From owner-software@net.bio.net Tue Sep 01 23:00:00 1998 Path: biosci!biosci!not-for-mail From: Nigel Brown Newsgroups: bionet.software Subject: [ANNOUNCE] MView 1.36: extract alignments from blast/fasta/other Date: 2 Sep 1998 00:42:52 -0700 Organization: EBI - European Bioinformatics Institute Lines: 34 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net MView, release 1.36 http://www.sander.ebi.ac.uk/mview/ MView is a free tool for converting the results of a sequence database search into the form of a multiple alignment of hits stacked against the query. For completeness, existing multiple alignments can be post-processed in the same way. A typical application is the generation of a colorized Web page from a BLAST or FASTA search allowing quick assessment of the hits in terms of sequence conservation patterns alongside the scoring information. Currently recognised input formats include: FASTA, TFASTX, BLASTP, BLASTP(WashU), BLAST2, PSI-BLAST, BLASTN, BLASTN(WashU), Pearson, PIR, MSF, CLUSTAL, MaxHom/HSSP, but see the Web page for the most recent information. Alternative output formats are also supported: plain text, Pearson/FASTA, PIR, and MSF, for export to other programs. MView allows filtering of the input by score, e-value thresholds, psi-blast search cycle, etc., provides a choice of coloring schemes and palettes for protein or nucleotide sequences, and can generate consensus patterns. This software requires Perl (version 5) and runs on UNIX systems. See http://www.sander.ebi.ac.uk/mview/ for details and ftp/installation instructions, and also the article: Brown, N.P., Leroy C., Sander C. (1998). MView: A Web compatible database search or multiple alignment viewer. Bioinformatics. 14(4):380-381. --------------------------------------------------------------------------- Nigel P. Brown, Nigel.Brown@ebi.ac.uk http://www.sander.ebi.ac.uk/~brown/ Tel: +44 (0)1223 494 451 FAX: 468 European Bioinformatics Institute, Hinxton, Cambridge CB10 1SD, UK --------------------------------------------------------------------------- From owner-software@net.bio.net Tue Sep 01 23:00:00 1998 Path: biosci!biosci!not-for-mail From: Jochen Gruber Newsgroups: bionet.biophysics,bionet.general,bionet.info-theory,bionet.microbiology,bionet.neuroscience,bionet.software Subject: online education in mathematics Date: 1 Sep 1998 17:30:51 -0700 Organization: VIMS Lines: 25 Sender: kristoff@net.bio.net Distribution: world Message-ID: <35EBE016.30FD7BFF@vims.net> NNTP-Posting-Host: net.bio.net Xref: biosci bionet.biophysics:4361 bionet.general:30694 bionet.info-theory:6524 bionet.microbiology:14303 bionet.neuroscience:24294 bionet.software:21764 The Virtual Institute of Mathematical Sciences is now accepting students applications. We offer post-graduate online education in mathematics and quantitative sciences. Mathematics, Statistics, Numerical mathematics and programming, mathematical sciences, quantitative aspects of engineering and economics. Visit our site at http://www.vims.net Combining the advantages of distance education and traditional universities with virtual online class rooms. Studying from your home or your work place, meeting online with other students, teaching assistants and teachers. All our teachers hold regular positions at internationally recognized universities world-wide. In addition, working professionals show real world applications. We focus on graduates with the need to continue their education in quantitative sciences. Attention university faculty and professionals: we continously accept new teachers! From owner-software@net.bio.net Tue Sep 01 23:00:00 1998 Path: biosci!news.stanford.edu!su-news-feed2.bbnplanet.com!su-news-hub1.bbnplanet.com!su-news-feed4.bbnplanet.com!news.bbnplanet.com!enews.sgi.com!news.sgi.com!newshub.sdsu.edu!franklin.ljcrf.edu!not-for-mail From: greg@franklin.burnham-inst.org (Dr. Greg Quinn) Newsgroups: bionet.software Subject: Dumping a CHIME script? Date: 2 Sep 1998 05:34:23 GMT Organization: COMPUTATIONAL BIOLOGY at The BURNHAM INSTITUTE Lines: 21 Message-ID: <6silcv$aba$1@franklin.ljcrf.edu> NNTP-Posting-Host: franklin.ljcrf.edu X-Newsreader: TIN [UNIX 1.3 950824BETA PL0] Does anyone know if there's a way to dump a rasmol-format script using javascript from a CHIME plugin? (I know you can do this using the CHIME popup menu). Thanks Greg -- ***************************************** Computational Biology Group The Burnham Institute (formerly La Jolla Cancer Research Inst.) 12901 North Torrey Pines road La Jolla CA92037 Phone:(619) 646 3103 Email: greg@franklin.ljcrf.edu http://franklin.ljcrf.edu/greg http://www.greg.com/ ***************************************** From owner-software@net.bio.net Tue Sep 01 23:00:00 1998 Path: biosci!HSR.IT!lavorgna.giovanni From: lavorgna.giovanni@HSR.IT Newsgroups: bionet.software Subject: Announce: TargetFinder Date: 2 Sep 1998 10:00:58 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 38 Sender: daemon@net.bio.net Distribution: world Message-ID: <2.2.32.19980902165309.006cbafc@mail.hsr.it> NNTP-Posting-Host: net.bio.net TargetFinder: a new tool to perform database searches for candidate target genes of transcription factors. Giovanni Lavorgna (1), Alessandro Guffanti (2), Giuseppe Borsani (2) Andrea Ballabio (2) and Edoardo Boncinelli (1). (1) DIBIT, Istituto Scientifico H. S. Raffaele, Via Olgettina 60, 20132 Milano, Italy (2) Telethon Institute of Genetics and Medicine (TIGEM), San Raffaele Biomedical Science Park, Via Olgettina 58, 20132 Milano, Italy TargetFinder is now available at http://hercules.tigem.it/TargetFinder.html TargetFinder is a new tool to facilitate database searches for candidate target genes of transcription factors. The use of this program allows to search a database of annotated sequences for binding sites located in context with other important transcription regulatory signals and regions, like the TATA element, the transcription start site, the promoter and so on, thereby greatly reducing the background usually associated with this kind of searches. ------------------------------------ If you've problems, bug report or any proposal on how to improve TargetFinder program, please contact me at the following address: Giovanni Lavorgna DIBIT-HSR Via Olgettina, 58 20132 Milano Italy Tel. +39-02-26434776 Fax. +39-02-26434767 Email : giovanni.lavorgna@hsr.it From owner-software@net.bio.net Tue Sep 01 23:00:00 1998 Path: biosci!news.stanford.edu!su-news-feed2.bbnplanet.com!su-news-hub1.bbnplanet.com!news.bbnplanet.com!logbridge.uoregon.edu!news.rediris.es!news.cesca.es!lilith.uab.es!newsmgr From: "Ŕngel Pérez Beroy" Newsgroups: bionet.software Subject: Alignement of small molecs. Date: Wed, 26 Aug 1998 19:03:21 +0200 Organization: Universitat Autonoma de Barcelona Lines: 11 Distribution: inet Message-ID: <6s1f37$78n@lilith.uab.es> NNTP-Posting-Host: ub145104.ubppp.ub.es X-Newsreader: Microsoft Outlook Express 4.71.1712.3 X-MimeOLE: Produced By Microsoft MimeOLE V4.71.1712.3 I'm looking for a soft for alignment of small molecules whit pharmacological activity. It should not be as expensive as biosym solutions. I ear about some called ... Apollo may be? Can anyone help me? Thank you From owner-software@net.bio.net Tue Sep 01 23:00:00 1998 Path: biosci!news.stanford.edu!su-news-feed2.bbnplanet.com!su-news-hub1.bbnplanet.com!news.bbnplanet.com!logbridge.uoregon.edu!news.rediris.es!news.cesca.es!lilith.uab.es!newsmgr From: "Ŕngel Pérez Beroy" Newsgroups: bionet.software Subject: Re: I need fortran Date: Wed, 26 Aug 1998 18:56:52 +0200 Organization: Universitat Autonoma de Barcelona Lines: 10 Distribution: inet Message-ID: <6s1f30$78n@lilith.uab.es> References: <35e3425e.6173836@news.tel.hr> NNTP-Posting-Host: ub145104.ubppp.ub.es X-Newsreader: Microsoft Outlook Express 4.71.1712.3 X-MimeOLE: Produced By Microsoft MimeOLE V4.71.1712.3 razglas@iname.com escribió en mensaje <35e3425e.6173836@news.tel.hr>... > I need fortran for PC urgent !!!! May be from gnu? I think there is a gnu's fortran compiler, not only fortran to C translator. From owner-software@net.bio.net Tue Sep 01 23:00:00 1998 Path: biosci!news.stanford.edu!Cabal.CESspool!news-feed.inet.tele.dk!bofh.vszbr.cz!fu-berlin.de!we27pc04.ukbf.fu-berlin.DE!not-for-mail From: "Oliver Politz" Newsgroups: bionet.software Subject: wanted program to reduce data from HPLC Date: Wed, 2 Sep 1998 14:54:01 +0200 Organization: Freie Universitaet Berlin Lines: 12 Message-ID: <6sjfc3$517$1@fu-berlin.de> NNTP-Posting-Host: we27pc04.ukbf.fu-berlin.de (160.45.184.205) Mime-Version: 1.0 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: 8bit X-Access: 16 17 19 X-Trace: fu-berlin.de 904741059 5159 (none) 160.45.184.205 X-Newsreader: Microsoft Outlook Express 4.72.3110.5 X-MimeOLE: Produced By Microsoft MimeOLE V4.72.3110.3 Hello, I am looking for a little program or Excel makro to reduce data from HPLC runs. The file I got is pure ASC with one value per line and has only the y-axis in it. I would like to tell the program "take every second... hundred or so line into a new file (or table). Has anybody a solution for this ? Thanks Oliver email : politz@medizin.fu-berlin.de From owner-software@net.bio.net Tue Sep 01 23:00:00 1998 Path: biosci!news.stanford.edu!newsfeed.berkeley.edu!news.maxwell.syr.edu!news-peer.gip.net!news.gsl.net!gip.net!news-peer.sprintlink.net!news-backup-west.sprintlink.net!news.sprintlink.net!128.218.95.22!itssrv1.ucsf.edu!macmac-2.ucsf.edu!user From: bpmurray*STUFFER*@socrates.ucsf.edu (Bernard P. Murray, PhD) Newsgroups: bionet.software Subject: Re: wanted program to reduce data from HPLC Date: Wed, 02 Sep 1998 13:53:40 -0700 Organization: University of California, San Francisco Lines: 33 Message-ID: References: <6sjfc3$517$1@fu-berlin.de> NNTP-Posting-Host: macmac-2.ucsf.edu In article <6sjfc3$517$1@fu-berlin.de>, "Oliver Politz" wrote: > Hello, > I am looking for a little program or Excel makro to reduce data from HPLC > runs. > The file I got is pure ASC with one value per line and has only the y-axis > in it. > I would like to tell the program "take every second... hundred or so line > into a new file (or table). > Has anybody a solution for this ? > Thanks Oliver > email : politz@medizin.fu-berlin.de Since you mention Excel I am assuming you are using a PC or Mac platform. One very flexible solution would be to install an AWK interpreter and use a simple AWK script to select the lines you require. For the PC I use GNU's GAWK and for the Mac, MacGAWK. AWK is a very simple and flexible file processing language and is ideally suited to this task. If you choose to go this route I can send you an AWK script for the purpose - or if you want it done properly post the question to comp.lang.awk where you will, I am sure, receive many informative replies. Other possibilities are to use Perl (in a similar manner to AWK) or to bring the file into your favourite word processor where you can write a macro/script/whatever for copying every n'th line to another document. I hope that this helps, Bernard -- Bernard P. Murray, PhD Dept. Cell. Mol. Pharmacol., UCSF, San Francisco, USA From owner-software@net.bio.net Tue Sep 01 23:00:00 1998 Path: biosci!IRIS.BIO.USTC.EDU.CN!zhouli From: zhouli@IRIS.BIO.USTC.EDU.CN (Zhou Li) Newsgroups: bionet.software Subject: GOLPE3.0 Date: 2 Sep 1998 07:07:17 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 16 Sender: daemon@net.bio.net Distribution: world Message-ID: <35EE231C.41C6@iris.bio.ustc.edu.cn> NNTP-Posting-Host: net.bio.net Hi, Does anybody know where on can i find this program? ( Multivariate Infometric Analysis,Viale dei Castagni 16,Perugia,Italy. ) Thanks. -- Li Zhou Graduate Student on SBDD ( Structure Based Drug Design ) Molecular Modelling Group Laboratory of Structural Biology Dept. of Cell and Molecular Biology College of Life Sciences Univ. of Science and Technology of China Hefei 230027 P.R.China From owner-software@net.bio.net Thu Sep 03 23:00:00 1998 Path: biosci!news.stanford.edu!su-news-feed2.bbnplanet.com!su-news-hub1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!news-nyc.telia.net!uunet!uunet!in2.uu.net!server-b.cs.interbusiness.it!not-for-mail From: "data.ware" Newsgroups: bionet.software Subject: ST - Sw per l'elaborazione dell'orario scolastico Date: 4 Sep 1998 17:14:14 GMT Organization: Centro Servizi Interbusiness Lines: 3 Message-ID: <01bdd827$c6ed3340$17b26397@sica.uniplan.it> NNTP-Posting-Host: 151.99.178.23 X-Newsreader: Microsoft Internet News 4.70.1155 Per informazioni: http://www.netgroup.it/datagroup/dataware From owner-software@net.bio.net Thu Sep 03 23:00:00 1998 Path: biosci!news.stanford.edu!su-news-feed2.bbnplanet.com!su-news-hub1.bbnplanet.com!atl-news-feed1.bbnplanet.com!news.bbnplanet.com!news.ipass.net!not-for-mail From: "Preble" Newsgroups: bionet.software Subject: Bio-photo/graph reader Lines: 28 X-Newsreader: Microsoft Outlook Express 4.72.3110.5 X-MimeOLE: Produced By Microsoft MimeOLE V4.72.3110.3 Message-ID: <7WWH1.1537$yo1.37417000@news.ipass.net> Date: Fri, 04 Sep 1998 19:09:55 GMT NNTP-Posting-Host: ts3-152-ppp.ipass.net NNTP-Posting-Date: Fri, 04 Sep 1998 15:09:55 EDT Organization: iPass.Net I’m interested in feedback on a utility that I’m working on that I'm hoping can be used in the biotech fields. If you have a graph, but not the data that made the graph, this utility can get that data accurately so you don’t have to manually read points off the graph. It can retrieve data from any graph, chart, or scaled picture. It works by importing a picture file (most popular formats accepted) into Excel 97. The user then defines the scale and data type that is being grabbed. Data can be linear or logarithmic scale. Charts can be numeric, date or time oriented. Also, any picture with a scale mark can be calibrated to measure distances (maps, schematics, micrographs, etc.). The data is retrieved in real time to the spreadsheet. Multiple data sets can be retrieved sequentially without starting over. Do you think that this utility is useful in your work? If not, why? What features would you like to see so that it would be helpful? See www.datatrendsoftware.com for more information or email to preble@ipass.net and ask about Grab It! A demo and examples are available at the web site or can be emailed on request. Thanks a lot for helping! Edward Preble preble@ipass.net From owner-software@net.bio.net Thu Sep 03 23:00:00 1998 Path: biosci!pravda.ucr.edu!awabi.library.ucla.edu!208.134.241.18!newsfeed.internetmci.com!198.138.0.5!newshub.northeast.verio.net!fu-berlin.de!news.uni-stuttgart.de!not-for-mail From: Jochen Gruber Newsgroups: sci.cognitive,bionet.software,sci.comp-aided,sci.edu,misc.education.science Subject: Online education in quantitative sciences Date: Fri, 04 Sep 1998 14:32:04 +0200 Organization: VIMS Lines: 26 Message-ID: <35EFDDC4.B15F9292@vims.net> NNTP-Posting-Host: calculix.mathematik.uni-stuttgart.de Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 4.05 [en] (X11; I; Linux 2.0.35 i686) The Virtual Institute of Mathematical Sciences is now accepting students applications. We offer post-graduate online education in mathematics and quantitative sciences. Mathematics, Statistics, Numerical mathematics and programming, mathematical sciences, quantitative aspects of engineering and economics. Visit our site at http://www.vims.net Inlcuding a section for economics with non-mathematical courses. Combining the advantages of distance education and traditional universities with virtual online class rooms. Studying from your home or your work place, meeting online with other students, teaching assistants and teachers. All our teachers hold regular positions at internationally recognized universities world-wide. In addition, working professionals show real world applications. We focus on graduates with the need to continue their education in quantitative sciences. Attention university faculty and professionals: we continuously accept new teachers! From owner-software@net.bio.net Fri Sep 04 23:00:00 1998 Path: biosci!agate!newsfeed.berkeley.edu!ihnp4.ucsd.edu!news1.ucsd.edu!not-for-mail From: rmeili.bananas@hotmail.com Newsgroups: bionet.software Subject: Re: [Sorry, there were bugs !]CloneIt Finding cloning strategies using restriction enzymes and DNA Polymerases Date: 4 Sep 98 23:33:46 -0700 Organization: University of California at San Diego Lines: 10 Message-ID: References: <6s6f1r$igg$2@saphir.jouy.inra.fr> NNTP-Posting-Host: firtel-203-171.ucsd.edu Mime-Version: 1.0 Content-Type: text/plain; charset=US-ASCII Content-Transfer-Encoding: 7bit X-Mailer: Cyberdog/2.0 X-News-Servers: news X-Newsgroups-TO: nntp://news/bionet.software Did anybody compile it for the mac? I do not have the tools and the experience to do it so I would be interested in a binary version! Thank you very much! Ruedi Remove the fruit to reply From owner-software@net.bio.net Fri Sep 04 23:00:00 1998 Path: biosci!agate!newsfeed.berkeley.edu!news.maxwell.syr.edu!news.cis.ohio-state.edu!malgudi.oar.net!news.cas.org!not-for-mail From: lvirden@cas.org Newsgroups: bionet.software Subject: Re: linked journals online? Date: 5 Sep 1998 11:39:42 GMT Organization: Nedriv Software and Shoe Shiners, Uninc. Lines: 40 Message-ID: <6sr7tu$k01$1@srv38s4u.cas.org> References: Reply-To: lvirden@cas.org NNTP-Posting-Host: lwv26awu.cas.org Mime-Version: 1.0 Content-Type: text/plain; charset=US-ASCII Content-Transfer-Encoding: 7BIT X-Newsreader: trn 4.0-test68 (29 August 1998) Originator: lwv26@cas.org (Larry W. Virden) According to deena vichugsananon : :I would absolutely love it if in my lifetime somehow all papers/articles/ :reviews were on the Web (diagrams and all) and you could read the whole :thing, AND, the references in the paper.... (y'know like, (Brown, 1990)) :were all LINKS, and you could immediately click on it and read THAT :paper. So would a lot of others. :Plus, if all journals were on the Web, subscriptions would probably go :down, because any terminal is accessible by any number of people. But :then, even hard copy journals have a way of going from desk to desk. Ah - but with electronic, the publishers just charge each person looking at an article. That way, they make _more_ money than before . :I can't think of all the pros and cons as to why this hasn't been :done yet. The technology is certainly there. I'm curious if someone :is working on this, or knows of an attempt to build such a system. 