From owner-software@net.bio.net Tue Aug 01 23:00:00 1995 Path: biosci!daresbury!nntp-trd.UNINETT.no!Norway.EU.net!EU.net!newsfeed.internetmci.com!news.uoregon.edu!vixen.cso.uiuc.edu!sdd.hp.com!night.primate.wisc.edu!nntp.msstate.edu!Ra.MsState.Edu!mab3 From: mab3@Ra.MsState.Edu (Mohammed A. Bilwani) Newsgroups: bionet.software Subject: A great deal on CD Date: 2 Aug 1995 13:21:35 -0500 Organization: Mississippi State University Lines: 1 Message-ID: NNTP-Posting-Host: ra.msstate.edu X-Newsreader: NN version 6.5.0 #2 (NOV) ~r CD From owner-software@net.bio.net Tue Aug 01 23:00:00 1995 Path: biosci!daresbury!nntp-trd.UNINETT.no!Norway.EU.net!EU.net!newsfeed.internetmci.com!news.uoregon.edu!news.u.washington.edu!microb3.biostat.washington.edu!user From: gosink@u.washington.edu (John Gosink) Newsgroups: bionet.software Subject: Re: Nearest Neightbor Analysis Date: Wed, 02 Aug 1995 11:31:51 -0800 Organization: University of Washington Lines: 19 Message-ID: References: <3vn56i$nk7@nntp3.u.washington.edu> NNTP-Posting-Host: microb3.biostat.washington.edu In article <3vn56i$nk7@nntp3.u.washington.edu>, joe@evolution.genetics.washington.edu (Joe Felsenstein) wrote: > In article , > John Gosink wrote: > >In article , > >bmecham@cellbio.wustl.edu (Robert Mecham) wrote: > > > >> Can anyone recommend a Mac program for doing nearest neighbor analysis > >> from a protein sequence? > > > >Try Joe Felsenstein's PHYLIP package. > > Nope, sorry, PHYLIP doesn't do anything like nearest neighbor analysis, Ooops!!! Sorry, I had _Neighbor Joining_ on my mind when I read Mecham's original post :-o -John From owner-software@net.bio.net Tue Aug 01 23:00:00 1995 Path: biosci!daresbury!nntp-trd.UNINETT.no!sunic!sunic.sunet.se!mn6.swip.net!seunet!news2.swip.net!plug.news.pipex.net!pipex!tank.news.pipex.net!pipex!news.uoregon.edu!news.u.washington.edu!evolution.genetics.washington.edu!joe From: joe@evolution.genetics.washington.edu (Joe Felsenstein) Newsgroups: bionet.software Subject: Re: Nearest Neightbor Analysis Date: 2 Aug 1995 06:15:46 GMT Organization: University of Washington Genetics Lines: 17 Message-ID: <3vn56i$nk7@nntp3.u.washington.edu> References: NNTP-Posting-Host: evolution.genetics.washington.edu Summary: Nope, PHYLIP doesn't do it Keywords: nearest neighbors, proteins, PHYLIP In article , John Gosink wrote: >In article , >bmecham@cellbio.wustl.edu (Robert Mecham) wrote: > >> Can anyone recommend a Mac program for doing nearest neighbor analysis >> from a protein sequence? > >Try Joe Felsenstein's PHYLIP package. Nope, sorry, PHYLIP doesn't do anything like nearest neighbor analysis, assuming that by that you mean analysis of neighboring positions in the sequence. Mecham was not, I think, asking about phylogenies. ----- Joe Felsenstein joe@genetics.washington.edu (IP No. 128.95.12.41) Dept. of Genetics, Univ. of Washington, Box 357360, Seattle, WA 98195-7360 From owner-software@net.bio.net Tue Aug 01 23:00:00 1995 Path: biosci!rutgers!uwm.edu!vixen.cso.uiuc.edu!howland.reston.ans.net!newsserver.jvnc.net!newsserver2.jvnc.net!news.cac.psu.edu!news.math.psu.edu!ra.nrl.navy.mil!usenet From: rwadkins@cbmse.nrl.navy.mil (rmw) Newsgroups: bionet.software Subject: Re: SigmaPlot and other graphing packages Date: 2 Aug 1995 13:07:00 GMT Organization: Naval Research Laboratory Lines: 17 Sender: -Not-Authenticated-[3942] Message-ID: <3vnt9l$11f@ra.nrl.navy.mil> References: NNTP-Posting-Host: rmw-6900.nrl.navy.mil X-Posted-From: InterNews 1.0.1@rmw-6900.nrl.navy.mil Xdisclaimer: No attempt was made to authenticate the sender's name. In article Andy.Law@bbsrc.ac.uk (Andy Law (Big Nose)) writes: > Also, on a related note. I will soon have to evaluate a number of graphing > and drawing packages on Macs and PCs (and possibly OSF1 and Sun Solaris). > What do you use and is it any good? Most Mac users in science use either Kaleidagraph or Igor. I personally only use Kaleidagraph, and have found it to be fantastic for scientific graphics and curve fitting. There are also various libraries available for Kaleidagraph to allow data manipulation (e.g., Fourier Transforms) within the application. The output is journal quality, and their (Synergy Software) tech support monitors comp.sys.mac.scitech in case you encounter problems. And, it's relatively inexpensive. --Randy From owner-software@net.bio.net Tue Aug 01 23:00:00 1995 Path: biosci!daresbury!nntp-trd.UNINETT.no!Norway.EU.net!EU.net!howland.reston.ans.net!torn!news.ccs.queensu.ca!qlink!3btc From: 3btc@qlink.queensu.ca (Chung Bryan T) Newsgroups: bionet.software Subject: Pedigree software required Date: 2 Aug 1995 15:30:20 GMT Organization: Queen's University, Kingston Lines: 5 Message-ID: <3vo5mc$ghi@knot.queensu.ca> NNTP-Posting-Host: qlink.queensu.ca X-Newsreader: TIN [version 1.2 PL2] Hi, I'm looking for software for pedigree drawing, Cyrillic was a little too expensive for our needs, and we'd prefer to get it off ftp if possible. Any help would be apprieciated. Please mail me at 3btc@qlink.queensu.ca From owner-software@net.bio.net Tue Aug 01 23:00:00 1995 Path: biosci!bcm!cs.utexas.edu!news.sprintlink.net!sunic!sunic.sunet.se!mn6.swip.net!seunet!news2.swip.net!mailgate.astra.com!usenet From: Library Newsgroups: bionet.software Subject: Re: SigmaPlot and other graphing packages Date: 2 Aug 1995 10:00:17 GMT Organization: Astra Draco AB Lines: 15 Message-ID: <3vnibh$aqb@mailgate.astra.com> References: NNTP-Posting-Host: 157.96.140.56 Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 1.1N (Windows; I; 16bit) >Andy.Law@bbsrc.ac.uk (Andy Law (Big Nose)) wrote: >I will soon have to evaluate a number of graphing >and drawing packages on Macs and PCs (and possibly OSF1 and Sun Solaris). >What do you use and is it any good? We use Fig.P from Biosoft for plotting biological data (dose-response curves etc.). It is not the easiest of programmes but has, as far as I know, unsurpassed flexibility. Quite simply it copes with all the odd graphs we want to make. It exports easily and competently to MS-Word amd prints without problems on any printer with a Windows driver. Mark Finney Astra Sweden From owner-software@net.bio.net Tue Aug 01 23:00:00 1995 Newsgroups: bionet.software Path: biosci!daresbury!nntp-trd.UNINETT.no!Norway.EU.net!EU.net!news.sprintlink.net!tank.news.pipex.net!pipex!oleane!jussieu.fr!univ-lyon1.fr!swidir.switch.ch!news.unige.ch!cmu.unige.ch!GRANDCHA From: GRANDCHA@cmu.unige.ch (Kenneth Grandchamp) Subject: New Journal Editor seeking application to help manage .... Message-ID: Lines: 15 Sender: usenet@news.unige.ch Organization: Centre Medical Universitaire - Geneva X-Newsreader: Trumpet for Windows [Version 1.0 Rev A] Date: Wed, 2 Aug 1995 17:22:47 GMT Hello ! My boss has recently become the new editor of a journal. To manage the lot I could make an application in a DBMS, but we are pressed for time. Is there anyone who knows of a ready-made application that will help us keep track of addresses, manuscripts, reviewers, editors, labels and the innumerous dates for recalls and reminders ? Thanks !! Ken. From owner-software@net.bio.net Tue Aug 01 23:00:00 1995 Path: biosci!daresbury!nntp-trd.UNINETT.no!Norway.EU.net!EU.net!howland.reston.ans.net!ix.netcom.com!netnews From: directit@ix.netcom.com (Bob ) Newsgroups: bionet.software Subject: vbrun100.dll Date: 2 Aug 1995 03:31:36 GMT Organization: Netcom Lines: 8 Distribution: world Message-ID: <3vmrio$hih@ixnews5.ix.netcom.com> NNTP-Posting-Host: ix-pas5-27.ix.netcom.com Does anyone know where I can download vbrun100.dll? Appeciate reply to: directit@ix.netcom.com Thanks From owner-software@net.bio.net Tue Aug 01 23:00:00 1995 Path: biosci!rutgers!uwm.edu!reuter.cse.ogi.edu!engr.orst.edu!news.orst.edu!news From: chend@ucs.orst.edu (Don Chen) Newsgroups: bionet.software Subject: e-mail software Date: Tue, 01 Aug 1995 16:50:43 GMT Organization: Oregon State University Lines: 30 Message-ID: <3vlls8$lcg@news.orst.edu> NNTP-Posting-Host: slip133.ucs.orst.edu X-Newsreader: Forte Free Agent 1.0.82 This may not be the best place to ask, so tell me if this is the case. I would like to know from others which