the output graphics, see and that is also the place to download the stack: (BTW, there is also a stack for the organization of plasmid/strain collections available) Kai ----------------------------------------------------------------------- Dr. Kai-Uwe Fröhlich, Physiologisch-chemisches Institut, Hoppe-Seyler-Str. 4, 76072 Tübingen, Germany From owner-software@net.bio.net Sun Sep 14 23:00:00 1997 Path: biosci!AMBER.BIOLOGY.GATECH.EDU!william From: william@AMBER.BIOLOGY.GATECH.EDU (William S. Hayes) Newsgroups: bionet.software Subject: UPDATE Conf. Ann.: Gene Discovery in silico, Atlanta, Nov 6-9 Date: 15 Sep 1997 13:54:36 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 243 Sender: daemon@net.bio.net Distribution: world Message-ID: <9709152053.AA02558@intron.biology.gatech.edu> NNTP-Posting-Host: net.bio.net GEORGIA TECH INTERNATIONAL CONFERENCE IN BIOINFORMATICS GENE DISCOVERY IN SILICO NOVEMBER 6 - 9, 1997 ATLANTA The focus of the conference is on gene identification and prediction of protein function using computer methods. SPONSORS: Georgia Tech College of Science Parker H. Petit Institute for Bioengineering and Bioscience at Georgia Tech SmithKline Beecham Gene Pro, Inc. Glaxo-Wellcome DATES: Deadline for poster abstracts submission: October 3, 1997 Early registration ends: October 9, 1997 Conference schedule: Registration opens at 6:00pm on Thursday, November 6, (with the reception at 8:00pm). The program starts 8:00am Friday, November 7 and ends at noon Sunday, November 9. LOCATION: The conference will be held at Renaissance Atlanta Hotel Downtown located near the center of 1996 Olympic development, close to Fox Theatre & Georgia Tech AGENDA: The conference agenda includes plenary talks (45 minutes for each talk and discussion) as well as poster sessions. PLENARY SPEAKERS: (WWW pages now contain the titles and abstracts of the presentations) Stephen Altschul NCBI/NIH, Bethesda, MD Geoff Barton University of Oxford, Oxford, UK Peer Bork EMBL, Heidelberg & MDC, Berlin, Germany Mark Borodovsky Georgia Institute of Technology, Atlanta, GA Soren Brunak Technical University of Denmark, Copenhagen, Denmark Philipp Bucher ISREC, Lausanne, Switzerland Jean-Michel Claverie Structural & Genetic Information, CNRS, Marseille, France Jim Fickett SmithKline Beecham, King of Prussia, PA Terry Gaasterland Argonne National Lab & University of Chicago, Chicago, IL Michael Gribskov San Diego Supercomputer Center, San Diego, CA Roderic Guigo Insitute Municipal d'Investigcio Medica, Barcelona, Spain Steven Henikoff Fred Hutchinson Cancer Research Center, Seattle, WA Sam Karlin Stanford University, Stanford, CA Anthony Kerlavage The Institute for Genomic Research, Rockville, MD Eugene Koonin NCBI/NIH, Bethesda, MD Pavel Pevzner University of Southern California, Los-Angeles, CA Steven Salzberg Johns Hopkins University, Baltimore, MD Victor Solovyev Amgen, Inc., Thousand Oaks, CA, Gary Stormo University of Colorado, Boulder, CO Michael Zhang Cold Spring Harbour Lab, Long Island, NY STEERING & PROGRAM COMMITTEE: Mark Borodovsky, Co-Chair, Georgia Tech Soren Brunak Technical University of Denmark Jim Fickett SmithKline Beecham Eugene Koonin, Co-Chair, NCBI/NIH GEORGIA TECH ORGANIZING COMMIT