1. Many sites want to 'keep the eyes on the site as long as possible'. Providing links to other, competitive sites, defeats that purpose. 2. One of the toughest things in my opinion is that no agreement as to persistent document naming and ecommerce payment schemes has been reached. The document naming plays a part in keeping the links around forever. Until that happens, the cost of trying to keep links current becomes very high. The ecommerce payment scheme plays a part because, until publishers can reliably recover their costs AND the costs are low enough to be affordable to the majority of subscribers, we operate in a mode of experimentation. A number of experiments, both free and commercial, exist out on the net. Hopefully others will provide additional pointers in this thread. -- Quote: In heaven, there is no panic, <*> O- only planning. Unless explicitly stated to the contrary, nothing in this posting should be construed as representing my employer's opinions. From owner-software@net.bio.net Fri Sep 04 23:00:00 1998 Path: biosci!bloom-beacon.mit.edu!news.kodak.com!news-nysernet-16.sprintlink.net!news.sprintlink.net!128.122.253.90!newsfeed.nyu.edu!newshub.northeast.verio.net!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!newsfeed.internetmci.com!139.130.250.2!intgwpad.nntp.telstra.net!nsw.nnrp.telstra.net!not-for-mail From: "Apex News group" Newsgroups: alt.comp.software.easter-eggs,alt.comp.software.financial.peachtree,alt.comp.software.njdm,alt.comp.software.tools,alt.fan.dean-stark.software.tester,alt.med.software,alt.video.dvd.software,bionet.software,bionet.software.acedb,bionet.software.gc Subject: Get your software cheap here. ACT Australia trader Lines: 89 X-Newsreader: Microsoft Outlook Express 4.72.3155.0 X-MimeOLE: Produced By Microsoft MimeOLE V4.72.3155.0 Organization: ORAC Global Internet customer - http://www.orac.net.au/ Message-ID: <905017777.599591@draal.apex.net.au> Cache-Post-Path: draal.apex.net.au!unknown@ppp-14.apex.net.au X-Cache: nntpcache 2.3.2.1 (see http://www.nntpcache.org/) Cache-Post-Path: zen.orac.net.au!news@draal.apex.net.au Date: Sun, 6 Sep 1998 03:41:33 +1000 NNTP-Posting-Host: 203.30.77.33 X-Complaints-To: abuse@telstra.net X-Trace: nsw.nnrp.telstra.net 905017566 203.30.77.33 (Sun, 06 Sep 1998 03:46:06 EST) NNTP-Posting-Date: Sun, 06 Sep 1998 03:46:06 EST Xref: biosci bionet.software:21781 bionet.software.acedb:1924 Software CDs for Sale TITLE DISCRIPTION $ EA Sports World Cup 98 Experience the France World Cup 98 in your own bedroom! Choose your favorite team! Able to link to other players via a modem. 13 EA Sports AFL 98 Even better than the real thing, because you decide who wins the Grand Finale. Choose your favorite team! Able to link to other players via a modem. 13 Forsaken In the Future the Earth becomes a battle-ground for scums from the entire Universe. 13 Star Craft From Blizzard Entertainment. If you liked War Craft 1 & 2 you would love this! 13 The Pandora Directive Interactive Movie (6cds) Rating: 10 out of 10! Just like watching a movie, but you decide what happens in this detective game/interactive movie 45 CREATIVE KEYTAR Guitar instructor 5 CAKEWALK EXPRESS GOLD 256 track MIDI and 4 track digital audio sequencer. 10 CREATIVE VIDEO WEBPHONE Communicate in real-time full duplex over the internet with voice and audio. 5 CREATIVE AUDIO SOFTWARE Creative Multimedia Deck, Creative WaveStudio, Creative Sound’le, Vienna Sound Font Studio. 10 CREATIVE INSPIRE Simple Radio/VCR interface for use of the internet. 10 BAND IN A BOX 7.0 PRO Intelligent Music Accompaniment Software for your MIDI Music System or PC Sound Card. 10 POWER TRACKS PRO IBM Sequencer for Windows & Dos 10 MUSIC CENTRAL 97 The most comprehensive guide to modern music. 10 MICROSOFT WINDOWS 98 (FULL VERSION) The latest operating system from Microsoft 15 MICROSOFT WINDOWS 98 STARTS HERE Tutorial for Windows 98 5 MICROSOFT OFFICE 97 (PROFESSIONAL EDITION) The best in office software. Includes Word, Excel, Access, Outlook and Power Point. 10 MICROSOFT ENCARTA 98 ENCYCLOPEDIA DELUXE (2 CDs) The ultimate in learning resource 15 MICROSOFT ENCARTA 1998 EDITION – VIRTUAL GLOBE The most comprehensive geographic reference. 10 MICROSOFT BOOKSHELF 1996.97 EDITION Spend your time using information instead of looking for it. Access 9 of the latest reference works: ď‚· Microsoft Bookshelf Internet Directory ď‚· Concise Encarta World Atlas ď‚· The American Heritage Dictionary ď‚· The Original Roget’s Thesaurus ď‚· The World Almanac and Book of Facts ď‚· The Concise Columbia Encyclopedia ď‚· The Columbia Dictionary of Quotations ď‚· The People’s Chronology and National 5 digit Code and Post Office Directory (USA) 10 MICROSOFT CINEMANIA 97 The best-selling interactive guide to the movies and the moviemakers. 10 BRITANNICA ENCYCLOPAEDIA CD 97 Every volume of the Britannica is in this CD -ROM 10 BRITANNICA ENCYCLOPAEDIA CD 98 (3 CDs) Every volume of the Britannica is in this CD –ROM plus Multimedia Discs not included with previous versions. 25 COMPTON’S INTERACTIVE ENCYCLOPEDIA 1997 Editor’s Choice Award by PC Magazine 10 OXFORD ADVANCED LEARNER’S ENGLISH- CHINESE DICTIONARY 4.0 10 IBM VOICE TYPE 3.0 Turn spoken words into accurate text simply by talking to your computer. 10 3D EYE TRI SPECTIVES LITE 3D drawing program for Windows 95 10 ASYMETRIX DEGITIAL VIDEO PRODUCER 4.0 Easily capture and edit video and audio for spectacular results 10 ADOBE PAGEMAKER 6.5 FOR WINDOWS 95 10 ADOBE ILLUSTOR 7.0 FOR WINDOWS 95 Drawing Program 10 ADOBE PHOTOSHOP 4.0 FOR WINDOWS 95 The world – standard photo design and production tool. 10 SUPERVOICE Receive and send faxes Receive voice messages Pager notification Caller ID Fax on demand Phone book Remote retrieval of voice & fax messages 10 If there’s a game that’s not listed here, please contact me through E-mail. I have access to 90% of the latest releases, don’t hesitate to contact me! For any inquiries or if you simply would like to place an order, you can either: ď‚· E-mail to the following address bargaincds@hotmail.com. Leave your full name, year level, title of the CD, Artist, quantity and your telephone number or e-mail address. OR ď‚· Fill in the order form placed next to this poster. From owner-software@net.bio.net Fri Sep 04 23:00:00 1998 Path: biosci!daresbury!daresbury!server5.netnews.ja.net!nntp.news.xara.net!xara.net!dispose.news.demon.net!demon!woodstock.news.demon.net!demon!news.vienna.good.net!news.good.net!news.megsinet.net!uunet!uunet!in3.uu.net!server-b.cs.interbusiness.it!news.tin.it!not-for-mail From: excell@bware.it Newsgroups: bionet.software Subject: Announce: how to SEND EMAIL AND NEWS from your GSM PHONE Date: 26 Aug 1998 10:49:56 GMT Organization: eXcell GSM/SMS gateway Message-ID: <6s0p8k$ifv$5170@nslave1.tin.it> NNTP-Posting-Host: rub182.mi03.mi.interbusiness.it Mime-Version: 1.0 Content-Type: text/plain Lines: 27 Your GSM phone is already connected to the Internet! Now you can send EMAIL and post to newsgroups directly from your GSM phone. Just write a short message (SMS) with the syntax: EMAIL user@host message and then send it to the "eXcell" phone number at +393388641732 If your phone does not have the @ character you can use the ! , like: EMAIL user!host message There are several options available, such as a personal signature, a personal email address configuration for getting back replies, personal mailing lists, anti-spamming, carbon copy, phone number anonymizer, etc.etc. The only cost for you is the SMS shipping; normally a few pennies. Our service is currently being used by the GSM users of 40 different countries all around the world, using more than 80 different GSM networks. And it will certainly work for you also, so give it a try! To know more about eXcell, and to get the complete user's guide, come and visit http://www.bware.it/excell ( no advertising banners ) Be an eXcellent GSM user! From owner-software@net.bio.net Fri Sep 04 23:00:00 1998 Path: biosci!bloom-beacon.mit.edu!news.kodak.com!news-nysernet-16.sprintlink.net!206.229.87.26!news-east.sprintlink.net!news-peer.sprintlink.net!news.sprintlink.net!newsfeed.direct.ca!newspeer.monmouth.com!intgwpad.nntp.telstra.net!nsw.nnrp.telstra.net!not-for-mail From: "Apex News group" Newsgroups: alt.comp.software.easter-eggs,alt.comp.software.financial.peachtree,alt.comp.software.njdm,alt.comp.software.tools,alt.fan.dean-stark.software.tester,alt.med.software,alt.video.dvd.software,bionet.software,bionet.software.acedb,bionet.software.gc Subject: Cheap CDs from ACT Australia, Check out my List! Lines: 533 MIME-Version: 1.0 Content-Type: multipart/alternative; boundary="----=_NextPart_000_0032_01BDD948.E68FD320" X-Newsreader: Microsoft Outlook Express 4.72.3155.0 X-MimeOLE: Produced By Microsoft MimeOLE V4.72.3155.0 Organization: ORAC Global Internet customer - http://www.orac.net.au/ Message-ID: <905018089.360680@draal.apex.net.au> Cache-Post-Path: draal.apex.net.au!unknown@ppp-14.apex.net.au X-Cache: nntpcache 2.3.2.1 (see http://www.nntpcache.org/) Cache-Post-Path: zen.orac.net.au!news@draal.apex.net.au Date: Sun, 6 Sep 1998 03:46:16 +1000 NNTP-Posting-Host: 203.30.77.33 X-Complaints-To: abuse@telstra.net X-Trace: nsw.nnrp.telstra.net 905017943 203.30.77.33 (Sun, 06 Sep 1998 03:52:23 EST) NNTP-Posting-Date: Sun, 06 Sep 1998 03:52:23 EST Xref: biosci bionet.software:21782 bionet.software.acedb:1925 This is a multi-part message in MIME format. ------=_NextPart_000_0032_01BDD948.E68FD320 Content-Type: text/plain; charset="iso-8859-1" Content-Transfer-Encoding: quoted-printable Software CDs for Sale TITLE DISCRIPTION $ =20 EA Sports World Cup 98 Experience the France World Cup 98 in your own bedroom! = Choose your favorite team! Able to link to other players via a modem. 13 =20 EA Sports AFL 98 Even better than the real thing, because you decide who = wins the Grand Finale. Choose your favorite team! Able to link to other = players via a modem. 13 =20 Forsaken=20 In the Future the Earth becomes a battle-ground for scums = from the entire Universe. 13 =20 Star Craft=20 From Blizzard Entertainment. If you liked War Craft 1 & 2 = you would love this! 13 =20 The Pandora Directive Interactive Movie (6cds) Rating: 10 out of 10! Just like watching a movie, but you = decide what happens in this detective game/interactive movie 45 =20 CREATIVE KEYTAR Guitar instructor 5 =20 CAKEWALK EXPRESS GOLD 256 track MIDI and 4 track digital audio sequencer. 10 =20 CREATIVE VIDEO WEBPHONE Communicate in real-time full duplex over the internet with = voice and audio. 5 =20 CREATIVE AUDIO SOFTWARE Creative Multimedia Deck, Creative WaveStudio, Creative = Sound=92le, Vienna Sound Font Studio. 10 =20 CREATIVE INSPIRE Simple Radio/VCR interface for use of the internet.=20 10 =20 BAND IN A BOX 7.0 PRO Intelligent Music Accompaniment Software for your MIDI = Music System or PC Sound Card. 10 =20 POWER TRACKS PRO IBM Sequencer for Windows & Dos 10 =20 MUSIC CENTRAL 97 The most comprehensive guide to modern music. 10 =20 =20 MICROSOFT WINDOWS 98 (FULL VERSION) The latest operating system from Microsoft 15 =20 MICROSOFT WINDOWS 98 STARTS HERE Tutorial for Windows 98 5 =20 MICROSOFT OFFICE 97 (PROFESSIONAL EDITION) The best in office software. Includes Word, Excel, Access, = Outlook and Power Point. 10 =20 MICROSOFT ENCARTA 98 ENCYCLOPEDIA DELUXE (2 CDs) The ultimate in learning resource 15 =20 MICROSOFT ENCARTA 1998 EDITION =96 VIRTUAL GLOBE The most comprehensive geographic reference. 10 =20 =20 MICROSOFT BOOKSHELF 1996.97 EDITION Spend your time using information instead of looking for = it. Access 9 of the latest reference works:=20 a.. Microsoft Bookshelf Internet Directory=20 b.. Concise Encarta World Atlas c.. The American Heritage Dictionary d.. The Original Roget=92s Thesaurus=20 e.. The World Almanac and Book of Facts f.. The Concise Columbia Encyclopedia g.. The Columbia Dictionary of Quotations h.. The People=92s Chronology and National 5 digit Code = and Post Office Directory (USA) 10 =20 MICROSOFT CINEMANIA 97 The best-selling interactive guide to the movies and the = moviemakers.=20 10 =20 BRITANNICA ENCYCLOPAEDIA CD 97 Every volume of the Britannica is in this CD -ROM 10 =20 BRITANNICA ENCYCLOPAEDIA CD 98 (3 CDs) Every volume of the Britannica is in this CD =96ROM plus = Multimedia Discs not included with previous versions.=20 25 =20 COMPTON=92S INTERACTIVE ENCYCLOPEDIA 1997 Editor=92s Choice Award by PC Magazine=20 10 =20 OXFORD ADVANCED LEARNER=92S ENGLISH- CHINESE DICTIONARY 4.0 10 =20 IBM VOICE TYPE 3.0 Turn spoken words into accurate text simply by talking to = your computer. 10 =20 3D EYE TRI SPECTIVES LITE 3D drawing program for Windows 95=20 10 =20 ASYMETRIX DEGITIAL VIDEO PRODUCER 4.0 Easily capture and edit video and audio for spectacular = results 10 =20 ADOBE PAGEMAKER 6.5 FOR WINDOWS 95 10 =20 ADOBE ILLUSTOR 7.0 FOR WINDOWS 95 Drawing Program 10 =20 ADOBE PHOTOSHOP 4.0 FOR WINDOWS 95 The world =96 standard photo design and production tool. 10 =20 SUPERVOICE Receive and send faxes Receive voice messages Pager notification Caller ID Fax on demand Phone book Remote retrieval of voice & fax messages 10 =20 If there=92s a game that=92s not listed here, please contact me through = E-mail. I have access to 90% of the latest releases, don=92t hesitate to = contact me! For any inquiries or if you simply would like to place an order, you can = either: a.. E-mail to the following address bargaincds@hotmail.com. Leave = your full name, year level, title of the CD, Artist, quantity and your = telephone number or e-mail address.=20 a..=20 ------=_NextPart_000_0032_01BDD948.E68FD320 Content-Type: text/html; charset="iso-8859-1" Content-Transfer-Encoding: quoted-printable