Windows-Winsock e-mail software is available as either freeware or shareware. My present reader is Eudora, but I have problems enough with that I would like to view others before spending any money or more time. If the software is not crippled, as is this Eudora demo, I would greatly appreciate it. I would like to see some mail readers that have the functionality of the new newsreader I recently downloaded, Forte's Free Agent. It is as good of a newsreader as I have used and rationally organized. One feature which I wish my mail reader had is the ability to retrieve *again* a piece of mail (article in news) which has been cut off because the server decides to drop the connection. As it stands now, if it is dropped, I need to use my standard unix-type access to read the mail. Thanks for any help. Don Disclaimer: I don't have any connection to either Eudora or Forte and the comments are purely my own and do not reflect the opinions of anyone else. ************************************************************** Sleeping we image what awake we wish, Dogs dream of bones, fishermen of fish. - Theocritus Impoundments are another way of saying, "Dam the rivers, damn the fish, and goddamn you." ************************************************************** From owner-software@net.bio.net Tue Aug 01 23:00:00 1995 Path: biosci!bcm!cs.utexas.edu!swrinde!emory!news.cc.emory.edu!wmb3333a.cardio.emory.edu!medbpl From: Bernard Lassegue Newsgroups: bionet.software,comp.sys.mac.apps,comp.sys.mac.scitech Subject: Re: MacLigand update? Date: 2 Aug 1995 18:13:21 GMT Organization: Emory University Lines: 21 Distribution: world Message-ID: <3vof81$eh@moe.cc.emory.edu> References: NNTP-Posting-Host: wmb3333a.cardio.emory.edu Mime-Version: 1.0 Content-Type: text/plain; charset=ISO-8859-1 Content-Transfer-Encoding: 8bit X-Newsreader: Nuntius 2.0.3_68K X-XXMessage-ID: X-XXDate: Wed, 2 Aug 1995 14:19:59 GMT Xref: biosci bionet.software:12906 comp.sys.mac.apps:97178 comp.sys.mac.scitech:5428 There is a program available on the internet called MacLigand that is extremely old and practically unusable. This program should not be confused with LIGAND for the Mac that is unfortunately not availble on-line, but can be obtained for free from the NIH. The LIGAND program for Macintosh does work, it is free (thanks, Dr. Munson!), but the latest version I saw (4.96, May 1994) was rather unfriendly and cumbersome to use for people used to 'true' Mac applications. Does anyone know what the current version number is ? It would be extremely helpful if the program was significantly updated and widely distributed, so we would not have to bother Dr. Munson everytime we want to know what the current version number is or to request an update. Surely I cannot be the only one who would be willing to BUY an updated version. Does anyone know of another software program available for the Mac that will do saturation and displacement curves, non-linear regression fitting, multiple sites, etc...? A good macro written for excel or kaleidagraph (or any other package) would be adequate. Surely someone must have written one. What happened to the Mac version of the Lundon package that has been under development for at least three years ? I called Lundon and faxed them several times a couple of months ago, but never got any reply ! From owner-software@net.bio.net Tue Aug 01 23:00:00 1995 Path: biosci!bcm!news.msfc.nasa.gov!newsfeed.internetmci.com!uunet!in2.uu.net!olivea!charnel.ecst.csuchico.edu!csusac!csus.edu!news.ucdavis.edu!library.ucla.edu!info.ucla.edu!ucsbuxb.ucsb.edu!usenet From: hentsche@lifesci.ucsb.edu (hentsche) Newsgroups: bionet.software Subject: software for restriction data analysis Date: 2 Aug 1995 16:24:31 GMT Organization: University of California, Santa Barbara Lines: 7 Message-ID: <3vo8rv$5re@ucsbuxb.ucsb.edu> NNTP-Posting-Host: mahanlab.lscf.ucsb.edu X-Posted-From: InterNews 1.0.1b25@mahanlab.lscf.ucsb.edu X-Authenticated: hentsche on POP host lifesci.ucsb.edu We hope to set up a database, with which we can catalogue and compare hundreds of different clones against each other based on their restriction cut pattern ( bamH1, Sal1). We have the a CCD-camera to capture the image. Can anybody recommend the necessary software to process the data? Programs should be in Mac. Any suggestions would be appreciated. Ute Hentschel ( hentsche@lifesci.lscf.ucsb.edu) From owner-software@net.bio.net Tue Aug 01 23:00:00 1995 Path: biosci!bcm!cs.utexas.edu!news.sprintlink.net!EU.net!Germany.EU.net!nntp.gmd.de!news.rwth-aachen.de!newsserver.rrzn.uni-hannover.de!tubsibr!rzlimes.gbf-braunschweig.de!news From: uka@gbf-braunschweig.de (Uwe Kaerst) Newsgroups: bionet.software Subject: Re: SigmaPlot and other graphing packages Date: 2 Aug 1995 07:21:00 GMT Organization: GBF Lines: 36 Message-ID: <3vn90s$2bq@rzlimes.gbf-braunschweig.de> References: NNTP-Posting-Host: etnuka.gbf-braunschweig.de Mime-Version: 1.0 X-Newsreader: WinVN 0.99.3 In article , Andy.Law@bbsrc.ac.uk says... > >Can someone give me a contact for the publishers of SigmaPlot. I'd like to >get hold of a demo if one exists. > >Also, on a related note. I will soon have to evaluate a number of graphing >and drawing packages on Macs and PCs (and possibly OSF1 and Sun Solaris). >What do you use and is it any good? > >Thanks in advance to all and sundry. >-- >Andy Law > >( Andy.Law @ bbsrc.ac.uk ) >( Big Nose in Edinburgh ) Andy, Jandel Scientific, the publisher of SigmaPlot has a www homepage (www.jandel.com, IP is 199.170.0.55). They do offer demo versions of their software. We are using SigmaPlot (DOS and Windows) for several years now and are very satisfied with it, especially with the current SP for Windows (2.01). The only other Windows software comparable to SP is Origin from Microcal, US, now Version 3.5. Hope this helps Uwe From owner-software@net.bio.net Tue Aug 01 23:00:00 1995 Path: biosci!daresbury!nntp-trd.UNINETT.no!Norway.EU.net!EU.net!howland.reston.ans.net!spool.mu.edu!uwm.edu!reuter.cse.ogi.edu!engr.orst.edu!news.orst.edu!carp.FSL.ORST.EDU!karvonen From: karvonen@fsl.orst.edu (Keijo Karvonen) Newsgroups: bionet.software Subject: Re: vbrun100.dll Date: Wed, 2 Aug 1995 08:14:51 Organization: Forestry Sciences Lab Lines: 15 Distribution: world Message-ID: References: <3vmrio$hih@ixnews5.ix.netcom.com> NNTP-Posting-Host: carp.fsl.orst.edu X-Newsreader: Trumpet for Windows [Version 1.0 Rev A] In article <3vmrio$hih@ixnews5.ix.netcom.com> directit@ix.netcom.com (Bob ) writes: >From: directit@ix.netcom.com (Bob ) >Subject: vbrun100.dll >Date: 2 Aug 1995 03:31:36 GMT >Does anyone know where I can download vbrun100.dll? >Appeciate reply to: >directit@ix.netcom.com >Thanks For example from ftp.microsoft.com From owner-software@net.bio.net Wed Aug 02 23:00:00 1995 Path: biosci!rutgers!uwm.edu!cs.utexas.edu!howland.reston.ans.net!news.sprintlink.net!news.interserv.net!usenet From: chips@ocala.com (chips) Newsgroups: bionet.software Subject: Re: e-mail software Date: Thu, 03 Aug 1995 00:39:16 GMT Organization: InterServ News Service Lines: 40 Message-ID: <3vp5j9$hft@data.interserv.net> References: <3vlls8$lcg@news.orst.edu> NNTP-Posting-Host: ppp14.ocala.com X-Newsreader: Forte Free Agent v0.55 chend@ucs.orst.edu (Don Chen) wrote: >This may not be the best place to ask, so tell me if this is the case. >I would like to know from others which Windows-Winsock e-mail software >is available as either freeware or shareware. My present reader is >Eudora, but I have problems enough with that I would like to view >others before spending any money or more time. If the software is not >crippled, as is this Eudora demo, I would greatly appreciate it. >I would like to see some mail readers that have the functionality of >the new newsreader I recently downloaded, Forte's Free Agent. It is >as good of a newsreader as I have used and rationally organized. One >feature which I wish my mail reader had is the ability to retrieve >*again* a piece of mail (article in news) which has been cut off >because the server decides to drop the connection. As it stands now, >if it is dropped, I need to use my standard unix-type access to read >the mail. >Thanks for any help. >Don >Disclaimer: I don't have any connection to either Eudora or Forte and >the comments are purely my own and do not reflect the opinions of >anyone else. >************************************************************** >Sleeping we image what awake we wish, > Dogs dream of bones, fishermen of fish. - Theocritus >Impoundments are another way of saying, > "Dam the rivers, damn the fish, and goddamn you." >************************************************************** Don, Have you tried Pegasus Mail 2.01? So far I think It has Eudora beat, and the price is right. Free. Charlie From owner-software@net.bio.net Wed Aug 02 23:00:00 1995 Newsgroups: bionet.software Path: biosci!daresbury!hgmp.mrc.ac.uk!ebi.ac.uk!EMBL-EBI.ac.uk!tome From: tome@EMBL-EBI.ac.uk (Patricia Rodriguez-Tome) Subject: Re: Molecular Biology Software Sender: news@ebi.ac.uk (Mr news) Message-ID: Date: Thu, 3 Aug 1995 11:21:08 GMT Lines: 24 Reply-To: tome@ebi.ac.uk References: Organization: European Bioinformatics Institute (EMBL) - UK X-Newsreader: mxrn 6.18-32 In article , schryver@acs.ucalgary.ca (Tony Schryvers) writes: >Does anyone know where there is any shareware molecular biology >applications (DNA sequence alignment, Protein alignment, Plasmid map >drawing etc) for the PC - windows 3.11 environment? > You should have a look at the EBI software repository : ftp://ftp.ebi.ac.uk/pub/software/dos The README file lists the softs with a small description. Regards, Pat RT -- ======================================================================= Dr. Patricia Rodriguez-Tome | URL: http://www.ebi.ac.uk The EMBL Outstation, Hinxton - The European Bioinformatics Institute Hinxton Hall, Hinxton | Tel: +44 (0)1223 494 413 Cambridge CB10 1RQ, UK | Fax: +44 (0)1223 494 468 ======================================================================== From owner-software@net.bio.net Wed Aug 02 23:00:00 1995 Path: biosci!bcm!cs.utexas.edu!howland.reston.ans.net!newsfeed.internetmci.com!news.sprintlink.net!uunet!in2.uu.net!d2.tufts.edu!saffron.hnrc.tufts.edu!usenet From: Jim Sadowski Newsgroups: bionet.software Subject: Antigenic Epitope Prediction Programs? Date: 3 Aug 1995 18:24:42 GMT Organization: USDA Human Nutrition Research Center on Aging at Tufts University Lines: 11 Message-ID: <3vr49a$r3h@saffron.hnrc.tufts.edu> NNTP-Posting-Host: vitk-quadra-720.hnrc.tufts.edu Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 1.1N (Macintosh; I; 68K) X-URL: news:bionet.software Does anybody know where I can find a program to determine antigenic epitopes from known protein amino acid sequences? We're trying to design peptides for immunization protocols to develop antibodies in rabbits. Thank you. Jim Sadowski, Ph.D. Jean Mayer USDA Human Nutrition Research Center on Aging at Tufts University Sadowski_VK@Mint.HNRC.Tufts.edu From owner-software@net.bio.net Wed Aug 02 23:00:00 1995 Path: biosci!daresbury!nntp-trd.UNINETT.no!Norway.EU.net!EU.net!howland.reston.ans.net!vixen.cso.uiuc.edu!usenet.ucs.indiana.edu!sunflower.bio.indiana.edu!gilbertd From: gilbertd@sunflower.bio.indiana.edu (Don Gilbert) Newsgroups: bionet.software Subject: Re: Molecular Biology Software Date: 3 Aug 1995 12:36:03 GMT Organization: Biology, Indiana University - Bloomington Lines: 16 Message-ID: <3vqfrj$60c@usenet.ucs.indiana.edu> References: NNTP-Posting-Host: sunflower.bio.indiana.edu If you haven't looked here yet, take a look in the /molbio/ibmpc directory on IUBio Archive. There are several MSWindows programs there. Use ftp, gopher, or http to iubio.bio.indiana.edu for this archive of biology software & data. -- Don In article schryver@acs.ucalgary.ca (Tony Schryvers) writes: >Does anyone know where there is any shareware molecular biology >applications (DNA sequence alignment, Protein alignment, Plasmid map >drawing etc) for the PC - windows 3.11 environment? -- -- d.gilbert--biocomputing--indiana u--bloomington--gilbertd@bio.indiana.edu From owner-software@net.bio.net Wed Aug 02 23:00:00 1995 Path: biosci!daresbury!nntp-trd.UNINETT.no!Norway.EU.net!EU.net!howland.reston.ans.net!torn!news.bc.net!rover.ucs.ualberta.ca!news.ucalgary.ca!pc65.mid.ucalgary.ca!user From: schryver@acs.ucalgary.ca (Tony Schryvers) Newsgroups: bionet.software Subject: Molecular Biology Software Date: Wed, 02 Aug 1995 18:54:42 -0500 Organization: MID Lines: 3 Message-ID: NNTP-Posting-Host: @pc65.mid.ucalgary.ca Does anyone know where there is any shareware molecular biology applications (DNA sequence alignment, Protein alignment, Plasmid map drawing etc) for the PC - windows 3.11 environment? From owner-software@net.bio.net Wed Aug 02 23:00:00 1995 Path: biosci!bcm!cs.utexas.edu!howland.reston.ans.net!swrinde!tank.news.pipex.net!pipex!lyra.csx.cam.ac.uk!mole.bio.cam.ac.uk!brenner From: brenner@mole.bio.cam.ac.uk (Steven Brenner) Newsgroups: bionet.software Subject: Re: sequence homology Date: 3 Aug 1995 19:13:31 GMT Organization: University of Cambridge, England Lines: 46 Message-ID: <3vr74r$pqj@lyra.csx.cam.ac.uk> References: <3vhqg2$5fl@nntp3.u.washington.edu> NNTP-Posting-Host: mole.bio.cam.ac.uk stardog@u.washington.edu (Kevin Lease) writes: >Hi, > Can someone point me in the direction of a good program for finding >the most conserved regions of a protein by lining up all the a.a. >sequences for a given protein from different species? There are two questions here: (1) making an alignment of the sequences and (2) doing some analysis of the most conserved positions. Along the lines of (1), making a sequence alignment, probably the most commonly used software is ClustalW. You can find it at: ftp://ftp.ebi.ac.uk/pub/software/unix/clustalw.tar.Z among other locations. Also of interest for doing alingments at hidden Markov models (HMMs). You can obtain information about these at: http://genome.wustl.edu/eddy/hmm.html (Eddy & Durbin's system) http://www.cse.ucsc.edu/research/compbio/sam.html (Haussler group system) To do the analysis (2), you can either look at the positions yourself, your use any of a number of different systems for aiding the analysis. HMMs automatically give you the level of conservation at each position. There are a large number of programs which will aid you in coloring an alignment according to conservation, and these can be helpful in a general sort of way. More intersting is AMAS, a system intended to do all sorts of various analyses on multiply aligned sequences. An interface to this is available at: http://geoff.biop.ox.ac.uk/servers/amas_server.html Finally, with apologizies for being pedantic, I just want to remind one of the other people who followed up this thread that proteins the sequences can not be 'more' or 'less' homologous. Homology means that two things stem from a common ancestor; to proteins are either homolgous or they are not homologous (just as something is either unique or not unique; it can't be 'more' unique). Typically the appropriate word is 'similarity,' and a high level of similarity typically implies homology. Steve -- Steven E. Brenner | S.E.Brenner@bioc.cam.ac.uk MRC Laboratory of Molecular Biology | Hills Road | Office: +44 1223 248011 Cambridge CB2 2QH, UK | Fax: +44 1223 213556 From owner-software@net.bio.net Wed Aug 02 23:00:00 1995 Path: biosci!daresbury!nntp-trd.UNINETT.no!Norway.EU.net!EU.net!howland.reston.ans.net!swrinde!elroy.jpl.nasa.gov!lll-winken.llnl.gov!usenet From: Chris Barry Newsgroups: bionet.software Subject: CCD Camera Date: 3 Aug 1995 23:35:18 GMT Organization: Lawrence Livermore National Laboratory Lines: 6 Message-ID: <3vrmfm$o0h@lll-winken.llnl.gov> NNTP-Posting-Host: mackiller.llnl.gov Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 1.1N (X11; I; Linux 1.1.72 i486) X-URL: news:bionet.software I have a PXL-211 camera by Pixel and it saves the images in a *.pix format. Is amyone familiar with this format and do you know of a viewer for it or a program that converts it to a more standard format? Chris From owner-software@net.bio.net Wed Aug 02 23:00:00 1995 Path: biosci!bcm!cs.utexas.edu!howland.reston.ans.net!swrinde!sdd.hp.com!night.primate.wisc.edu!nntp.msstate.edu!Ra.MsState.Edu!mab3 