Software CDs for Sale

TITLE

DISCRIPTION

$

EA Sports World Cup 98

Experience the France World Cup 98 in your own bedroom! = Choose=20 your favorite team! Able to link to other players via a = modem.

13

EA Sports AFL 98

Even better than the real thing, because you decide who = wins the=20 Grand Finale. Choose your favorite team! Able to link to = other=20 players via a modem.

13

Forsaken

In the Future the Earth becomes a battle-ground for scums = from=20 the entire Universe.

13

Star Craft

From Blizzard Entertainment. If you liked War Craft 1 = & 2 you=20 would love this!

13

The Pandora Directive Interactive Movie=20 (6cds)

Rating: 10 out of 10! Just like watching a movie, but you = decide=20 what happens in this detective game/interactive = movie

45

CREATIVE KEYTAR

Guitar instructor

5

CAKEWALK EXPRESS GOLD

256 track MIDI and 4 track digital audio = sequencer.

10

CREATIVE VIDEO WEBPHONE

Communicate in real-time full duplex over the internet = with voice=20 and audio.

5

CREATIVE AUDIO SOFTWARE

Creative Multimedia Deck, Creative WaveStudio, Creative=20 Sound’le, Vienna Sound Font Studio.

10

CREATIVE INSPIRE

Simple Radio/VCR interface for use of the internet. =

10

BAND IN A BOX 7.0 PRO

Intelligent Music Accompaniment Software for your MIDI = Music=20 System or PC Sound Card.

10

POWER TRACKS PRO

IBM Sequencer for Windows & Dos

10

MUSIC CENTRAL 97

The most comprehensive guide to modern music.

10

     

MICROSOFT WINDOWS 98 (FULL VERSION)

The latest operating system from Microsoft

15

MICROSOFT WINDOWS 98 STARTS HERE

Tutorial for Windows 98

5

MICROSOFT OFFICE 97 (PROFESSIONAL EDITION)

The best in office software. Includes Word, Excel, = Access,=20 Outlook and Power Point.

10

MICROSOFT ENCARTA 98 ENCYCLOPEDIA DELUXE (2 = CDs)

The ultimate in learning resource

15

MICROSOFT ENCARTA 1998 EDITION – VIRTUAL = GLOBE

The most comprehensive geographic reference.

10

     

MICROSOFT BOOKSHELF 1996.97 EDITION

Spend your time using information instead of looking for = it.=20 Access 9 of the latest reference works:

  • Microsoft Bookshelf Internet Directory
  • Concise Encarta World Atlas
  • The American Heritage Dictionary
  • The Original Roget’s Thesaurus
  • The World Almanac and Book of Facts
  • The Concise Columbia Encyclopedia
  • The Columbia Dictionary of Quotations
  • The People’s Chronology and National 5 digit = Code and=20 Post Office Directory (USA)

10

MICROSOFT CINEMANIA 97

The best-selling interactive guide to the movies and the=20 moviemakers.

10

BRITANNICA ENCYCLOPAEDIA CD 97

Every volume of the Britannica is in this CD = -ROM

10

BRITANNICA ENCYCLOPAEDIA CD 98 (3 = CDs)

Every volume of the Britannica is in this CD –ROM = plus=20 Multimedia Discs not included with previous versions. =

25

COMPTON’S INTERACTIVE ENCYCLOPEDIA = 1997

Editor’s Choice Award by PC Magazine

10

OXFORD ADVANCED LEARNER’S ENGLISH- CHINESE = DICTIONARY=20 4.0

  

10

IBM VOICE TYPE 3.0

Turn spoken words into accurate text simply by talking to = your=20 computer.

10

3D EYE TRI SPECTIVES LITE

3D drawing program for Windows 95

10

ASYMETRIX DEGITIAL VIDEO PRODUCER 4.0

Easily capture and edit video and audio for spectacular=20 results

10

ADOBE PAGEMAKER 6.5 FOR WINDOWS 95

  

10

ADOBE ILLUSTOR 7.0 FOR WINDOWS 95

Drawing Program

10

ADOBE PHOTOSHOP 4.0 FOR WINDOWS 95

The world – standard photo design and production = tool.

10

SUPERVOICE

Receive and send faxes

Receive voice messages

Pager notification

Caller ID

Fax on demand

Phone book

Remote retrieval of voice & fax messages

10

 

 

If there’s a game that’s not listed here, please contact = me=20 through E-mail. I have access to 90% of the latest releases, don’t = hesitate to contact me!

For any inquiries or if you simply would like to place an order, you = can=20 either:

  • E-mail to the following address bargaincds@hotmail.com. Leave your full name, year = level, title=20 of the CD, Artist, quantity and your telephone number or e-mail = address.=20

 

------=_NextPart_000_0032_01BDD948.E68FD320-- From owner-software@net.bio.net Sat Sep 05 23:00:00 1998 Path: biosci!news.stanford.edu!newsfeed.berkeley.edu!howland.erols.net!vixen.cso.uiuc.edu!dhardy From: dhardy@students.uiuc.edu (david joseph hardy) Newsgroups: bionet.software Subject: Announce: NAMD 1.5 released Date: 6 Sep 1998 00:38:08 GMT Organization: University of Illinois at Urbana-Champaign Lines: 93 Message-ID: <6sslhg$dq2$1@vixen.cso.uiuc.edu> NNTP-Posting-Host: ux9.cso.uiuc.edu Announcing the release of NAMD version 1.5 ------------------------------------------ The Theoretical Biophysics group of the Beckman Institute at the University of Illinois would like to announce the availability of version 1.5 of NAMD, a high-performance molecular mechanics program for simulating large biomolecular systems on parallel and distributed computers. This software is being made available to the molecular modeling community free of charge and includes commented source code and extensive documentation. New in this version ------------------- * Added features include rigid bonds and moving harmonic restraints. * Updated user guide, also available in HTML form. * Modified to work with PVM 3.4 beta. * Enhanced performance by as much as 30%. * Modified to work with the latest version of DPMTA (2.7). * Included DPMTA source to make installation easier. * Simplified build process, fewer options to specify, better documentation. * Several bug fixes. ==================== Basic information about NAMD ====================== Obtaining NAMD -------------- A more complete description of NAMD is available on the NAMD home page: http://www.ks.uiuc.edu/Research/namd/ The software itself is available via anonymous ftp in the directory: ftp://ftp.ks.uiuc.edu/pub/mdscope/namd/ Email questions to namd@ks.uiuc.edu. Features -------- Efficient full electrostatics: NAMD incorporates the Distributed Parallel Multipole Tree Algorithm (DPMTA) developed by the Scientific Computing Group at Duke University to provide full electrostatic interactions in O(N) time. To further reduce the computational cost, DPMTA is integrated using a multiple timestep integration scheme which computes full electrostatic interactions only periodically during the simulation. Scalable parallelism: NAMD has an efficient parallel design that allows large systems to scale well to many processors. The use of a spatial decomposition scheme combined with message-driven execution achieves load balance and the overlap of communication and computation. Modifiable: A major design goal of NAMD is to allow researchers to implement new algorithms and techniques easily. To achieve this, NAMD design and implementation is fully documented in the NAMD Programming Guide. NAMD has an object-oriented design implemented in C++ to provide a high degree of modularity and data abstraction. Portable: For communication, NAMD uses PVM (Parallel Virtual Machine) from Oak Ridge National Laboratory, which has itself been ported to most architectures. Porting NAMD is then simply a matter of having PVM and a reasonable C++ compiler. We have successfully ported NAMD to all of our UNIX machines, which include HP, SGI, Sun, and Linux, both single processor and shared memory multiprocessor. Compatibility with X-PLOR: The input and output files used by NAMD are identical to those used by the program X-PLOR. Thus, simulations can be easily migrated between the two packages, allowing the output of NAMD to be analyzed using X-PLOR or any other tool built for these file formats. Standard MD features: NAMD implements standard molecular dynamics features such as energy minimization, velocity rescaling, spherical boundary conditions, harmonic constraints, and Langevin dynamics. Requirements ------------ * UNIX with C and C++ compilers. * PVM (http://www.epm.ornl.gov/pvm/pvm_home.html). * For generating required PSF structure files, we recommend X-PLOR (http://xplor.csb.yale.edu/xplor-info/xplor-info.html). ========================================================================== Theoretical Biophysics Group NIH Resource for Macromolecular Modeling and Bioinformatics Beckman Institute for Advanced Science and Technology University of Illinois at Urbana-Champaign David Hardy namd@ks.uiuc.edu September 4, 1998 From owner-software@net.bio.net Sat Sep 05 23:00:00 1998 Path: biosci!news.stanford.edu!newsfeed.berkeley.edu!news.maxwell.syr.edu!news-peer.gip.net!news-dc.gip.net!news.gsl.net!gip.net!duke.telepac.pt!news.telepac.pt!not-for-mail From: "a" Newsgroups: bionet.software Subject: Nedd special help Date: Sun, 6 Sep 1998 10:19:53 +0100 Lines: 8 Message-ID: <6stng4$j4d$1@duke.telepac.pt> NNTP-Posting-Host: 194.65.178.41 X-Newsreader: Microsoft Outlook Express 4.72.3155.0 X-MimeOLE: Produced By Microsoft MimeOLE V4.72.3155.0 Anyone knoews where i can find photoshop 5.0 (full version), Adobe Acrobat 3.0 or Exchange, for download. pls, i really want it. if you know where, pls e-mail me for nmgsilva.ddvreal@intfdti.pt or nuno_gs@xoommail.com From owner-software@net.bio.net Sat Sep 05 23:00:00 1998 From: "Frank Joch" Newsgroups: alt.art.illustration,bionet.software,comp.sys.ibm.pc.software,dk.edb.grafik Followup-To: bionet.software Subject: macromedia graphic studio 7.0... Date: Sun, 6 Sep 1998 13:54:23 +0200 Distribution: mixmedia@aol.com Keywords: software f. graphic Lines: 29 MIME-Version: 1.0 Content-Type: text/plain; charset="iso-8859-1" Content-Transfer-Encoding: quoted-printable X-Newsreader: Microsoft Outlook Express 4.72.3110.1 X-MimeOLE: Produced By Microsoft MimeOLE V4.72.3110.3 NNTP-Posting-Host: dip109-2.hamburg.netsurf.de Message-ID: <35f2787c.0@news2.isys.net> X-Trace: 6 Sep 1998 13:56:44 +0100, dip109-2.hamburg.netsurf.de Organization: iSC internet Service Center GmbH Path: biosci!pravda.ucr.edu!awabi.library.ucla.edu!208.134.241.18!newsfeed.internetmci.com!205.231.236.10!newspeer.monmouth.com!news-hh.maz.net!news2.isys.net!dip109-2.hamburg.netsurf.de supply and demand, make an offer for: - orig. german version of macromedia graphic studio 7.0: includes = freehand, fontographer, x-res, e.g, compl. manual, orig. packaging, license e.g. -orig. german version of Frontpage 97, orig. packaging, manual, e.g, and orig. german update to frontpage 98 with manual, orig. packaging, license, e.g. -orig. german version of steinberg wave-lab1.6, without manual. -orig. german version of photoshop 3.0, includes manual, license, e.g. come on, make an offer regards, sabine mixmedia@aol.com From owner-software@net.bio.net Sun Sep 06 23:00:00 1998 From: "tiddler" Subject: Tricky? Sort Newsgroups: aus.mathematics,bionet.software,comp.soft-sys.math.mathematica,comp.software,sci.math Message-ID: <01bdda5f$304ad200$055b08d2@default> X-Newsreader: Microsoft Internet News 4.70.1155 MIME-Version: 1.0 Content-Type: multipart/alternative; boundary="----=_NextPart_000_01BDDAB3.01F6E200" Content-Transfer-Encoding: 7bit NNTP-Posting-Host: 210.8.91.5 Date: 7 Sep 1998 22:48:25 +1000 X-Trace: 7 Sep 1998 22:48:25 +1000, 210.8.91.5 Lines: 51 Path: biosci!rutgers!rockyd.rockefeller.edu!newsfeed.nyu.edu!cyclone.news.idirect.com!island.idirect.com!newsfeed.zip.com.au!news.syd.ausbone.net!203.17.36.4.MISMATCH!news!210.8.91.5 This is a multi-part message in MIME format. ------=_NextPart_000_01BDDAB3.01F6E200 Content-Type: text/plain; charset=ISO-2022-JP Content-Transfer-Encoding: 7bit If we sort the data clumsily, we must compare two data n(n+1)/2 times to check their order (where n is the total of the data). Taking some smarter methods for sort, we can reduce the order of conparisons into n log n. Now this method can reduce the order of comparisons into almost n (precisely less than n log (log n) )without huge additional memories such as bin sort, namely this sort is quicker than any other sorts which have the order of comparisons n log n such as bubble sort or quick sort! ---really? Why don't you see the simulation of the sort if you think I'm attempting to deceive you? You can enjoy the animation of sorting process on the display. Use: PC(486DX), Windows95, IE(ver.3.0) Caution: This is unauthorized ActiveX. (Sorry, it's not available on Netscape.) http://www.cia.com.au/rad/quicker.htm ------=_NextPart_000_01BDDAB3.01F6E200 Content-Type: text/html; charset=ISO-2022-JP Content-Transfer-Encoding: quoted-printable