From: mab3@Ra.MsState.Edu (Mohammed A. Bilwani) Newsgroups: bionet.software Subject: Revision: A great deal on CD Date: 3 Aug 1995 14:07:21 -0500 Organization: Mississippi State University Lines: 17 Message-ID: NNTP-Posting-Host: ra.msstate.edu X-Newsreader: NN version 6.5.0 #2 (NOV) Hi there, The CD I have to offetr is only one in quantity but it contains 92 powerful softwares such as MS Office 4.3 Laplink 6.0 Lotus Smart Suite3.0 Acad for Windows 12 Quattro Pro MathCad plus Fowx Pro for Windows 2.6 and much much more For a complete list and the price please email me at altaf @biruni.erum.com.pk Also other CDS are also available Regards Altaf From owner-software@net.bio.net Wed Aug 02 23:00:00 1995 Path: biosci!bcm!cs.utexas.edu!news.sprintlink.net!sunic!sunic.sunet.se!columba.udac.uu.se!news From: Vera.Noest@vaxtbio.uu.se (Vera Noest) Newsgroups: bionet.software Subject: Re: New Journal Editor seeking application to help manage .... Date: 3 Aug 1995 13:40:18 GMT Organization: Uppsala University Lines: 34 Message-ID: <3vqjk2$66k@columba.udac.uu.se> References: NNTP-Posting-Host: pc2.vaxtbio.uu.se Mime-Version: 1.0 X-Newsreader: WinVN 0.93.14 In article , GRANDCHA@cmu.unige.ch says... >My boss has recently become the new editor of a journal. >To manage the lot I could make an application in a DBMS, but we are pressed >for time. > >Is there anyone who knows of a ready-made application that will help us keep >track of addresses, manuscripts, reviewers, editors, labels and the innumerous >dates for recalls and reminders ? Hello Ken, I do not know what platform you are working on, but I can recommend FileMaker Pro, which is available for both PC and Macintosh. You create a record for every manuscript, and define as many fields (= variables) as you need, i.e. authors name, title, date of first submission, names of referees, their comments, etc. You can export selected variables into a "merge" file, and incorporate them into your standard letters in Microsoft Word (maybe also other wordprocessors). You can define macros in FileMaker Pro to alert you when a review is overdue, etc. I use it al the time (I am the managing editor of the Journal of Coastal Conservation), and it enables me to see in one glance in what "state" a manuscript is. Disclaimer: I have no affiliation with any of the above software producers. ------------------------------------------------------------------ Vera Noest Email : Vera.Noest@vaxtbio.uu.se Dept. of Ecological Botany Fax : +46 18 553419 Uppsala University Voice : +46 18 182869 Uppsala, Sweden From owner-software@net.bio.net Thu Aug 03 23:00:00 1995 Newsgroups: bionet.software Path: biosci!bcm!cs.utexas.edu!news.sprintlink.net!crash!rcdana From: rcdana@crash.cts.com (R. Dana - Green Gene) Subject: mol bio software needed Organization: CTS Network Services (CTSNET), San Diego, CA Date: Fri, 4 Aug 1995 07:56:15 GMT Message-ID: X-Newsreader: TIN [version 1.2 PL2] Sender: news@crash.cts.com (news subsystem) Nntp-Posting-Host: crash.cts.com Lines: 4 The Molecular Biology Conference needs computer people to bring software for demos Sept 17-20 in San Diego Contact: rcdana@cts.com From owner-software@net.bio.net Thu Aug 03 23:00:00 1995 Newsgroups: bionet.software Path: biosci!bcm!cs.utexas.edu!news.sprintlink.net!crash!rcdana From: rcdana@crash.cts.com (R. Dana - Green Gene) Subject: where to get Organization: CTS Network Services (CTSNET), San Diego, CA Date: Fri, 4 Aug 1995 07:59:48 GMT Message-ID: X-Newsreader: TIN [version 1.2 PL2] Sender: news@crash.cts.com (news subsystem) Nntp-Posting-Host: crash.cts.com Lines: 7 pegasus mail 2.01 where is it? tell me please rcdana@cts.com From owner-software@net.bio.net Thu Aug 03 23:00:00 1995 Path: biosci!bcm!cs.utexas.edu!howland.reston.ans.net!tank.news.pipex.net!pipex!oleane!jussieu.fr!univ-lyon1.fr!swidir.switch.ch!scsing.switch.ch!news.belwue.de!News.Uni-Marburg.DE!usenet From: becker@ps1515.chemie.uni-marburg.de (Anderas Becker) Newsgroups: bionet.software Subject: Re: Molecular Biology Software Date: 4 Aug 1995 12:45:24 GMT Organization: FB Chemie/Biochemie, Universtity, Marburg, Germany Lines: 16 Message-ID: <3vt4p4$s8v@surz03.HRZ.Uni-Marburg.DE> References: NNTP-Posting-Host: nnex03.ppp.uni-marburg.de X-Newsreader: WinVN 0.92.6+ In article , schryver@acs.ucalgary.ca (Tony Schryvers) says: > >Does anyone know where there is any shareware molecular biology >applications (DNA sequence alignment, Protein alignment, Plasmid map >drawing etc) for the PC - windows 3.11 environment? Take a look at my www site. There are several archives mentioned. ---------------------------------------------------------------------- Andreas Becker Arbeitskreis Prof. Kadenbach, FB Chemie/Biochemie, Hans- Meerwein-Strasse, Philipps-Universitaet, 35043 Marburg, Germany Phone: privat +49 6421 47304 Labor +49 6421 28 -5721 Fax -2191 eMail: BECKER@ps1515.Chemie.Uni-Marburg.De WWW : http://www.chemie.uni-marburg.de/~becker From owner-software@net.bio.net Thu Aug 03 23:00:00 1995 Path: biosci!daresbury!nntp-trd.UNINETT.no!due.unit.no!nac.no!nntp.uio.no!sjreppe From: sjreppe@bioslave.uio.no (Sjur Reppe) Newsgroups: bionet.molbio.proteins,bionet.software Subject: Re: Program to calculate isoelectric points? Followup-To: bionet.molbio.proteins,bionet.software Date: 4 Aug 1995 08:25:50 GMT Organization: University of Oslo Lines: 27 Message-ID: <3vslie$8mk@hermod.uio.no> References: <3tsida$qtg@cwis-20.wayne.edu> NNTP-Posting-Host: bioslave.uio.no X-Newsreader: TIN [version 1.2 PL2] Xref: biosci bionet.molbio.proteins:5246 bionet.software:12924 Angela c. Murphy (acmurphy@helix.nih.gov) wrote: : There is also a program called "isoelectric" in the GCG group of programs : for unix machines. A cruder calculator of isoelectric points may be found : in the DOS and Windows versions of "General Protein Mass Analysis For..." : (DOS or Windows). I got my Windows version from WindowChem Software, and : it was under $200. : Angela C. Murphy : On 11 Jul 1995, Anton Scott Goustin wrote: : > scb1@ellis.uchicago.edu (Samuel C. Blackman) wrote: : > >Does anyone know of a program (Mac, DOS, Unix) that will calculate the : > >isoelectric point of a given peptide? Thanks! : > > : > >-- Sam : > > : > > : > >-- : > >Samuel C. Blackman ! InterNet : scb1@midway.uchicago.edu : > >MD/PhD 2/7 (Pharmacology) ! Disclaimer : Who cares what I say, I'm a student! : > >5513 S. Cornell Ave. #1 ! Quote : I'm not a doctor, but I play one on TV. : > >Chicago, IL 60637-1914 ! Phone : 312/752-1082 (h) Fax: 312/996-1225 : > : > There is a program that does so contained within MacVector 4.5 (Kodak Imaging Technologies)...expensive. Perhaps a neighbor has it there at the University of Chicago. : > : > : > From owner-software@net.bio.net Thu Aug 03 23:00:00 1995 Path: biosci!bcm!cs.utexas.edu!howland.reston.ans.net!nctuccca.edu.tw!netnews.ntu.edu.tw!news From: or50a31@studnet.nsysu.edu.tw (Tricy Dick) Newsgroups: bionet.software Subject: biolog kit program updating? Date: Sat, 05 Aug 1995 04:49:19 GMT Organization: NSYSU Lines: 8 Message-ID: <3vt9ju$4v@netnews.ntu.edu.tw> Reply-To: or50a31@studnet.nsysu.edu.tw NNTP-Posting-Host: @140.117.91.45 X-Newsreader: Forte Free Agent 1.0.82 Can anyone tell me where I can get the updating version of biolog program? Tricy Dick or50a31@student.nsysu.edu.tw From owner-software@net.bio.net Thu Aug 03 23:00:00 1995 Path: biosci!bcm!cs.utexas.edu!howland.reston.ans.net!tank.news.pipex.net!pipex!uknet!bhamcs!bham!usenet From: s.m.williams.bcm@bham.ac.uk (Steve) Newsgroups: bionet.software Subject: Re: where to get Pegasus Mail Date: Fri, 04 Aug 1995 11:52:04 GMT Organization: The University of Birmingham, UK. Lines: 37 Message-ID: <3vt2kc$gfb@sun4.bham.ac.uk> References: NNTP-Posting-Host: bcs177.bham.ac.uk X-Newsreader: Forte Free Agent 1.0.82 rcdana@crash.cts.com (R. Dana - Green Gene) wrote: >pegasus mail 2.01 >where is it? >tell me please rcdana@cts.com I have the link to Pegasus Mail 2.01 from one of my WEB pages. There are also some other programmes, which should be of use. I'm currently trying to build up the Molecular Biology section. So if you know of any programmes suitable for a PC running MS Windows, I would be grateful if you could let me know. The URL for my page with Pegasus mail is:- http://sun1.bham.ac.uk/s.m.williams.bcm/images/viewers.html Steve \\\\ \\\\(o o) 8(o o)(_)Ooo ###########################################ooO##(_)###Ooo######### # # # E-Mail: S.M.WILLIAMS.BCM@bham.ac.uk # # # # WWW: http://sun1.bham.ac.uk/s.m.williams.bcm/home_page.html # # WWW: http://iptunix.bcm.bham.ac.uk/sjwb/sjwb.html # # # # Phone: (44)0121-415-5435 # # Fax: (44)0121-414-7366 # # # ################################################################## From owner-software@net.bio.net Thu Aug 03 23:00:00 1995 Path: biosci!bcm!cs.utexas.edu!howland.reston.ans.net!torn!news.ccs.queensu.ca!qlink!3btc From: 3btc@qlink.queensu.ca (Chung Bryan T) Newsgroups: bionet.software Subject: Pedigree software required Date: 4 Aug 1995 12:07:04 GMT Organization: Queen's University, Kingston Lines: 4 Message-ID: <3vt2h8$o0b@knot.queensu.ca> NNTP-Posting-Host: qlink.queensu.ca X-Newsreader: TIN [version 1.2 PL2] I forgot to mention, I need PC software, MAC software will be rather hard to use on a PC =) Bryan From owner-software@net.bio.net Thu Aug 03 23:00:00 1995 Path: biosci!bcm!cs.utexas.edu!howland.reston.ans.net!newsfeed.internetmci.com!news.sprintlink.net!uunet!in1.uu.net!noc.near.net!das-news2.harvard.edu!oitnews.harvard.edu!news.sesqui.net!rice!cs.rice.edu!schaffer From: schaffer@cs.rice.edu (Alex Schaffer) Newsgroups: bionet.software,bionet.molbio.gene-linkage Subject: FASTLINK 2.3P available, runs in parallel Date: 4 Aug 1995 14:37:11 GMT Organization: Rice University Lines: 166 Message-ID: <3vtban$aob@larry.rice.edu> NNTP-Posting-Host: cs.rice.edu Xref: biosci bionet.software:12926 bionet.molbio.gene-linkage:796 The purpose of this note is to announce the availability of FASTLINK 2.3P. FASTLINK is a faster version of the principal linkage analysis programs in LINKAGE 5.1. Thanks to Lucien Bachner, Carolyn Bucholtz, John Powell, Gyorgy Simon, Jim Tomlin, and Garret Taylor for assistance with beta testing and portability testing of the parallel code. Thanks to Margaret Gelder Ehm, Carol Haynes, Patricia Kramer, Toby Nygaard, Marcy Speer, Gerard Tromp, Frank Visser for bug reports and suggestions that helped in developing version 2.3P. Thanks to Anita Destefano and Kimmo Kallio for assistance with portability to VMS. As with previous versions, FASTLINK 2.3P can be ftp-ed from softlib.cs.rice.edu in the directory pub/fastlink The main advance over FASTLINK 2.2 is that much of the code can now run in parallel, which explains the P in the new version. Most of this message will focus on the parallel code, but let me put some remarks about the sequential code first, so that those who want only sequential code can skip the rest. |*| Sequential Code --------------- Version 2.3P has some improvements in the sequential code and documentation, which are covered at the end of README.updates. New features include speeding up runs involving multiple LINKMAP scripts that move a marker across a fixed map. The organization of the code files and Makefile has changed substantially, so that the same files can be used to make both sequential and parallel executable files. There is a new auxiliary program called ofm ("optimize for maxhap") to assist with automatic recompilation of the programs. |*| Parallel Code, Introduction --------------------------- The (sequential) FASTLINK package already provides considerable running time improvements over the older programs for the LINKAGE package. Response from users about sequential FASTLINK has been extremely enthusiastic and yet, it is abundantly clear that more speedup is necessary. At this time, we believe that one realistic way to obtain substantially more speedup on long runs is to use multiple processors in parallel. We continue to investigate further sequential speedups. Two attempts to parallelize ILINK from FASTLINK are described in the papers: 3. Sandhya Dwarkadas, Alejandro A. Schaffer, Robert W. Cottingham Jr., Alan L. Cox, Peter Keleher, and Willy Zwaenepoel, Parallelization of General Linkage Analysis Problems, Human Heredity 44(1994), pp. 127--141. 4. Sandeep K. Gupta, Alejandro A. Schaffer, Alan L. Cox, Sandhya Dwarkadas, and Willy Zwaenepoel, Integrating Parallelization Strategies for Linkage Analysis, Computers and Biomedical Research 28(1995), pp. 116-139. These two papers are available as paper3.ps and paper4.ps with the distribution. The version of parallel ILINK that we are distributing is similar algorithmically to that described in the second paper. We were able to achieve speedups in the 5 to 7 range on a network of 8 DECStation5000/Ultrix processors on ILINK runs that take tens of minutes sequentially. |*| Parallel FASTLINK, Operation ---------------------------- FASTLINK 2.3P can be run in parallel on two different types of platforms: shared-memory multiprocessors and networks of UNIX workstations. FASTLINK on shared-memory multiprocessors: The shared-memory version uses the p4 macros which are available by anonymous ftp to Argonne National Labs. More detailed retrieval and installation instructions can be found in README.p4 that comes with FASTLINK. FASTLINK on network of workstations: If you have access to a network of (uniprocessor) Unix workstations, then you can run parallel FASTLINK using a runtime package called TreadMarks. TreadMarks essentially provides the same execution environment on a network of workstations as that available on shared-memory multiprocessors. TreadMarks is available for a small fee for universities and medical schools, and at commercial rates for other institutions. All users can get a 30-day free trial license. See README.TreadMarks for more details on how to configure FASTLINK with TreadMarks. TreadMarks licenses can be obtained by sending e-mail to treadmarks@ece.rice.edu. Please specify the nature of your organization (commercial or university/medical school) and the machine architecture and operating system you plan to use TreadMarks for. Once you return the signed license and the license fee, a copy of TreadMarks will be sent to you or be made available via ftp. A free 30-day demo copy can also be obtained by sending e-mail to the same address. We recognize that installing the parallel code is more difficult that installing the sequential code because of the need to configure both the FASTLINK code and the runtime library (either p4 or TreadMarks). We will be pleased to work with you in getting the parallel code up and running on your system. |*| Parallel FASTLINK, References The main references for sequential FASTLINK are: 1. R. W. Cottingham Jr., R. M. Idury, and A. A. Schaffer, Faster Sequential Genetic Linkage Computations, American Journal of Human Genetics, 53(1993), pp. 252-263. 2. A. A. Schaffer, S. K. Gupta, K. Shriram, and R. W. Cottingham, Jr., Avoiding Recomputation in Genetic Linkage Analysis, Human Heredity, 44(1994), pp. 225-237. 5. G. M. Lathrop, J.-M. Lalouel, C. Julier, and J. Ott, Strategies for Multilocus Analysis in Humans, PNAS 81(1984), pp. 3443-3446. 6. G. M. Lathrop and J.-M. Lalouel, Easy Calculations of LOD Scores and Genetic Risks on Small Computers, American Journal of Human Genetics, 36(1984), pp. 460-465. 7. G. M. Lathrop, J.