If we = sort the data clumsily, we must compare two data n(n+1)/2 times to check = their order (where n is the total of the data). Taking some smarter = methods for sort, we can reduce the order of conparisons into n log n. = Now this method can reduce the order of comparisons into almost n = (precisely less than n log (log n) )without huge additional memories = such as bin sort, namely this sort is quicker than any other sorts which = have the order of comparisons n log n such as bubble sort or quick sort! = ---really?

Why don't you see the simulation of the sort if you = think I'm attempting to deceive you? You can enjoy the animation of = sorting process on the display.

Use: PC(486DX), Windows95, = IE(ver.3.0)

Caution: This is unauthorized ActiveX.
(Sorry, = it's not available on Netscape.)
  
http://www.cia.com.au/rad/quicker.htm




------=_NextPart_000_01BDDAB3.01F6E200-- From owner-software@net.bio.net Sun Sep 06 23:00:00 1998 Path: biosci!agate!newsfeed.berkeley.edu!nntp-out.monmouth.com!newspeer.monmouth.com!news-was.dfn.de!news-fra1.dfn.de!news-koe1.dfn.de!news.dlr.de!usenet From: "Markus Hoenicka" Newsgroups: bionet.software Subject: ANN: Free Reference Manager add-on (updated) Date: 7 Sep 1998 07:09:14 GMT Organization: DLR Lines: 19 Message-ID: <01bdda2e$dee48170$a570f781@udca3041> NNTP-Posting-Host: 129.247.112.165 X-Newsreader: Microsoft Internet News 4.70.1161 Reference Manager is one of the leading citation manager programs for the Windows platform. It supports the import of MEDLINE data, but there are some difficulties with this. I wrote a small utility which simplifies and streamlines the import of MEDLINE data into Reference Manager. The utility runs under Win31/Win311, Win95, WinNT4 and supports Reference Manager v. 6/7/8. The current version is 2.12 which fixes a few problems with references downloaded by Netscape Navigator. Documentation is available in both HTML and Postscript format. Please visit me at: http://ourworld.compuserve.com/homepages/hoenicka_markus/ and jump into the Scientific software section. Markus -- Markus Hoenicka 100606.33@compuserve.com From owner-software@net.bio.net Sun Sep 06 23:00:00 1998 Path: biosci!news.stanford.edu!newsfeed.berkeley.edu!howland.erols.net!news-peer.gip.net!news-raspail.gip.net!news.gsl.net!gip.net!oleane!jussieu.fr!saphir.jouy.inra.fr!lindenb From: lindenb@jouy.inra.fr (Pierre Lindenbaum) Newsgroups: bionet.software Subject: Re: [Sorry, there were bugs !]CloneIt Finding cloning strategies Date: 7 Sep 1998 06:21:28 GMT Organization: INRA Lines: 30 Message-ID: <6svu18$g72$1@saphir.jouy.inra.fr> References: <6s6f1r$igg$2@saphir.jouy.inra.fr> NNTP-Posting-Host: biotec.jouy.inra.fr X-Newsreader: TIN [version 1.2 PL2] rmeili.bananas@hotmail.com wrote: : Did anybody compile it for the mac? I do not have the tools and the : experience to do it so I would be interested in a binary version! It works fine on my mine (even the old version). To compile it on your mac, you need CodeWarrior (I use this, see http://www.metrowerks.com) or Mac Programming Workshop (MPW see: http://www.apple.com) yours sincerely, 098)o%:::%o(8609 .6o%:%o(86098).......................................................... (86098)o 6098)o%::%o9 Pierre LINDENBAUM 098)o%::::::%o9 Biologie Moleculaire des Rotavirus 6o%::::::%o(860 Unite de Virologie et Immunologie Moleculaires 6o%::%o(8609 Institut National de la Recherche Agronomique o(86098) 78352 JOUY-EN-JOSAS CEDEX (86098)o%:%o9 FRANCE 6098)o%:::%o(860 098)o%:::%o(8609 Tel: 33-(0)1-34-65-26-05 6o%:%o(86098) Fax: 33-(0)1-34-65-26-21 (86098)o 6098)o%::%o9............................................................ 098)o%::::::%o9 6o%::::::%o(860 CloneIt WWW Home Page:http://locus.jouy.inra.fr/soft/cloneit/cloneit.html From owner-software@net.bio.net Mon Sep 07 23:00:00 1998 Path: biosci!news.stanford.edu!newsfeed.berkeley.edu!howland.erols.net!newsfeed.internetmci.com!205.254.224.10!newsfeed.avtel.net!not-for-mail From: "Jason Bennett" Subject: World Time software Newsgroups: bionet.software Message-ID: <01bddb3f$35b949c0$1bc847cf@default> X-Newsreader: Microsoft Internet News 4.70.1155 Lines: 23 Date: Tue, 08 Sep 1998 15:44:08 GMT NNTP-Posting-Host: 207.71.200.27 X-Trace: newsfeed.avtel.net 905269448 207.71.200.27 (Tue, 08 Sep 1998 08:44:08 PDT) NNTP-Posting-Date: Tue, 08 Sep 1998 08:44:08 PDT Time-n-Measures brings a world of information to your desktop. Quickly and easily determine what time and day it is anywhere in the world at the click of your mouse. Times are displayed in both a customizable list or on an interactive globe. Time-n-Measures conveniently and accurately converts between English and metric measurements-distance, area, volume, weight and temperature. This robust utility is an essential tool for anyone involved in sharing information and fostering communication on a global scale-business executives, sales professionals, shipping companies, researchers, scientists, students and teachers. Time-n-Measures is fun, easy and educational. Supports Windows 95/ 98, and NT. For more info check out the website at: http://www.qmlabs.com/Time-n-Measures/ -------------------------- Jason R. Bennett Director, Information Technologies QM Laboratories http://www.qmlabs.com/Time-n-Measures/ From owner-software@net.bio.net Mon Sep 07 23:00:00 1998 Path: biosci!news.stanford.edu!newsfeed.berkeley.edu!news.maxwell.syr.edu!newscore.univie.ac.at!152.158.16.50.MISMATCH!newsfeed.uk.ibm.net!news.ibm.net.il!ibm.net!news.biu.ac.il!news.huji.ac.il!yam-suff.cc.huji.ac.il!yongmao From: Yongmao Newsgroups: bionet.software Subject: Endlink Date: Tue, 8 Sep 1998 19:54:33 +0200 Organization: The hebrew University of Jerusalem Lines: 6 Message-ID: NNTP-Posting-Host: yam-suff.cc.huji.ac.il Mime-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII Are there any shareware of Endlink to put SilverPlatter medline data? Thanks in advance. From owner-software@net.bio.net Tue Sep 08 23:00:00 1998 Path: biosci!agate!newsfeed.berkeley.edu!newsfeed.wli.net!newsfeed.corridex.com!ameritech.ais.net!jamie!ais.net!ameritech.net!uunet!uunet!in4.uu.net!news.ici.net!not-for-mail From: "Hilton Evans" Newsgroups: bionet.software Subject: ChemPen3D Chemical Drawing and Modeling Software Date: 9 Sep 1998 17:19:50 GMT Organization: Chempen Software Lines: 1 Message-ID: <01bddc16$118a27e0$042ab4cf@hfevans.ici.net> NNTP-Posting-Host: d-ma-superpop-2-4.ici.net X-Newsreader: Microsoft Internet News 4.70.1162 http://home.ici.net/~hfevans/chempen3d.htm From owner-software@net.bio.net Tue Sep 08 23:00:00 1998 Path: biosci!agate!newsfeed.berkeley.edu!news.maxwell.syr.edu!fu-berlin.de!jussieu.fr!pasteur.fr!ezili.sis.pasteur.fr!bortz From: bortzmeyer@pasteur.fr (Stephane Bortzmeyer) Newsgroups: bionet.software Subject: [SURVEY] Who uses Linux Debian? Date: 9 Sep 1998 14:57:47 GMT Organization: Institut Pasteur Lines: 12 Message-ID: <6t651b$1vn$3@desdemone.pasteur.fr> NNTP-Posting-Host: ezili.sis.pasteur.fr X-Trace: desdemone.pasteur.fr 905353067 2039 157.99.60.56 (9 Sep 1998 14:57:47 GMT) X-Complaints-To: usenet@pasteur.fr NNTP-Posting-Date: 9 Sep 1998 14:57:47 GMT X-Newsreader: xrn 9.01 I plan to package several molecular biology programs for the Linux Debian system. With them, owners of this system will be able to install, upgrade, remove, Phylip or Blast more easily. Before that, I would like to get an idea of the potential target :-) Who uses Linux Debian, installed such software "by hand" and would like to have already made packages? For the others: http://www.debian.org/ From owner-software@net.bio.net Tue Sep 08 23:00:00 1998 Path: biosci!loria.fr!Gregory.Kucherov From: Gregory.Kucherov@loria.fr (Gregory Kucherov) Newsgroups: bionet.software Subject: RECOMB'99 - 2nd call for papers Date: 9 Sep 1998 10:03:16 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 193 Sender: daemon@net.bio.net Distribution: world Message-ID: <199809091700.TAA29523@lorraine.loria.fr> Reply-To: symposia@inria.fr NNTP-Posting-Host: net.bio.net [apologies for possible multiple copies] SECOND CALL FOR PAPERS THIRD ANNUAL INTERNATIONAL CONFERENCE ON COMPUTATIONAL MOLECULAR BIOLOGY (RECOMB'99) April 11-14, 1999 Lyon, France Organized by INRIA (The French National Institute for Research in Computer Science and Control) Sponsored by ACM (Association for Computing Machinery) - SIGACT with support from SLOAN Foundation US Department of Energy Smith Kline Beecham http://www.inria.fr/RECOMB99/ The Third Annual Conference on Research in Computational Molecular Biology (RECOMB 99), sponsored by the Association for Computing Machinery Special Interest Group on Algorithms and Computation Theory (ACM-SIGACT) with support from the SLOAN Foundation, US Department of Energy and Smith Kline Beecham, will be organized by INRIA in Lyon, France, April 11-14, 1999. 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: Dr. Sorin Istrail RECOMB 99 Program Chair Sandia National Laboratories Applied Mathematics Department MS 1110 Albuquerque, NM 87185-5800 USA An abstract must be received by October 9, 1998. 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 99. 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 5, 1998. A final copy of each accepted paper is required by January 6, 1999. 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. CONFERENCE EVENTS: RECOMB 99 will feature 9 invited lectures (to be announced later) 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. - The Distinguished Biology Lecture: awarded by RECOMB to a scientist who has made major contributions in the biological aspects of the field. - The Distinguished New Technologies Lecture: describing emerging, new technologies. - 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 3 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. CALENDAR Deadline for reception of papers: October 9th, 1998 Notification of acceptation/rejection: December 5th, 1998 Deadline for reception of final papers: January 6th, 1999 STEERING COMMITTEE Sorin Istrail, RECOMB General Vice-Chair (Sandia National Laboratories, USA) Richard Karp (University of Washington, USA) Thomas Lengauer (GMD-SCAI, Germany) Pavel Pevzner, RECOMB General Chair (University of Southern California, USA) Ron Shamir (Tel-Aviv University, Israel) Michael Waterman, RECOMB General Chair (University of Southern California, USA) PROGRAM COMMITTEE Stephen Altschul (NCBI, NIH, USA) Alberto Apostolico (Purdue University, USA, and University of Padova, Italy) Gary Benson (Mount Sinai School of Medicine, USA) David Botstein (Stanford University, USA) Jean-Michel Claverie (CNRS, France) Ken Dill (University of California, San Francisco, USA) Andreas Dress (Bielefeld University, Germany) Misha Gelfand (Russian Academy of Sciences, Russia) Alain Guénoche (Universite de Marseille, France) Sorin Istrail, Program Committee Chair (Sandia National Laboratories, USA) Tao Jiang (McMaster University, Canada) Richard Karp (University of Washington, USA) John Kececioglu (University of Georgia, USA) Richard Lathrop (University of California Irvine, USA) Thomas Lengauer (GMD-SCAI, Germany) Arthur Lesk (Univeristy of Cambridge, England) Michael Levitt (Stanford University, USA) Pavel Pevzner (University of Southern California, USA) Mireille Regnier (INRIA, France) Rich Roberts (New England Biolabs, USA) Chris Sander (Millenium Pharmaceutical, USA) Miyano Satoru (Tokyo University, Japan) Sophie Schbath (INRA, France) Ron Shamir (Tel-Aviv University, Israel) Jeffrey Skolnick (The Scripps Research Institute, USA) Donna Slonim (Whitehead Institute, USA) Terry Speed (University of California, Berkeley, USA) Martin Vingron (Cancer Research Center, Germany) Michael Waterman (University of Southern California, USA) ORGANIZING COMMITTEE: Florence Balax (INRIA, France) Daniel Kahn (INRA, France) Gregory Kucherov, Publicity Chair (INRIA, France) Mireille Regnier, Organizing Committee Chair (INRIA, France) Sophie Schbath (INRA, France) Annick Theis-Viemont (INRIA, France) INFORMATION INRIA Rocquencourt Relations Exterieures BP 105 78153 Le Chesnay, France Phone: +33 1 39 63 50 53 Fax: +33 1 39 63 56 38 email : symposia@inria.fr http://www.inria.fr/RECOMB99/ From owner-software@net.bio.net Tue Sep 08 23:00:00 1998 Path: biosci!mips.biochem.mpg.de!frishman From: frishman@mips.biochem.mpg.de (Dmitrij Frishman) Newsgroups: bionet.software Subject: PEDANT: update and new address Date: 9 Sep 1998 02:33:13 -0700 Organization: Max-Planck-Institute for Biochemistry Lines: 108 Sender: daemon@net.bio.net Distribution: world Message-ID: <35F64A88.167E@mips.biochem.mpg.de> NNTP-Posting-Host: net.bio.net The PEDANT genome analysis server has been updated. Please note the new address: http://pedant.mips.biochem.mpg.de/ The FCA contig of the A.thaliana genome (Bevan M, et al. Nature. 1998 Jan 29; 391(6666): 485-488.) is now available. The partial S.pombe genomic sequence has been updated in collaboration with Dr. Valerie Wood (Sanger Center). Five new unfinished genomic sequences have been analyzed: -Pyrococcus furiosus (University of Utah Genome Center) -Neisseria gonorrhoeae (University of Oklahoma's Advanced Center for Genome Technology) -Streptococcus pyogenes (University of Oklahoma's Advanced Center for Genome Technology) -Actinobacillus actinomycetemcomitans (University of Oklahoma's Advanced Center for Genome Technology) -Yersinia pestis (Sanger Center in collaboration with the Department of Medical Microbiology, St. Bartholomew's and The Royal London School of Medicine and Dentistry, Queen Mary and Westfield College, London) Your comments and criticisms are welcome. ---------------------------------------------------------------- PEDANT: Protein Extraction, Description, and ANalysis Tool http://pedant.mips.biochem.mpg.de/ Features: - 35 complete and partial genomes plus one plasmid analyzed so far: S.cerevisiae A.thaliana M.genitalium M.pneumoniae M.jannaschii Synechocystis sp. H.influenzae E.coli H.pylori B.subtilis M.thermoautotrophicum A.fulgidus B.burgdorferi P.horikoshii OT3 T.pallidum A.aeolicus Rhizobium sp. (plasmid) S.pombe M.tuberculosis D.radiodurans S.pneumoniae R.capsulatus (fragment) C.jejuni N.meningitidis C.trachomatis C.acetobutylicum M.leprae S.coelicolor P.aeruginosa E.faecalis P.furiosus N.gonorrhoeae S.pyogenes A.actinomycetemcomitans Y.pestis - Exhaustive functional and structural classification of the predicted open reading frames from fully sequenced genomes using a combination of sequence comparison and prediction techniques - Functional assignment of ORFs on the basis of BLAST2 similarity searches supplemented by detection of PROSITE patterns and motifs and comparisons with conserved sequence blocks and protein domains - Automatic attribution of sequences with significantly related PIR entries to one of the PIR super-families - Functional classification of gene products through similarity searches against several curated master gene sets from bacteria and yeast with manually assigned functional classes - Extraction of available 3D information through Smith-Waterman similarity comparisons of every sequence with the STRIDE database of secondary structure assignments - Secondary structure and transmembrane region predictions - Detection of low-complexity and coiled coil regions - Signal peptide predictions - Molecular weight and pI ---------------------------------------------------------------- Dmitrij Frishman, Petra Maierl, and Hans-Werner Mewes Munich Information Centre for Protein sequences/GSF http://www.mips.biochem.mpg.de From owner-software@net.bio.net Tue Sep 08 23:00:00 1998 Path: biosci!loria.fr!Gregory.Kucherov From: Gregory.Kucherov@loria.fr (Gregory Kucherov) Newsgroups: bionet.software Subject: RECOMB'99 - 2nd call for papers Date: 9 Sep 1998 10:03:23 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 193 Sender: daemon@net.bio.net Distribution: world Message-ID: <199809091700.TAA29527@lorraine.loria.fr> Reply-To: symposia@inria.fr NNTP-Posting-Host: net.bio.net [apologies for possible multiple copies] SECOND CALL FOR PAPERS THIRD ANNUAL INTERNATIONAL CONFERENCE ON COMPUTATIONAL MOLECULAR BIOLOGY (RECOMB'99) April 11-14, 1999 Lyon, France Organized by INRIA (The French National Institute for Research in Computer Science and Control) Sponsored by ACM (Association for Computing Machinery) - SIGACT with support from SLOAN Foundation US Department of Energy Smith Kline Beecham http://www.inria.fr/RECOMB99/ The Third Annual Conference on Research in Computational Molecular Biology (RECOMB 99), sponsored by the Association for Computing Machinery Special Interest Group on Algorithms and Computation Theory (ACM-SIGACT) with support from the SLOAN Foundation, US Department of Energy and Smith Kline Beecham, will be organized by INRIA in Lyon, France, April 11-14, 1999. 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: Dr. Sorin Istrail RECOMB 99 Program Chair Sandia National Laboratories Applied Mathematics Department MS 1110 Albuquerque, NM 87185-5800 USA An abstract must be received by October 9, 1998. 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 99. 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 5, 1998. A final copy of each accepted paper is required by January 6, 1999. 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. CONFERENCE EVENTS: RECOMB 99 will feature 9 invited lectures (to be announced later) 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. - The Distinguished Biology Lecture: awarded by RECOMB to a scientist who has made major contributions in the biological aspects of the field. - The Distinguished New Technologies Lecture: describing emerging, new technologies. - 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 3 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. CALENDAR Deadline for reception of papers: October 9th, 1998 Notification of acceptation/rejection: December 5th, 1998 Deadline for reception of final papers: January 6th, 1999 STEERING COMMITTEE Sorin Istrail, RECOMB General Vice-Chair (Sandia National Laboratories, USA) Richard Karp (University of Washington, USA) Thomas Lengauer (GMD-SCAI, Germany) Pavel Pevzner, RECOMB General Chair (University of Southern California, USA) Ron Shamir (Tel-Aviv University, Israel) Michael Waterman, RECOMB General Chair (University of Southern California, USA) PROGRAM COMMITTEE Stephen Altschul (NCBI, NIH, USA) Alberto Apostolico (Purdue University, USA, and University of Padova, Italy) Gary Benson (Mount Sinai School of Medicine, USA) David Botstein (Stanford University, USA) Jean-Michel Claverie (CNRS, France) Ken Dill (University of California, San Francisco, USA) Andreas Dress (Bielefeld University, Germany) Misha Gelfand (Russian Academy of Sciences, Russia) Alain Guénoche (Universite de Marseille, France) Sorin Istrail, Program Committee Chair (Sandia National Laboratories, USA) Tao Jiang (McMaster University, Canada) Richard Karp (University of Washington, USA) John Kececioglu (University of Georgia, USA) Richard Lathrop (University of California Irvine, USA) Thomas Lengauer (GMD-SCAI, Germany) Arthur Lesk (Univeristy of Cambridge, England) Michael Levitt (Stanford University, USA) Pavel Pevzner (University of Southern California, USA) Mireille Regnier (INRIA, France) Rich Roberts (New England Biolabs, USA) Chris Sander (Millenium Pharmaceutical, USA) Miyano Satoru (Tokyo University, Japan) Sophie Schbath (INRA, France) Ron Shamir (Tel-Aviv University, Israel) Jeffrey Skolnick (The Scripps Research Institute, USA) Donna Slonim (Whitehead Institute, USA) Terry Speed (University of California, Berkeley, USA) Martin Vingron (Cancer Research Center, Germany) Michael Waterman (University of Southern California, USA) ORGANIZING COMMITTEE: Florence Balax (INRIA, France) Daniel Kahn (INRA, France) Gregory Kucherov, Publicity Chair (INRIA, France) Mireille Regnier, Organizing Committee Chair (INRIA, France) Sophie Schbath (INRA, France) Annick Theis-Viemont (INRIA, France) INFORMATION INRIA Rocquencourt Relations Exterieures BP 105 78153 Le Chesnay, France Phone: +33 1 39 63 50 53 Fax: +33 1 39 63 56 38 email : symposia@inria.fr http://www.inria.fr/RECOMB99/ From owner-software@net.bio.net Tue Sep 08 23:00:00 1998 Path: biosci!news.stanford.edu!su-news-feed2.bbnplanet.com!su-news-hub1.bbnplanet.com!news.bbnplanet.com!logbridge.uoregon.edu!newsfeed.icl.net!news-xfer.siscom.net!streamer1.cleveland.iagnet.net!NewsNG.Chicago.Qual.Net!news.uiowa.edu!news.physics.uiowa.edu!newsrelay.iastate.edu!news.iastate.edu!not-for-mail From: Kent Vander Velden Newsgroups: bionet.software Subject: Sought: Threading software Date: Tue, 08 Sep 1998 13:04:31 -0500 Organization: Iowa State University Lines: 18 Message-ID: <35F571AE.4650F2F2@iastate.edu> NNTP-Posting-Host: du248-05.cc.iastate.edu Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 4.05 [en] (X11; U; OSF1 V4.0 alpha) Hi. I am looking for different software packages that are capable of doing threading. There are two classes of packages that I am really looking for. The first type is the form of threading often used, which looks at each of the residue types. The other type that I am searching for, and have not found any pointers to, is HP-threading. I.e. threading that considers only if the residue is hydrophobic or hydrophilic. Preferably the software would be available in source code format or at least runnel from the command line (has a non-gui mode). Since I would like to integrate it with another package and run a sequence of tests. Thanks. -- Kent Vander Velden kent@iastate.edu From owner-software@net.bio.net Tue Sep 08 23:00:00 1998 Path: biosci!news.stanford.edu!newsfeed.berkeley.edu!news.maxwell.syr.edu!btnet-peer!btnet!dispose.news.demon.net!demon!easynet-tele!easynet-uk!bunny.easynet.fr!easynet-fr!buggy.easynet.fr!not-for-mail From: philimar@easynet.fr (Philippe MARQUIS) Newsgroups: bionet.software Subject: Software to print graph paper Date: Wed, 09 Sep 1998 20:02:02 GMT Organization: [Posted via] Easynet France Message-ID: <6t6mr3$ij2$10@buggy.easynet.fr> Reply-To: philimar@easynet.fr NNTP-Posting-Host: pop-metz-5.pops.easynet.fr X-Trace: buggy.easynet.fr 905371299 19042 195.114.93.5 (9 Sep 1998 20:01:39 GMT) X-Complaints-To: abuse@easynet.fr NNTP-Posting-Date: 9 Sep 1998 20:01:39 GMT X-Newsreader: Forte Free Agent 1.0.82 Lines: 36 The free software GRAPHPAP designed to print customized graph papers has known a big success. Thank you for all the comments and suggestions. It shows that despite the common belief that most graphing is done on-screen nowadays, many people still use ordinary paper graphs and that it is becoming increasingly difficult to find such stationery. The user feed-back has led to a new version 2.0, now available, always free on : http://perso.easynet.fr/~philimar/ Some bugs have been corrected and important new features added: 1) Scales: linear, logarithmic, quadratic and gaussian. 2) Coordinates: cartesian or polar. All the combinations are possible resulting in possibilities of quite esoteric formats. The quadratic scale is specially intended for immunochemistry teaching (plots of radial immunodiffusion assays). Polar coordinates have been required for diagrams of wave propagation and gaussian scale to check the distribution of cumulated frequencies. Submitting any new idea for the next version will be wellcome ----------------------------- Dr Philippe Marquis Centre hospitalier regional METZ - FRANCE e-mail : philimar@easynet.fr ---------------------------- From owner-software@net.bio.net Tue Sep 08 23:00:00 1998 Path: biosci!agate!newsfeed.berkeley.edu!news.maxwell.syr.edu!newsfeed.internetmci.com!206.172.150.11!news1.bellglobal.com!news21.bellglobal.com.POSTED!not-for-mail Message-ID: <35F6CADB.B73426DE@usa.net> From: Bernard Limoges Reply-To: bernard.limoges@usa.net X-Mailer: Mozilla 4.03 [fr] (Win95; I) MIME-Version: 1.0 Newsgroups: bionet.software Subject: FREE - GRATUIT Content-Type: text/html; charset=us-ascii Content-Transfer-Encoding: 7bit Lines: 14 Date: Wed, 09 Sep 1998 19:13:20 GMT NNTP-Posting-Host: 206.172.154.86 NNTP-Posting-Date: Wed, 09 Sep 1998 15:13:20 EDT Organization: Bell Solutions Chef's Helper            Aide Cuisinier
freeware                    gratuiciel