-M. Lalouel, and R. L. White, Construction of Human Genetic Linkage Maps: Likelihood Calculations for Multilocus Analysis, Genetic Epidemiology 3(1986), pp. 39-52. One reference for p4 is: 8. R. Butler and E. Lusk. Monitors, Messages and Clusters: The p4 Parallel Programming System, Parallel Computing 20(1994), pp. 547-564. One reference for TreadMarks is: 9. P. Keleher, A.L. Cox, S.Dwarkadas, and W. Zwaenepoel, TreadMarks: Distributed Shared Memory on Standard Workstations and Operating Systems, Proceedings of the Winter 94 Usenix Conference, pp. 115-131, January 1994. FASTLINK 2.3P represents the conjunction of 5 substantial research efforts and software engineering projects. Therefore, if you use FASTLINK in parallel, we ask that you cite: at least one of 5,6,7 to give credit to LINKAGE at least one of 1,2 to give credit to sequential FASTLINK at least one of 3,4 to give credit for the parallel algorithms and either 8 (p4) or 9 (TreadMarks) to give credit for the runtime library that you use. Sincerely, Chris Hyams and Alejandro Schaffer and Alan Cox and Sandhya Dwarkadas and Willy Zwaenepoel Rice University cgh@cs.rice.edu schaffer@cs.rice.edu alc@cs.rice.edu sandhya@cs.rice.edu willy@cs.rice.edu From owner-software@net.bio.net Thu Aug 03 23:00:00 1995 Path: biosci!ns1.faseb.org!darwin.sura.net!maze.dpo.uab.edu!uabdpo.dpo.uab.edu!BCH0035 From: BCH0035@uabdpo.dpo.uab.edu Newsgroups: bionet.software Subject: Gene promoter software Date: Fri, 04 Aug 95 15:05:15 CDT Organization: University of Alabama at Birmingham Lines: 7 Message-ID: <173F0D42BS86.BCH0035@uabdpo.dpo.uab.edu> NNTP-Posting-Host: uabdpo.dpo.uab.edu Hi,everyone: Does anybody knows that what software is available for finding gene- promoter mortiff and boundary ? I know the `software prosite` is for protein motiff, what is it for gene mortiff ? Thanks in advance Rongrong Wu From owner-software@net.bio.net Thu Aug 03 23:00:00 1995 Path: biosci!DOLPHIN.UPENN.EDU!stein From: stein@DOLPHIN.UPENN.EDU Newsgroups: bionet.software Subject: postdoc position-wanted Date: 3 Aug 1995 17:11:20 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 34 Sender: daemon@net.bio.net Distribution: world Message-ID: <199508040009.UAA26212@dolphin.upenn.edu> NNTP-Posting-Host: net.bio.net From stein Thu Aug 3 19:54:23 1995 >From stein@dolphin.upenn.edu Thu Aug 3 19:54:23 1995 Received: by dolphin.upenn.edu id TAA25423; Thu, 3 Aug 1995 19:54:23 -0400 Posted-Date: Thu, 3 Aug 1995 19:54:23 -0400 Received-Date: Thu, 3 Aug 1995 19:54:23 -0400 Subject: tr To: stein@dolphin.upenn.edu Date: Thu, 3 Aug 1995 19:54:23 -0400 (EDT) From: stein@alumni.upenn.edu X-Sender: "stein" X-Mailer: ELM [version 2.4 PL23-upenn2.9] MIME-Version: 1.0 Content-Type: text/plain; charset=US-ASCII Content-Transfer-Encoding: 7bit Content-Length: 430 Status: RO SUBJECT: Seeking for postdoctoral position in US FIELD: Molecular Biology & Genetics of Oncogenes or Antioncogenes SKILLS: Cloning, sequencing, mutagenesis, PCR (RT-PCR), Southern & Northern blotting, immunoprecipitation, CAT, tissue culture, tumor induction, PC, publications registered in CC, etc. WHEN: available immediately, further information upon request ADDRESS: stein@dolphin.upenn.edu From owner-software@net.bio.net Thu Aug 03 23:00:00 1995 Path: biosci!bcm!cs.utexas.edu!swrinde!howland.reston.ans.net!news.sprintlink.net!aurora.nscee.edu!whi2141.lv-whi.nevada.edu!user From: orange@nevada.edu (David Orange) Newsgroups: bionet.software Subject: Mol. Anal. of Variance? Date: Thu, 03 Aug 1995 09:31:58 -0700 Organization: UNLV Biological Sciences Lines: 21 Message-ID: NNTP-Posting-Host: whi2141.lv-whi.nevada.edu X-Newsreader: Value-Added NewsWatcher 2.0b24.0+ Howdy, I've heard that there is a program that does Molecular Analysis of Variance, sorta an ANOVA for molecular data. Useful in population/phylogeographic work. Anyone have the citation for the original article as well as the availability of the program (commercial, shareware, ftp?) and Platform (IBM/MAC)? TIA, David -- ->:) David Orange ******************** Newsreader and Mail feed on different systems. Send Email to: orange@nevada.edu ******************** From owner-software@net.bio.net Thu Aug 03 23:00:00 1995 Path: biosci!bcm!cs.utexas.edu!news.sprintlink.net!newsfeed.internetmci.com!news.compuserve.com!news.production.compuserve.com!news From: Aaron Apte <74637.3500@CompuServe.COM> Newsgroups: bionet.software Subject: Plasmid Drawing Date: 4 Aug 1995 16:11:19 GMT Organization: Premier Biosoft International Lines: 12 Message-ID: <3vtgr7$80u$1@mhafn.production.compuserve.com> Can anyone recommend any good plasmid drawing programs? I've been looking around and so far Vector NTI looks pretty good. Either commercial or shareware are OK. Thanks, Byron Brown -- Aaron Apte Sales and Marketing Premier Biosoft International E-mail 74637,3500@compuserve.com Phone (415) 856-2703 From owner-software@net.bio.net Fri Aug 04 23:00:00 1995 Path: biosci!SOHO.IOS.COM!Efrain From: Efrain@SOHO.IOS.COM (Efrain Gonzalez) Newsgroups: bionet.software Subject: Re: SigmaGel for MAC? Date: 4 Aug 1995 17:01:51 -0700 Organization: SUNY/Maimonides Medical Center Lines: 16 Sender: daemon@net.bio.net Distribution: world Message-ID: Reply-To: Efrain@soho.ios.com (Efrain Gonzalez) NNTP-Posting-Host: net.bio.net Does anyone know if a program that does the same thing as SigmaGel by Jandel exists for the Mac? The program allows the automatic calculation of Rf values, intensities, and migration distances for standards and experimentals using a scanner and a computer instead of an electrophoretic gel analysis system. If anyone knows of anything, please E-mail me. Thank you. -- -- Efrain Gonzalez Efrain@soho.ios.com From owner-software@net.bio.net Fri Aug 04 23:00:00 1995 Path: biosci!ihnp4.ucsd.edu!agate!sunsite.doc.ic.ac.uk!plug.news.pipex.net!pipex!dish.news.pipex.net!pipex!tank.news.pipex.net!pipex!oleane!jussieu.fr!univ-lyon1.fr!swidir.switch.ch!scsing.switch.ch!news.belwue.de!bias.ipc.uni-tuebingen.de!newsserv.zdv.uni-tuebingen.de!news From: "Harold V. Taylor" Newsgroups: bionet.software Subject: Re: SigmaGel for MAC? Date: 5 Aug 1995 22:25:23 GMT Organization: University of Tübingen, Germany Lines: 14 Message-ID: <400r4j$l4q@newsserv.zdv.uni-tuebingen.de> References: NNTP-Posting-Host: web.pci.chemie.uni-tuebingen.de Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 1.1N (Windows; I; 16bit) To: bionet.software@daresbury.ac.uk Hi, I'm looking for just that for a PC, although if possible shareware. Does Jandel have a homepage or an email address? -- Harold V. Taylor, Dipl. Biochem. Physiol. Chem. Institut University of Tuebingen, Germany e-mail: cbei01@commlink.zdv.uni-tuebinge.de From owner-software@net.bio.net Fri Aug 04 23:00:00 1995 Path: biosci!bloom-beacon.mit.edu!panix!zip.eecs.umich.edu!caen!uwm.edu!cs.utexas.edu!news.sprintlink.net!sunic!sunic.sunet.se!news.uni-c.dk!news.danadata.dk!usenet From: Lars Thomsen Newsgroups: bionet.software Subject: Science citation index Date: 5 Aug 1995 10:02:13 GMT Organization: Lars Thomsen at home Lines: 16 Message-ID: <3vvfj5$74a@news.danadata.dk> NNTP-Posting-Host: frbg12.danadata.dk Mime-Version: 1.0 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: 8bit X-Mailer: Mozilla 1.1N (Windows; I; 16bit) Does anyone know where to find a free online service, including the Science Citation Index. -- MSc Lars Thomsen The Royal Veterinary and Agricultural University Department of Anatomy and Physiology Bülowsvej 13, Copenhagen Denmark fax : +45 35 28 25 25 tlp : +45 35 28 25 13 Current research : The Enteric Nervous System in porcine jejunum From owner-software@net.bio.net Fri Aug 04 23:00:00 1995 Newsgroups: bionet.software Path: biosci!agate!sunsite.doc.ic.ac.uk!plug.news.pipex.net!pipex!dish.news.pipex.net!pipex!soap.news.pipex.net!pipex!tank.news.pipex.net!pipex!newsfeed.internetmci.com!solaris.cc.vt.edu!news.duke.edu!news-server.ncren.net!concert!hearst.acc.Virginia.EDU!murdoch!watt.seas.Virginia.EDU!mh2s From: mh2s@watt.seas.Virginia.EDU (Mun-Wai Hon) Subject: Anyone have a demo of Peak Fit? X-Nntp-Posting-Host: watt.seas.virginia.edu Message-ID: Sender: usenet@murdoch.acc.Virginia.EDU Organization: uva Date: Sat, 5 Aug 1995 17:40:24 GMT Lines: 19 Hello, We are considering purchasing Jandel's Peak Fit and would like to know if anyone has a copy of the demo version. We have looked at the Jandel homepage but did not see any way to download a demo version. Is there anyone who could send us a copy via FTP? Thanks. Mun-Wai Hon UVA electrophysiology lab -- From owner-software@net.bio.net Fri Aug 04 23:00:00 1995 Path: biosci!ihnp4.ucsd.edu!agate!sunsite.doc.ic.ac.uk!plug.news.pipex.net!pipex!dish.news.pipex.net!pipex!tank.news.pipex.net!pipex!oleane!jussieu.fr!univ-lyon1.fr!swidir.switch.ch!scsing.switch.ch!news.belwue.de!bias.ipc.uni-tuebingen.de!newsserv.zdv.uni-tuebingen.de!news From: "Harold V. Taylor" Newsgroups: bionet.software Subject: Re: SigmaGel for MAC? Date: 5 Aug 1995 22:19:41 GMT Organization: University of Tübingen, Germany Lines: 14 Message-ID: <400qpt$l4q@newsserv.zdv.uni-tuebingen.de> References: NNTP-Posting-Host: web.pci.chemie.uni-tuebingen.de Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 1.1N (Windows; I; 16bit) To: world Hi, I'm looking for just that for a PC, although if possible shareware. Does Jandel have a homepage or an email address? -- Harold V. Taylor, Dipl. Biochem. Physiol. Chem. Institut University of Tuebingen, Germany e-mail: cbei01@commlink.zdv.uni-tuebinge.de From owner-software@net.bio.net Fri Aug 04 23:00:00 1995 Path: biosci!bloom-beacon.mit.edu!newsfeed.internetmci.com!news.sprintlink.net!sunic!sunic.sunet.se!news.uni-c.dk!news.danadata.dk!usenet From: Lars Thomsen Newsgroups: bionet.software Subject: Programs I use and why ! Date: 5 Aug 1995 11:41:14 GMT Organization: Lars Thomsen at home Lines: 90 Message-ID: <3vvlcq$76n@news.danadata.dk> NNTP-Posting-Host: frbg7.danadata.dk Mime-Version: 1.0 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: 8bit X-Mailer: Mozilla 1.1N (Windows; I; 16bit) To: ALL I am working with electrophysiology and here is the list of my preferred software. It would be interesting to get a list from you including reasons for your choices. Topic : Dataaquisition Product : Spike2 ver 4.53 for DOS and ver. 1.56 for Windows Manuf : Cambridge Electronic Design (England) Comment : Their is many reasons to use it, but the major is that it is very easy to use and implement in your setup. Topic : Graphs containing many data (>20000 datapoint) Product : Stanford Graphics ver 3.0 (Windows) Comment : This programs has an huge number of rows and coulums. It has a very good import facility for several filetypes ASCII, EXCEL (up to ver. 4.0) etc and it always find a method to import the file even if you specified the wrong type. Has very good 3D plots and it is easy to save templates ("gallary files"). Complete control over all parts in the graph (very important)' Missing : A feature for making dimension lines like Designer ver. 4.1 TE. A really good curvefitter, which can be setup manually. Topic : Graphs containing few data Product : Sigmaplot for Windows ver 1.0 (I heard there is a version 2.0 know) Manuf : Jandel Scientific Comment : Really good curvefitter and very good control over different parts of the graph. Missing : No OLE facilities. When trying to copy/paste, the program will copy the whole page as a bitmap, and you will not get the option to paste as a picture in your other windows programs. Topic : Drawings Product : Designer ver . 4.1 TE Manuf : Micrograpx Comment : Very easy to use (much better than Corel Draw) You can add the tools you need to the side which is very useful Very good dimension tool. I use this to label my Stanford Graphics objects embedded in Designer. Really good line facilities for shaping lines when you draw Missing : Powerline feature as in Corel Draw ver. 5.0. This feature is excellent when you want to draw a neurone with dendrites and axon. Topic : Chemical solutions Product : Intend (DOS program) Comment : Perfect I would just like to have a Windows version. I use it to calculate the amounts of various chemical needed to make my different Krebs solutions. Delivered with information about a whole lot of compounds and solutions for molecular biology and physiology. Topic : Backup Product : PCTOOLS ver 9.0 (DOS) and ver. 2.0 (Windows) Manuf : Central Point Comment : I use this program together with my 250 MB tapebackup using DC2120 tapes. It is just working perfectly. Both the DOS and Windows program save history files that can be used by each other. This is very useful because I run my dataaquisition i DOS and therefore I do not always want to start Windows if I need to do a backup. Topic : Wordprocessor Product : Word ver 6.0 Manuf : Microsoft Comment : I use it and I like it. The only reason that I am not using WordPerfect is because of Word's good facility to make tables. Good second mouse button facilities. Missing : Word is really poor to handle figures. I have experienced that a picture can escape from its frame, this is stupid and bad programming. This would never happen in WordPerfect. The spelling and thesaurus facilities are really poor in both of the programs. -- MSc Lars Thomsen The Royal Veterinary and Agricultural University Department of Anatomy and Physiology Bülowsvej 13, Copenhagen Denmark fax : +45 35 28 25 25 tlp : +45 35 28 25 13 Current research : The Enteric Nervous System in porcine jejunum From owner-software@net.bio.net Fri Aug 04 23:00:00 1995 Path: biosci!bloom-beacon.mit.edu!news.moneng.mei.com!uwm.edu!cs.utexas.edu!news.sprintlink.net!sunic!sunic.sunet.se!news.uni-c.dk!news.danadata.dk!usenet From: Lars Thomsen Newsgroups: bionet.software Subject: The programs I use and why ! Date: 5 Aug 1995 11:42:21 GMT Organization: Lars Thomsen at home Lines: 91 Message-ID: <3vvlet$gmo@news.danadata.dk> NNTP-Posting-Host: frbg7.danadata.dk Mime-Version: 1.0 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: 8bit X-Mailer: Mozilla 1.1N (Windows; I; 16bit) I am working with electrophysiology and here is the list of my preferred software. It would be interesting to get a list from you including reasons for your choices. Topic : Dataaquisition Product : Spike2 ver 4.53 for DOS and ver. 1.56 for Windows Manuf : Cambridge Electronic Design (England) Comment : Their is many reasons to use it, but the major is that it is very easy to use and implement in your setup. Topic : Graphs containing many data (>20000 datapoint) Product : Stanford Graphics ver 3.0 (Windows) Comment : This programs has an huge number of rows and coulums. It has a very good import facility for several filetypes ASCII, EXCEL (up to ver. 4.0) etc and it always find a method to import the file even if you specified the wrong type. Has very good 3D plots and it is easy to save templates ("gallary files"). Complete control over all parts in the graph (very important)' Missing : A feature for making dimension lines like Designer ver. 4.1 TE. A really good curvefitter, which can be setup manually. Topic : Graphs containing few data Product : Sigmaplot for Windows ver 1.0 (I heard there is a version 2.0 know) Manuf : Jandel Scientific Comment : Really good curvefitter and very good control over different parts of the graph. Missing : No OLE facilities. When trying to copy/paste, the program will copy the whole page as a bitmap, and you will not get the option to paste as a picture in your other windows programs. Topic : Drawings Product : Designer ver . 4.1 TE Manuf : Micrograpx Comment : Very easy to use (much better than Corel Draw) You can add the tools you need to the side which is very useful Very good dimension tool. I use this to label my Stanford Graphics objects embedded in Designer. Really good line facilities for shaping lines when you draw Missing : Powerline feature as in Corel Draw ver. 5.0. This feature is excellent when you want to draw a neurone with dendrites and axon. Topic : Chemical solutions Product : Intend (DOS program) Comment : Perfect I would just like to have a Windows version. I use it to calculate the amounts of various chemical needed to make my different Krebs solutions. Delivered with information about a whole lot of compounds and solutions for molecular biology and physiology. Topic : Backup Product : PCTOOLS ver 9.0 (DOS) and ver. 2.0 (Windows) Manuf : Central Point Comment : I use this program together with my 250 MB tapebackup using DC2120 tapes. It is just working perfectly. Both the DOS and Windows program save history files that can be used by each other. This is very useful because I run my dataaquisition i DOS and therefore I do not always want to start Windows if I need to do a backup. Topic : Wordprocessor Product : Word ver 6.0 Manuf : Microsoft Comment : I use it and I like it. The only reason that I am not using WordPerfect is because of Word's good facility to make tables. Good second mouse button facilities. Missing : Word is really poor to handle figures. I