--
E-dition
mailto:bernard.limoges@usa.net
http://www3.sympatico.ca/bernard.limoges
  From owner-software@net.bio.net Wed Sep 09 23:00:00 1998 Path: biosci!news.stanford.edu!Cabal.CESspool!bofh.vszbr.cz!pegasus.csx.cam.ac.uk!hgmp.mrc.ac.uk!scarp.sanger.ac.uk!ihh From: Ian Holmes Newsgroups: bionet.software Subject: GFF - Gene Finding Format: new website Date: Thu, 10 Sep 1998 11:50:19 +0100 Organization: MRC Human Genome Mapping Project Resource Centre Lines: 13 Message-ID: NNTP-Posting-Host: scarp.sanger.ac.uk Mime-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII Announcing a website devoted to GFF, a simple record-based file format used at the Sanger Centre and elsewhere for exchanging and processing gene-finding features such as exon predictions and other genomic annotation. The site includes links to software for processing and dealing with GFF datasets. It's at: http://www.sanger.ac.uk/Software/GFF/ Ian Holmes The Sanger Centre From owner-software@net.bio.net Wed Sep 09 23:00:00 1998 Path: biosci!news.stanford.edu!su-news-feed2.bbnplanet.com!su-news-hub1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!news-peer.gip.net!news-raspail.gip.net!news.gsl.net!gip.net!oleane!pasteur.fr!not-for-mail From: Laurent Bloch Newsgroups: bionet.general,bionet.molbio.embldatabank,bionet.molbio.genbank,bionet.molbio.gdb,bionet.software Subject: Course in Informatics for Biologists at Pasteur Institute Date: 10 Sep 1998 11:13:15 GMT Organization: Institut Pasteur, Paris Lines: 96 Message-ID: <6t8c8b$otl$1@desdemone.pasteur.fr> NNTP-Posting-Host: hatchepsout.sis.pasteur.fr X-Trace: desdemone.pasteur.fr 905425995 25525 157.99.60.12 (10 Sep 1998 11:13:15 GMT) X-Complaints-To: usenet@pasteur.fr NNTP-Posting-Date: 10 Sep 1998 11:13:15 GMT User-Agent: tin/pre-1.4-980226 (UNIX) (Linux/2.1.108 (i586)) Xref: biosci bionet.general:30773 bionet.molbio.embldatabank:1220 bionet.molbio.genbank:3030 bionet.molbio.gdb:896 bionet.software:21806 Course in informatics offered at the Pasteur Institute. ====================================================== In the series of courses offered at the Pasteur Institute, a course will be offered in informatics in biology. The next session will take place from the 4th of January to the 9th of April 1999. The course description is attached. ---------------------------------------------------------------------- | | | The courses at Pasteur Institute are | | organized with the collaboration of the two largest Parisian | | scientific universities, Paris VI "Pierre et Marie Curie" and | | Paris VII "Denis Diderot". The diplomas delivered to students | | of these courses are considered as university degrees. | | | ---------------------------------------------------------------------- Registration is mandatory via the committee of courses. Call the secretary of Information and Education of the Pasteur Institute at +33 1 45 68 81 40 or via E-mail at algo@pasteur.fr for further information. See also: http://www.pasteur.fr/formation/infobio-uk.html http://www.pasteur.fr/units/sis/B6/10/10.html#8 The working language of the course is French. Tuition costs: a nominal fee, approximately 3 000 French Francs (500 US Dollars). Course Description ================== Informatics in biology ---------------------- The objective of this course is to give to the researchers and future researchers in biology, an initial exposure to informatics. Entry in the course is reserved to those with a degree in biology or a related discipline. With more and more tools available to the biologist, it has become important that the biologist acquire the ability to judge for themselves the usefulness of a new software by the algorithms it employs. The accent is put on the fundamental aspect of this discipline. Two applications in biology will be studied, the analysis of sequences and molecular modeling. The theoretic aspects of informatics will be introduced: programming languages, programing, logic, and also in the technical domain of the system, the network, and computer architecture. Programming is taught according to the functional paradigm (Lisp), but other styles of programming, such as algorithmic and object oriented, will be introduced. The goal of an excellent level of theory will not hurt the acquisition of practical knowledge which will be directly usable in the labratory. The course will consist of lectures and practical sessions. Algorithms, programming practice and theory (course) 60h Algorithms and programming practical (with Scheme) 42h Programming with Java 18h Programming with Java practical 21h Computing systems: evolution and realizations 12h Introduction to Unix and X practical 17h Perspectives of informatics lecture 10h Algorithms for Biology Algorithms 36h Examples (Sequence analysis) practical 36h Molecular modelling 15h Software installation (blast) 10h Data Bases 12h Machine architecture and System planning 15h Logic 10h Networks 12h ==================================================================== Total 326h Course Instructors Laurent Bloch William Saurin Manuel Serrano Frederique Galisson Christian Queinnec Marie-France Sagot Daniel Azuelos Eric Gressier Thierry Rose Louis Jones Bernard Caudron Francoise Balmas Christophe Wolfhugel Stephane Bortzmeyer From owner-software@net.bio.net Wed Sep 09 23:00:00 1998 Path: biosci!news.stanford.edu!su-news-feed2.bbnplanet.com!su-news-hub1.bbnplanet.com!news.bbnplanet.com!newsfeed.wli.net!sunqbc.risq.qc.ca!newsflash.concordia.ca!pitt.edu!not-for-mail From: pxpst2@unixs.cis.pitt.edu (Peter) Newsgroups: bionet.software Subject: Re: Endlink Date: Thu, 10 Sep 1998 10:23:51 -0500 Organization: University of Pittsburgh Lines: 19 Message-ID: References: NNTP-Posting-Host: pelli.pathology.pitt.edu Mail-Copies-To: pxpst2@unixs.cis.pitt.edu X-Newsreader: MT-NewsWatcher 2.4.4 In article , Yongmao wrote: > Are there any shareware of Endlink to put SilverPlatter medline data? > Endlink is a comercial product by Niles software. Demos can be obtained from their software site. www.niles.com. Databases that are kept in the z3050 format can be searched and downloaded directly into Endnote 3. As for Silver platter, I know nothing about it so I can not comment on it. Peter -- "Don't you eat that yellow snow watch out where the Huskies go" FZ --------------------------------------------------------------------- From owner-software@net.bio.net Wed Sep 09 23:00:00 1998 Path: biosci!news.stanford.edu!su-news-feed2.bbnplanet.com!su-news-hub1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!newsfeed.atl.bellsouth.net!news3.mia.bellsouth.net.POSTED!not-for-mail From: "Arthur" Newsgroups: bionet.software Subject: WTB:Backoffice 4.0 Server Lines: 3 X-Newsreader: Microsoft Outlook Express 4.72.3110.1 X-MimeOLE: Produced By Microsoft MimeOLE V4.72.3155.0 Message-ID: Date: Thu, 10 Sep 1998 21:35:17 GMT NNTP-Posting-Host: 209.214.12.65 NNTP-Posting-Date: Thu, 10 Sep 1998 17:35:17 EDT Need BackOffice 4.0 Server. Fullfilment is fine! From owner-software@net.bio.net Wed Sep 09 23:00:00 1998 Path: biosci!news.stanford.edu!newsfeed.berkeley.edu!news-xfer.siscom.net!streamer1.cleveland.iagnet.net!NewsNG.Chicago.Qual.Net!news.indiana.edu!not-for-mail From: gilbertd@bio.indiana.edu (Don Gilbert) Newsgroups: bionet.software Subject: Biocomputist sought for FlyBase genome database project Date: 10 Sep 1998 21:58:58 GMT Organization: Biology, Indiana University - Bloomington Lines: 8 Message-ID: <6t9i32$90s$1@flotsam.uits.indiana.edu> NNTP-Posting-Host: chipmunk.bio.indiana.edu The FlyBase (drosophila genome database and internet service) project is seeking an experienced biocomputist to work in the Indiana University portion of the project. See bionet.jobs.offered or contact me for details - Don Gilbert, gilbertd@bio.indiana.edu -- -- d.gilbert--biocomputing--indiana-u--bloomington-in-47405 -- gilbertd@bio.indiana.edu From owner-software@net.bio.net Wed Sep 09 23:00:00 1998 Path: biosci!daresbury!not-for-mail From: "MTT E-mail Cimtar" Newsgroups: bionet.software Subject: [134031032820113332338] UJ BEJEGYZES az MTT E-mail Cimtar rendszereben Date: 10 Sep 1998 21:42:30 +0100 Lines: 60 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <6t9djm$eem@mserv1.dl.ac.uk> Original-To: bio-soft@dl.ac.uk MIME-Version: 1.0 Content-Type: text/plain; charset="us-ascii" Content-Transfer-Encoding: 7BIT Kedves felhasználó! Megtaláltuk az Ön e-mail címét az Interneten. Ha szeretné, hogy adatait az MTT E-mail Címtár rendszere tartalmazza, kérjük látogassa meg szerverünket a http://e_search.mtt.hu/ címen. Ott további adatokat adhat meg magáról, így könnyebben találják meg azok akik keresik. Ha nem akarja, hogy az MTT E-mail Címtár tartalmazza az Ön adatait, változtatás nélkül, egyszerűen küldje vissza ezt a levelet, és bejegyzése törölve lesz a rendszer adatbázisából. Amennyiben később mégis szeretné adatait a rendszer adatbázisában elhelyezni, látogasson meg minket a http://e_search.mtt.hu/ szerveren és kövesse az ott leírt lépéseket. Tisztelettel: MTT E-mail Címtár csoport -------- Betreff: NEUER EINTRAG in dem MTT E-Mail Verzeichnis Sehr geehrter Benutzer, wir haben Ihre E-Mail-Adresse im Internet gefunden. Wir laden Sie ein, die Internet-Seite http://e_search.mtt.hu/ zu besuchen, um den Eintrag mit Zusatzinformationen zu vervollständigen, damit Ihre Adresse leichter zu finden ist. Falls Sie den Eintrag löschen möchten, so bitten wir Sie lediglich diese Nachricht zu Antworten, ohne sie zu verändern. Wir bedanken uns für Ihre Zusammenarbeit und verbleiben mit freundlichen Grüßen Ihr MTT E-Mail-Verzeichnis Team -------- Subject: NEW ENTRY in the MTT e-mail directory Dear user, We have found your e-mail address on the internet. If you wish to be included in this directory, we kindly invite you to go to http://e_search.mtt.hu/ and enter some additional information about you so that you can be more easily found by those looking for you. If you do not wish to be included in this directory, simply reply to this message without changing it. Thank you very much. With kind regards, The MTT E-mail Directory Team From owner-software@net.bio.net Wed Sep 09 23:00:00 1998 Path: biosci!pravda.ucr.edu!awabi.library.ucla.edu!208.134.241.18!newsfeed.internetmci.com!205.252.116.205!howland.erols.net!news1.ispnews.com!news11.ispnews.com!not-for-mail From: "Andrew Miller" Newsgroups: bionet.neuroscience,bionet.software,comp.graphics,comp.graphics.api.misc,comp.graphics.misc,comp.graphics.visualization Subject: free medical image 3D visualization software for Windows95 Date: Thu, 10 Sep 1998 02:57:56 -0400 Organization: ISPNews http://ispnews.com Lines: 27 Message-ID: <6t7tb6$a1b$1@news13.ispnews.com> NNTP-Posting-Host: computone04.infohouse.com Mime-Version: 1.0 Content-Type: text/plain; charset="iso-8859-1" Content-Transfer-Encoding: 7bit X-Trace: news13.ispnews.com 905410726 10283 206.30.88.63 (10 Sep 1998 06:58:46 GMT) NNTP-Posting-Date: 10 Sep 1998 06:58:46 GMT X-Newsreader: Microsoft Outlook Express 4.72.2106.4 X-MimeOLE: Produced By Microsoft MimeOLE V4.72.2106.4 Xref: biosci bionet.neuroscience:24339 bionet.software:21804 NeuroModeller version 1.14 update Free medical image 3D visualization software for Windows95 brought to you by Cornell University/Division of Neurosurgery available at: http://users.infohouse.com/amiller/home.htm ... download size is 1320 KB. The site also offers MRI & 3D test data. The application supports software rendering & hardware 3D accelerated graphics, as well as file support for DICOM, BMP, & RAW formats. NeuroModeller offers realtime 3D visualization and manipulation of surface iso-contours. Some of the features include: scrolling through multiple contours, superposition of contours, rotating, zooming, moving, lighting, texture mapping, coloring with transparency, and toggling on or off the visibility of contiguous regions. NeuroModeller is now capable of combining FUNCTIONAL IMAGING with normal anatomical data. Image processing features of NeuroModeller include: window/level control, thresholding, pixel island removal, masking, and anisotropic diffusion. From owner-software@net.bio.net Thu Sep 10 23:00:00 1998 Path: biosci!news.stanford.edu!newsfeed.berkeley.edu!news.maxwell.syr.edu!uio.no!news1.c2i.net!not-for-mail From: "John A." Newsgroups: bionet.software Subject: software Date: Fri, 11 Sep 1998 02:03:58 +0200 Organization: Tele2 Norway Public Access Lines: 8 Message-ID: <6t9p9i$orq$1@news1.c2i.net> NNTP-Posting-Host: mp-211-43.daxnet.no X-Newsreader: Microsoft Outlook Express 4.71.1712.3 X-MimeOLE: Produced By Microsoft MimeOLE V4.71.1712.3 Looking for software Go here to my page there you can find hundreds of them on my downloadpage Regards John url: http://www.geocities.com/Heartland/Flats/9533/front.htm From owner-software@net.bio.net Thu Sep 10 23:00:00 1998 Path: biosci!news.stanford.edu!newsfeed.berkeley.edu!news.maxwell.syr.edu!news-ge.switch.ch!news.rediris.es!mercurio.cica.es!not-for-mail From: bb1rofra@uco.es (Antonio R. Franco) Newsgroups: bionet.software Subject: Programs for 3D viewing of biological structures? Date: Fri, 11 Sep 1998 11:19:22 GMT Organization: Universidad de Cordoba Lines: 12 Message-ID: <35f90600.15139561@news.cica.es> Reply-To: bb1rofra@uco.es NNTP-Posting-Host: ciebbmsrv.uco.es Mime-Version: 1.0 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: 8bit X-Newsreader: Forte Free Agent 1.11/32.235 I am using RasMol to visualize the 3D structure of biological molecules, such as DNA and protein in my PC computer. Is there any other program around?. I am interested in any PC or UNIX program equivalent to the "XRay Viewer" program you can use in the Macintosh platform Antonio R. Franco University of Cordoba Spain From owner-software@net.bio.net Thu Sep 10 23:00:00 1998 Path: biosci!news.stanford.edu!newsfeed.berkeley.edu!xmission!nntp.csuchico.edu!cscnews.csc.calpoly.edu!nntp-server.caltech.edu!seqaxp.bio.caltech.edu!MATHOG From: mathog@seqaxp.bio.caltech.edu Newsgroups: bionet.software Subject: Re: Programs for 3D viewing of biological structures? Date: 11 Sep 1998 15:23:35 GMT Organization: Biology Division, Caltech, Pasadena CA 91125 Lines: 17 Message-ID: <6tbf9n$t46@gap.cco.caltech.edu> References: <35f90600.15139561@news.cica.es> Reply-To: mathog@seqaxp.bio.caltech.edu NNTP-Posting-Host: seqaxp.bio.caltech.edu In article <35f90600.15139561@news.cica.es>, bb1rofra@uco.es (Antonio R. Franco) writes: >I am using RasMol to visualize the 3D structure of biological >molecules, such as DNA and protein in my PC computer. > >Is there any other program around?. Many. See for instance: http://seqaxp.bio.caltech.edu/www/molec_model_progs.html Our current favorite for Windows/Macintosh is SPDBV. Regards, David Mathog mathog@seqaxp.bio.caltech.edu Manager, sequence analysis facility, biology division, Caltech From owner-software@net.bio.net Fri Sep 11 23:00:00 1998 Path: biosci!agate!newsfeed.berkeley.edu!howland.erols.net!newspeer.monmouth.com!intgwpad.nntp.telstra.net!nsw.nntp.telstra.net!ozemail!ozemail.com.au!news.ozemail.com.au From: Newsgroups: bionet.software Subject: ProZip Date: Sat, 12 Sep 1998 20:31:33 PST Organization: VIP Lines: 15 Message-ID: <09121998203133vipc@ozemail.com.au> NNTP-Posting-Host: 203.102.72.167 content-length: 368 ProZip for Windows 95/NT. At last an affordable software package for all, AUS$ 29.95. Compress files, encrypt files and create self extracting exe's. Our recent checks on newsgoups came up with your details, we hope this is not an intrusion, but ask you check us out, http://www.vipcomputers.com.au Please feel free to download our trial version. From owner-software@net.bio.net Fri Sep 11 23:00:00 1998 Path: biosci!news.stanford.edu!newsfeed.berkeley.edu!howland.erols.net!newsfeed.internetmci.com!204.238.120.130!news-feeds.jump.net!nntp2.dejanews.com!nnrp1.dejanews.com!not-for-mail From: bioinfo@my-dejanews.com Newsgroups: bionet.software Subject: Request regarding Biotechnology S/w Date: Sat, 12 Sep 1998 02:44:19 GMT Organization: Deja News - The Leader in Internet Discussion Lines: 7 Message-ID: <6tcn63$7mu$1@nnrp1.dejanews.com> NNTP-Posting-Host: 202.54.48.104 X-Article-Creation-Date: Fri Sep 11 11:27:19 1998 GMT X-Http-User-Agent: Mozilla/4.0 (compatible; MSIE 4.01; Windows NT) X-Http-Proxy: 1.0 x13.dejanews.com:80 (Squid/1.1.22) for client 202.54.48.104 To All, Does anybody know of any software that does primer designing across species. What are different primer designing s/w and their rating? Thanx -----== Posted via Deja News, The Leader in Internet Discussion ==----- http://www.dejanews.com/rg_mkgrp.xp Create Your Own Free Member Forum From owner-software@net.bio.net Fri Sep 11 23:00:00 1998 Path: biosci!news.stanford.edu!su-news-feed2.bbnplanet.com!su-news-hub1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!nntp2.dejanews.com!nnrp1.dejanews.com!not-for-mail From: f_a@my-dejanews.com Newsgroups: bionet.general,bionet.immunology,bionet.neuroscience,bionet.software Subject: Doctors, Scientists and Independent Film Date: Sat, 12 Sep 1998 04:59:19 GMT Organization: Deja News - The Leader in Internet Discussion Lines: 29 Message-ID: <6tcv37$f0a$1@nnrp1.dejanews.com> NNTP-Posting-Host: 208.251.117.249 X-Article-Creation-Date: Sat Sep 12 04:59:19 1998 GMT X-Http-User-Agent: Mozilla/4.0 (compatible; MSIE 4.01; MSN 2.5; Windows 95) X-Http-Proxy: 1.1 x14.dejanews.com:80 (Squid/1.1.22) for client 208.251.117.249 Xref: biosci bionet.general:30784 bionet.immunology:14601 bionet.neuroscience:24353 bionet.software:21817 The cliche of Independent Film investors are the collection of doctors and dentists flush with cash and hungry for excitement, glamour and riches. More often than not, they are naive speculators who get burned. Although investing in Independent film can be exciting and profitable, it's not too thrilling if not intelligently done. Film investments are commonly emotional or "vanity" investments, but you don't have to throw your money away. There are clear reasons why some films fail while others succeed. We invite you to be a part of an intelligent film investment opportunity. "The Dogwalker", a new feature film from Jacques Thelemaque and the innovative non- profit filmmaking collective Filmmakers Alliance chronicles the relationship between a misanthropic dogwalker and a young woman on the run from an abusive relationship. Quirky and darkly humorous, the film uses dogs as a poetic metaphor for exploring the psychological underpinnings of abuse and self-anger. A solidly structured project, the film will be produced through Filmmakers Alliance, whose inventory of resources and talent allows investors to exponentially increase the value of each dollar invested. We invite you to check out our business plan at www.filmmakersalliance.com/dogwalker, or inquire at (213)880-3805. FOR SERIOUS INVESTORS ONLY willing to qualify themselves - we will be holding an investor dinner party in early November hosted by Maureen O'Boyle - anchor of television's "Extra" - at her lovely home in Los Angeles. Invitation Only. Please contact us no later than October 16th if interested. -----== Posted via Deja News, The Leader in Internet Discussion ==----- http://www.dejanews.com/rg_mkgrp.xp Create Your Own Free Member Forum From owner-software@net.bio.net Sat Sep 12 23:00:00 1998 Path: biosci!news.stanford.edu!newsfeed.berkeley.edu!howland.erols.net!worldfeed.news.gte.net!newsfeed1.earthlink.net!nntp.earthlink.net!posted-from-earthlink!not-for-mail From: Gary Liu Newsgroups: bionet.software Subject: ANOUNCEMENT - SecureZIP: ZIP utility + Security Date: Sat, 12 Sep 1998 17:56:54 -0700 Organization: EarthLink Network, Inc. Lines: 79 Message-ID: <35FB1856.435A6A94@pacbell.net> Reply-To: garygliu@pacbell.net NNTP-Posting-Host: pool037-max3.ds18-ca-us.dialup.earthlink.net Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Posted-Path-Was: not-for-mail X-ELN-Date: Sat Sep 12 18:02:24 1998 X-Mailer: Mozilla 4.02 [en] (Win95; I) SecuriSys Corporation has released its first beta test version of SecureZIP software. SecureZIP is a Windows 95/98/NT based ZIP utility with advanced windows interface and security features that lets you handle ZIP files EASILY and SECURELY. SecureZIP has most of the convenient features found in other popular ZIP utilities such as WinZip - the current leading ZIP utility from Nico Mak Computing, Inc. These features include drag and drop interface, context menu, "Smart Search" - better than "Favorite Folders" of WinZip, automatic installation of software distributed in a ZIP archive, temporary checkout, the Unzip Wizard, etc. In fact, SecureZIP works just like WinZip, except it will automatically verify the digital signature when you open a ZIP or other type of file, and will show the verification result in a small pane under the toolbar. If you want, you can even turn off the small pane to make SecureZIP work almost exactly like WinZip. Unmatched by WinZip and any other ZIP utilities, however, SecureZIP provides security features as secure as leading security software such as PGP. SecureZIP lets you sign a ZIP archive or other type of file with your unique 1024-bit digital signature to make sure that nobody can modify your file or distribute a different file, claiming that it is yours. The recipient of your file can then use SecureZIP to verify the signature to ensure that the file is authentic and has not been modified in the distribution channel. The U.S.-only version of SecureZIP contains 168-bit Triple-DES and 1024-bit public key encryption functions that lets you encrypt a ZIP file and any other type of file. However, due to the export restrictions of the U.S. Government, the encryption/decryption functions are not included in the released beta test version. The beta test version contains only the user interface to such functions to allow beta testers to evaluate the look and feel of the actual encryption/decryption process. SecureZIP is fully compatible with SafenSigned - a popular five star rated digital signature utility released earlier by SecuriSys. By integrating SafenSigned digital signature functions into a general ZIP utility that everyone needs, SecuriSys hopes to make its SafenSigned Signature even more popular. The beta test version of SecureZIP can be downloaded from SecuriSys's home page at http://www.securisys.com. If you send us some comments and bug reports which indicate that you have spent a reasonable amount of effort to test the software, SecuriSys will send you a registered version of the software for free. Please send comments and reports to bugs@securisys.com. For further information please contact: SecuriSys Corporation 11245 183rd St. #230 Cerritos, CA.90703, U.S.A. Tel: (562)-926-7257 FAX: (562)-926-7867 e-mail: info@securisys.com Home page: http://www.securisys.com ############################################### All software packages currently published by SecuriSys Corporation are signed by the SafenSigned Digital Signature: RLDH-7UTR-2PBH4--GLGL-ETJJ-GJ251. Users are advised to use SecureZIP or the SafenSigned Verifier to ensure that the packages are authentic and have not been tampered with before using them. Please visit http://www.securisys.com/ for more details. From owner-software@net.bio.net Sun Sep 13 23:00:00 1998 Path: biosci!agate!newsfeed.berkeley.edu!howland.erols.net!newsfeed.nacamar.de!blackbush.xlink.net!rz.uni-karlsruhe.de!news.uni-stuttgart.de!news.ruhr-uni-bochum.de!not-for-mail From: Marc Saric Newsgroups: bionet.software Subject: Re: Programs for 3D viewing of biological structures? Date: Mon, 14 Sep 1998 13:39:32 +0200 Organization: Ruhr-Universitaet Bochum, Rechenzentrum Lines: 32 Message-ID: <35FD0074.7952F7FA@bph.ruhr-uni-bochum.de> References: <35f90600.15139561@news.cica.es> NNTP-Posting-Host: watson.bph.ruhr-uni-bochum.de Mime-Version: 1.0 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: 8bit X-Trace: sun579.rz.ruhr-uni-bochum.de 905773279 8048 134.147.196.69 (14 Sep 1998 11:41:19 GMT) NNTP-Posting-Date: 14 Sep 1998 11:41:19 GMT X-Mailer: Mozilla 4.05 [en] (Win95; I) To: bb1rofra@uco.es Antonio R. Franco wrote: > > I am using RasMol to visualize the 3D structure of biological > molecules, such as DNA and protein in my PC computer. > > Is there any other program around?. I am interested in any PC or UNIX > program equivalent to the "XRay Viewer" program you can use in the > Macintosh platform I would recommend either SwissPDBViewer or Molmol -both are slower than Rasmol, i.e. you will need a faster computer to use these programs, but they are quite good and have some options Rasmol can´t provide. See http://www.mol.biol.ethz.ch/wuthrich/software/molmol/ http://expasy.hcuge.ch/swissmod/Swiss-PdbViewer/mainpage.html for further information. -- Bye, Marc Saric Lehrstuhl fuer Biophysik Projektgruppe Theoretische Biophysik http://www.bph.ruhr-uni-bochum.de/ Ruhr-Universitaet Bochum Germany From owner-software@net.bio.net Sun Sep 13 23:00:00 1998 Path: biosci!PUBLIC.BTA.NET.CN!Huangy From: Huangy@PUBLIC.BTA.NET.CN (Huang Yue) Newsgroups: bionet.software Subject: free software of drawing plasmid map Date: 14 Sep 1998 08:24:45 -0700 Organization: PUMC Lines: 33 Sender: daemon@net.bio.net Distribution: world Message-ID: <35FD35B4.496216F3@public.bta.net.cn> Reply-To: Huangy@public.bta.net.cn NNTP-Posting-Host: net.bio.net This is a multi-part message in MIME format. --------------F896816DFC15058EF806E6AE Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit I want to obtain a free simply software which can be used to draw cycle plamid map. Does anybody know where I can download it? Thank you very much! --------------F896816DFC15058EF806E6AE Content-Type: text/x-vcard; charset=us-ascii; name="vcard.vcf" Content-Transfer-Encoding: 7bit Content-Description: Card for Huang Yue Content-Disposition: attachment; filename="vcard.vcf" begin: vcard fn: Huang Yue n: Yue;Huang org: PUMC adr: Room 157,Institute of Basic Medical Sciences;;Chinese Academy of Medical Sciences;5 Dong Dan San Tiao, Beijing;;100005;P.R.CHINA email;internet: huangy@public.bta.net.cn title: Ph.D tel;work: 8610-65296426 tel;fax: 8610-65240529 x-mozilla-cpt: ;0 x-mozilla-html: FALSE version: 2.1 end: vcard --------------F896816DFC15058EF806E6AE-- From owner-software@net.bio.net Sun Sep 13 23:00:00 1998 Path: biosci!pravda.ucr.edu!awabi.library.ucla.edu!208.134.241.18!newsfeed.internetmci.com!205.252.116.205!howland.erols.net!news1.ispnews.com!news11.ispnews.com!news3.ispnews.com.POSTED!not-for-mail From: "Andrew Miller" Newsgroups: bionet.neuroscience,bionet.software,comp.graphics,comp.graphics.api.misc,comp.graphics.misc,comp.graphics.visualization,comp.protocols.dicom Subject: free medical image 3D visualization software for Windows95 Lines: 27 MIME-Version: 1.0 Content-Type: text/plain; charset="iso-8859-1" Content-Transfer-Encoding: 7bit X-Newsreader: Microsoft Outlook Express 4.72.2106.4 X-MimeOLE: Produced By Microsoft MimeOLE V4.72.2106.4 Message-ID: <3t2L1.12$lk2.21809@news3.ispnews.com> NNTP-Posting-Host: 206.30.88.61 X-Trace: news3.ispnews.com 905753535 206.30.88.61 (Mon, 14 Sep 1998 02:12:15 EDT) NNTP-Posting-Date: Mon, 14 Sep 1998 02:12:15 EDT Organization: ISPNews http://ispnews.com Date: Mon, 14 Sep 1998 02:10:44 -0400 Xref: biosci bionet.neuroscience:24372 bionet.software:21825 NeuroModeller version 1.14 update Free medical image 3D visualization software for Windows95 brought to you by Cornell University/Division of Neurosurgery available at: http://users.infohouse.com/amiller/home.htm ... download size is 1320 KB. The site also offers MRI & 3D test data. The application supports software rendering & hardware 3D accelerated graphics, as well as file support for DICOM, BMP, & RAW formats. NeuroModeller offers realtime 3D visualization and manipulation of surface iso-contours. Some of the features include: scrolling through multiple contours, superposition of contours, rotating, zooming, moving, lighting, texture mapping, coloring with transparency, and toggling on or off the visibility of contiguous regions. NeuroModeller is now capable of combining FUNCTIONAL IMAGING with normal anatomical data. Image processing features of NeuroModeller include: window/level control, thresholding, pixel island removal, masking, and anisotropic diffusion. From owner-software@net.bio.net Sun Sep 13 23:00:00 1998 Path: biosci!news.stanford.edu!newsfeed.berkeley.edu!howland.erols.net!news.net.uni-c.dk!not-for-mail From: "Sřren W. Rasmussen" Newsgroups: bionet.software Subject: ANOUNCEMENT - DNATools 5.1 Date: Mon, 14 Sep 1998 11:19:09 +0200 Organization: UNI-C Lines: 41 Message-ID: <35FCDF8D.B1ABD5A1@crc.dk> NNTP-Posting-Host: 117-02.crc.dk Mime-Version: 1.0 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: 8bit X-Trace: news.net.uni-c.dk 905765044 15388 (None) 130.226.182.97 X-Complaints-To: usenet@news.net.uni-c.dk X-Mailer: Mozilla 4.03 [en] (Win95; I) DNATools, for Windows 95/98 and NT Software for DNA sequence analysis. Features: Simultaneously handles several thousand sequences. Extracts subgroups of sequences into separate projects. Stores text and data information with each sequence. Searches entire projects with text or sequence strings. Creates various reports summarising project data. Generates microtiter arrays of unique clones. Batch renames multiple sequence files. Creates restriction maps and/or lists of matches. Searches with defined subgroups of restriction sites. Creates user-defined search data files. Imports/edits/creates restriction enzyme data files. Translates single DNA sequences. Displays the Mw, pI and AA composition of proteins. Auto-translates all DNA sequences of a project. Finds longest open reading frames in a sequence. Imports and/or creates codon usage tables. Back-translates peptide sequences. Creates, extracts and analyses SAGE data. Facilitates entering and analysing sequencing primers. Creates email order forms for ordering primers. Calculates DNA concentration. Auto-opens and views multiple text files. Auto-backups your data at pre-set intervals. Includes context sensitive help for all functions. Get a demo copy from swr@crc.dk -- Dr. scient. Sřren W. Rasmussen Carlsberg Laboratory, Department of Physiology 10 Gl. Carlsbergvej, DK-2500, Copenhagen, Denmark Phone 45 3327 5230 / 45 3616 2259, Fax 45 3327 4766 E-mail swr@crc.dk From owner-software@net.bio.net Sun Sep 13 23:00:00 1998 Path: biosci!daresbury!uninett.no!hugin.hsh.no!hotmail.com From: 19F.4Voyeur.@hotmail.com Newsgroups: bionet.software Subject: 19 F and topless;-) - i ve got a webcamera - ME ! Date: Sunday, 13 Sep 1998 10:32:39 -0600 Organization: http://www.afterhoursclub.com/club/cam/mystrip.htm Lines: 7 Message-ID: <13099810.3239@hotmail.com> NNTP-Posting-Host: ole.uninett.no X-Trace: snipp.uninett.no 905734050 27218 158.37.8.10 (14 Sep 1998 00:47:30 GMT) X-Complaints-To: news-abuse@uninett.no Cache-Post-Path: ole.uninett.no!unknown@hugin.hsh.no hi, my name is caolinei m a 19years french female student i just put an on line webcamera in my room i m seeking 4 voyeur to cyber ( i m bi) http://www.afterhoursclub.com/club/cam/mystrip.htm i m not shy.. and shaved, amateur only please!!!! if no serious please do not contact have a nice weekend ^aq@7jmLVw,s From owner-software@net.bio.net Sun Sep 13 23:00:00 1998 Path: biosci!musc.edu!vakseri From: vakseri@musc.edu (Ilya Vakser) Newsgroups: bionet.software Subject: Postdocs/Graduate Students in Docking Date: 14 Sep 1998 14:33:08 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 22 Sender: daemon@net.bio.net Distribution: world Message-ID: <35FD89E1.17EE2E09@musc.edu> NNTP-Posting-Host: net.bio.net Applications are invited for postdoctoral and graduate student positions in my laboratory at the Medical University of South Carolina. The main subjects of the research in the laboratory are computational studies of molecular recognition and the development of docking methodology for protein complexes and computer-aided drug design. For more information, see the lab's web site at http://reco3.musc.edu. Programming skills in C are required. The positions are available immediately. To apply send or email a letter and CV with names of 3 referees. Ilya A. Vakser Assistant Professor of Pharmacology Department of Cell and Molecular Pharmacology Medical University of South Carolina 171 Ashley Avenue Charleston, SC 29425 phone:(843)792-2471, fax:(843)792-2475 email: vakseri@musc.edu, http://reco3.musc.edu From owner-software@net.bio.net Sun Sep 13 23:00:00 1998 Path: biosci!news.stanford.edu!nntp.cs.ubc.ca!news.ultranet.com!news.shore.net!newsfeed.xcom.net!feed1.news.rcn.net!rcn!nntp.giganews.com!nntp2.dejanews.com!nnrp1.dejanews.com!not-for-mail From: woodean@my-dejanews.com Newsgroups: bionet.neuroscience,bionet.software,comp.graphics,comp.graphics.api.misc Subject: shareware for medical image 3D visualization Date: Mon, 14 Sep 1998 02:08:56 GMT Organization: Deja News - The Leader in Internet Discussion Lines: 9 Message-ID: <6thtro$iso$1@nnrp1.dejanews.com> References: <6t7tb6$a1b$1@news13.ispnews.com> NNTP-Posting-Host: 207.172.161.106 X-Article-Creation-Date: Mon Sep 14 02:08:56 1998 GMT X-Http-User-Agent: Mozilla/4.0 (compatible; MSIE 4.01; Windows 98) X-Http-Proxy: 1.1 x14.dejanews.com:80 (Squid/1.1.22) for client 207.172.161.106 Xref: biosci bionet.neuroscience:24367 bionet.software:21824 Has anyone tried KBImage? http://kbimage.com I found it is very good, especially in ROI and 3D. -- Dean Wood -----== Posted via Deja News, The Leader in Internet Discussion ==----- http://www.dejanews.com/rg_mkgrp.xp Create Your Own Free Member Forum From owner-software@net.bio.net Sun Sep 13 23:00:00 1998 Path: biosci!news.stanford.edu!Cabal.CESspool!bofh.vszbr.cz!howland.erols.net!newsfeed.fast.net!uunet!in4.uu.net!news.ici.net!not-for-mail From: "Hilton Evans" Newsgroups: bionet.molec-model,bionet.software,misc.education.science,sci.chem Subject: 3D Molecular Structure Date: 14 Sep 1998 23:05:00 GMT Organization: Chempen Software Lines: 3 Message-ID: <01bde034$186a9000$9828b4cf@hfevans.ici.net> NNTP-Posting-Host: d-ma-superpop-152.ici.net X-Newsreader: Microsoft Internet News 4.70.1162 Xref: biosci bionet.molec-model:2251 bionet.software:21831 ChemPen3D Chemical Drawing and Modeling Software http://home.ici.net/~hfevans/chempen3d.htm From owner-software@net.bio.net Mon Sep 14 23:00:00 1998 Path: biosci!agate!newsfeed.berkeley.edu!howland.erols.net!woodstock.news.demon.net!demon!news.vienna.good.net!news.phoenix.good.net!news.good.net!newsfeed.slurp.net!not-for-mail From: w@eft.com (jeff) Newsgroups: bionet.software Subject: SOFTWARE AT CLOSE OUT PRICE$$$$$$$$ Message-ID: <35fdf407.6025122@news.feist.com> X-Newsreader: Forte Free Agent 1.11/32.235 Date: Tue, 15 Sep 1998 04:59:35 GMT NNTP-Posting-Host: 198.247.5.196 X-Trace: newsfeed.slurp.net 905835257 198.247.5.196 (Mon, 14 Sep 1998 23:54:17 CDT) NNTP-Posting-Date: Mon, 14 Sep 1998 23:54:17 CDT Organization: Slurp News Feeds Lines: 1 From owner-software@net.bio.net Mon Sep 14 23:00:00 1998 Path: biosci!agate!newsfeed.berkeley.edu!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: free software of drawing plasmid map Date: 15 Sep 1998 02:09:05 GMT Organization: Biology, Indiana University - Bloomington Lines: 8 Message-ID: <6tki81$62m$1@jetsam.uits.indiana.edu> References: <35FD35B4.496216F3@public.bta.net.cn> NNTP-Posting-Host: chipmunk.bio.indiana.edu There are a few plasmid map drawing programs that are freely available and listed in http://iubio.bio.indiana.edu/soft/molbio/Listings.html - don -- -- d.gilbert--biocomputing--indiana-u--bloomington-in-47405 -- gilbertd@bio.indiana.edu From owner-software@net.bio.net Mon Sep 14 23:00:00 1998 Path: biosci!agate!newsfeed.berkeley.edu!awabi.library.ucla.edu!208.134.241.18!newsfeed.internetmci.com!204.238.120.130!news-feeds.jump.net!nntp2.dejanews.com!nnrp1.dejanews.com!not-for-mail From: genomik@genomejobs.com Newsgroups: bionet.software Subject: website for jobs in bioinformatics at at www.genomejobs.com Date: Tue, 15 Sep 1998 03:59:59 GMT Organization: Deja News - The Leader in Internet Discussion Lines: 6 Message-ID: <6tkonv$p4f$1@nnrp1.dejanews.com> NNTP-Posting-Host: 209.24.239.92 X-Article-Creation-Date: Tue Sep 15 03:59:59 1998 GMT X-Http-User-Agent: Mozilla/4.0 (compatible; MSIE 4.01; Windows 98) X-Http-Proxy: 1.1 x1.dejanews.com:80 (Squid/1.1.22) for client 209.24.239.92 Website for jobs in bioinformatics, biocomputing and more at www.genomejobs.com Free for job seekers -----== Posted via Deja News, The Leader in Internet Discussion ==----- http://www.dejanews.com/rg_mkgrp.xp Create Your Own Free Member Forum From owner-software@net.bio.net Mon Sep 14 23:00:00 1998 Path: biosci!news.stanford.edu!nntp.cs.ubc.ca!newsfeed.direct.ca!newshub1.home.com!news.home.com!news.rdc1.mi.home.com.POSTED!not-for-mail Message-ID: <35FE93BC.2777ACD2@home.com> From: "R.M. Holston, Ph.D." Organization: RJL Systems, R&D Group X-Mailer: Mozilla 4.05 [en] (X11; I; Linux 2.0.34 i586) MIME-Version: 1.0 Newsgroups: bionet.software Subject: RJL Systems Announces New Bioelectrical Impedance Analysis Software Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit Lines: 19 Date: Tue, 15 Sep 1998 16:21:20 GMT NNTP-Posting-Host: 24.2.70.85 NNTP-Posting-Date: Tue, 15 Sep 1998 09:21:20 PDT Greetings from RJL Systems, We are pleased to announce the release of our revolutionary new Bioelectrical Impedance Analysis software. Our software is focused on wellness, weight management, and fluid & nutritional analysis using BIA measuring instruments. Our software is based on portable and open standards, and will run on virtually all operating systems, including Win95, WinNT, Win98, Mac, Linux, Solaris, IRIX, HPUX, AIX, and Digital Unix. We have recently added to our website a mailing list (rjl-newsletter@rjlsystems.com) and an interactive demo of our software. For more information, please visit http://rjlsystems.com/ -- R.M. Holston, Ph.D. Cyberneticist, RJL Systems R&D Group http://holston.rjlsystems.com/ From owner-software@net.bio.net Mon Sep 14 23:00:00 1998 Path: biosci!news.stanford.edu!newsfeed.berkeley.edu!su-news-hub1.bbnplanet.com!su-news-feed1.bbnplanet.com!news.bbnplanet.com!pulsar.dimensional.com!dimensional.com!beetle.privatei.com!uunet!uunet!in4.uu.net!hearst.acc.Virginia.EDU!murdoch.acc.Virginia.EDU!not-for-mail From: wrp@alpha0.bioch.virginia.edu (William R. Pearson) Newsgroups: bionet.software Subject: New FASTA release: fasta31t12.shar.Z Date: 15 Sep 1998 13:54:55 -0400 Organization: University of Virginia Lines: 44 Message-ID: NNTP-Posting-Host: alpha0.bioch.virginia.edu X-Newsreader: Gnus v5.5/Emacs 20.2 A new version of the FASTA3 package has been released: ftp://ftp.virginia.edu/pub/fasta/fasta31t12.shar.Z This version corrects some problems with tfasta/x/y3 with the "-3" and "-i" options, and improves prss3 statistical estimates. More importantly, fasta31t12 provides a new capability for accurate statistical estimates from searches of databases of related proteins. Previous versions of the fasta2 and fasta3 programs based statistical estimates on the distribution of similarity scores from the presumed unrelated sequences in that were compared during the database search. This empirical approach works well for searches of SwissProt, OWL, and NR, where most of the sequences in the database are unrelated to the query sequence, but it cannot be used to estimate the statistical significance of a match when a database of related proteins is searched. Fasta31t12 provides a new statistics option: -z 11, which bases the statistical estimates on shuffled versions of the sequences in the database. Thus, if you compare a glutathione transferase to a library with 100 glutathione transferases, fasta3 -z 11 will calculate the similarity of the query to each of the 100 library entries, but it will estimate the significance of the similarity scores based on 100 similarity scores that are produced by comparing the query sequence to a randomly shuffled version of each of the 100 library entries. As a result, the search takes twice as long (twice as many comparisons are performed) and the histogram displays the distribution of shuffled sequence scores. This approach works particularly well useful when searching nrl3d - the database of sequences whose structures are known - because nrl3d is highly redundant. The current version does not provide for "windowed" shuffling of sequences, nor does it shuffle translated DNA sequences as codons; these capabilities will be incorporated soon. In addition, it relies on the user to recognize that few unrelated sequences are available for statistical estimates. Nonetheless, you may find it very useful when performing secondary searches on databases of selected protein families. Bill Pearson From owner-software@net.bio.net Tue Sep 15 23:00:00 1998 Path: biosci!agate!newsfeed.berkeley.edu!cyclone.news.idirect.com!island.idirect.com!news.maxwell.syr.edu!news.eecs.umich.edu!news.bu.edu!not-for-mail From: Sharon Lab Newsgroups: bionet.software Subject: Wanted: Software for Bio-Rad microplate reader Date: Wed, 16 Sep 1998 11:45:21 -0400 Organization: Boston University Lines: 11 Message-ID: <35FFDD00.25387E77@bu.edu> NNTP-Posting-Host: med-path20.bu.edu Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii; x-mac-type="54455854"; x-mac-creator="4D4F5353" Conten