have experienced that a picture can escape from its frame, this is stupid and bad programming. This would never happen in WordPerfect. The spelling and thesaurus facilities are really poor in both of the programs. -- MSc Lars Thomsen The Royal Veterinary and Agricultural University Department of Anatomy and Physiology Bülowsvej 13, Copenhagen Denmark fax : +45 35 28 25 25 tlp : +45 35 28 25 13 Current research : The Enteric Nervous System in porcine jejunum From owner-software@net.bio.net Fri Aug 04 23:00:00 1995 Path: biosci!bcm!cs.utexas.edu!usc!howland.reston.ans.net!news.cac.psu.edu!news.tc.cornell.edu!travelers.mail.cornell.edu!newsstand.cit.cornell.edu!usenet From: Silvana Grandillo Newsgroups: bionet.software Subject: Mapmaker for Windows ??? Date: Sun, 06 Aug 95 01:12:25 EST Organization: Cornell University Lines: 9 Sender: sg19@cornell.edu (Verified) Message-ID: <400tle$5a4@newsstand.cit.cornell.edu> Reply-To: sg19@cornell.edu NNTP-Posting-Host: volna33.vol.it Mime-Version: 1.0 X-Newsreader: WinVN 0.93.02 Does anybody know if, besides Mapmaker for MacIntosh and Mapmaker for Dos platforms there is also available somewhere a Mapmaker for Windows ? Thanks for any info, Silvana sg19@cornell.edu From owner-software@net.bio.net Sat Aug 05 23:00:00 1995 Path: biosci!bloom-beacon.mit.edu!news5.ner.bbnplanet.net!news3.near.net!saturn.caps.maine.edu!news.ycc.yale.edu!news From: "Tori D. Williams" Newsgroups: bionet.software Subject: Need Software Date: 6 Aug 1995 02:16:07 GMT Organization: Yale University Lines: 2 Message-ID: <4018l7$d3j@news.ycc.yale.edu> NNTP-Posting-Host: devlin.med.yale.edu I am looking for the latest version of DNAStrider. If anyone has heard of it and knows where to find it please e-mail me From owner-software@net.bio.net Sun Aug 06 23:00:00 1995 Path: biosci!agate!howland.reston.ans.net!torn!news.ccs.queensu.ca!news From: Jim Gore Newsgroups: bionet.software Subject: Re: SigmaPlot and other graphing packages Date: 7 Aug 1995 03:16:46 GMT Organization: Queen's University, Kingston Lines: 16 Message-ID: <4040iu$mhv@knot.queensu.ca> References: NNTP-Posting-Host: free2-slip230.tele.queensu.ca Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 1.1N (Windows; I; 16bit) To: Andy.Law@bbsrc.ac.uk Andy.Law@bbsrc.ac.uk (Andy Law (Big Nose)) wrote: >I will soon have to evaluate a number of graphing >and drawing packages on Macs and PCs (and possibly OSF1 and Sun Solaris). >What do you use and is it any good? We've used SigmaPlot for DOS and/or Windows for years. It's very good, but VERY user-UNfriendly. Being a lab tech, I've had to teach many grad students to use the package, a less than pleasant task. I recently downloaded a demo of GraphPad Prism by the GraphPad company and was extremely impressed. We've ordered the full version and plan on using it in place of all the programs we've used to date (SigmaPlot, Excel, QuattroPro). No, I'm not associated with the company in any capacity, I just think the program beats the hell out of anything else we've tried. It's simple to use, simple to learn, and very flexible. Just my two cents worth. Jim Gore From owner-software@net.bio.net Sun Aug 06 23:00:00 1995 Path: biosci!agate!howland.reston.ans.net!torn!news.ccs.queensu.ca!news From: Jim Gore Newsgroups: bionet.software Subject: Re: SigmaPlot and other graphing packages Date: 7 Aug 1995 03:17:25 GMT Organization: Queen's University, Kingston Lines: 16 Message-ID: <4040k5$mhv@knot.queensu.ca> References: NNTP-Posting-Host: free2-slip230.tele.queensu.ca Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 1.1N (Windows; I; 16bit) To: Andy.Law@bbsrc.ac.uk Andy.Law@bbsrc.ac.uk (Andy Law (Big Nose)) wrote: >I will soon have to evaluate a number of graphing >and drawing packages on Macs and PCs (and possibly OSF1 and Sun Solaris). >What do you use and is it any good? We've used SigmaPlot for DOS and/or Windows for years. It's very good, but VERY user-UNfriendly. Being a lab tech, I've had to teach many grad students to use the package, a less than pleasant task. I recently downloaded a demo of GraphPad Prism by the GraphPad company and was extremely impressed. We've ordered the full version and plan on using it in place of all the programs we've used to date (SigmaPlot, Excel, QuattroPro). No, I'm not associated with the company in any capacity, I just think the program beats the hell out of anything else we've tried. It's simple to use, simple to learn, and very flexible. Just my two cents worth. Jim Gore From owner-software@net.bio.net Sun Aug 06 23:00:00 1995 Path: biosci!bloom-beacon.mit.edu!newsfeed.internetmci.com!news.sprintlink.net!dispatch.news.demon.net!demon!uknet!ftel.co.uk!bham!usenet From: s.m.williams.bcm@bham.ac.uk (Steve) Newsgroups: bionet.software Subject: Re: Molecular Biology Software Date: Mon, 07 Aug 1995 09:35:19 GMT Organization: The University of Birmingham, UK. Lines: 52 Message-ID: <404nou$s7k@sun4.bham.ac.uk> References: NNTP-Posting-Host: bcs177.bham.ac.uk X-Newsreader: Forte Free Agent 1.0.82 tome@EMBL-EBI.ac.uk (Patricia Rodriguez-Tome) wrote: >In article , >schryver@acs.ucalgary.ca (Tony Schryvers) writes: >>Does anyone know where there is any shareware molecular biology >>applications (DNA sequence alignment, Protein alignment, Plasmid map >>drawing etc) for the PC - windows 3.11 environment? >> >You should have a look at the EBI software repository : >ftp://ftp.ebi.ac.uk/pub/software/dos >The README file lists the softs with a small description. >Regards, >Pat RT >-- >======================================================================= >Dr. Patricia Rodriguez-Tome | URL: http://www.ebi.ac.uk >The EMBL Outstation, Hinxton - The European Bioinformatics Institute >Hinxton Hall, Hinxton | Tel: +44 (0)1223 494 413 >Cambridge CB10 1RQ, UK | Fax: +44 (0)1223 494 468 >======================================================================== I've not long had a section on one of my Web pages with a few links to programmes you maybe interested in. The URL is:- http://sun1.bham.ac.uk/s.m.williams.bcm/images/viewers.html I would be grateful if you here of any others that I haven't got and let me know, so that I can put them on my page. Steve \\\\ \\\\(o o) 8(o o)(_)Ooo ###########################################ooO##(_)###Ooo######### # # # E-Mail: S.M.WILLIAMS.BCM@bham.ac.uk # # # # WWW: http://sun1.bham.ac.uk/s.m.williams.bcm/home_page.html # # WWW: http://iptunix.bcm.bham.ac.uk/sjwb/sjwb.html # # # # Phone: (44)0121-415-5435 # # Fax: (44)0121-414-7366 # # # ################################################################## From owner-software@net.bio.net Sun Aug 06 23:00:00 1995 Path: biosci!bloom-beacon.mit.edu!newsfeed.internetmci.com!news.sprintlink.net!EU.net!dkuug!Norway.EU.net!nac.no!nntp.uio.no!pcdnr83.uio.no!user From: ehovig@radium.uio.no (Eivind Hovig) Newsgroups: bionet.software Subject: Re: SigmaGel for MAC? Date: Mon, 07 Aug 1995 09:41:42 +0100 Organization: Inst for Cancer Research, Oslo Lines: 29 Message-ID: References: <400r4j$l4q@newsserv.zdv.uni-tuebingen.de> NNTP-Posting-Host: pcdnr83.uio.no In article <400r4j$l4q@newsserv.zdv.uni-tuebingen.de>, "Harold V. Taylor" wrote: > Hi, > > I'm looking for just that for a PC, although if possible shareware. Does > Jandel have a homepage or an email address? > > > -- > Harold V. Taylor, Dipl. Biochem. > Physiol. Chem. Institut > University of Tuebingen, Germany > > e-mail: cbei01@commlink.zdv.uni-tuebinge.de Using Netscapes Netsearch facility, I came up with the following: http://www.jandel.com/ Sincerely Eivind I have no affiliation with either company. -- Eivind Hovig PhD email= ehovig@radium.uio.no Dept. of Tumor Biology S=EHOVIG; OU=radium; O=uio; ADMD= ; PRMD=no Inst. for Cancer Res. Phone:-47-22935416 The Norwegian Radium Hosp. Fax: -47-22522421 0310 Oslo, Norway From owner-software@net.bio.net Sun Aug 06 23:00:00 1995 Path: biosci!bloom-beacon.mit.edu!usc!howland.reston.ans.net!torn!news.ccs.queensu.ca!news From: Jim Gore Newsgroups: bionet.software Subject: Re: SigmaPlot and other graphing packages Date: 7 Aug 1995 03:16:20 GMT Organization: Queen's University, Kingston Lines: 16 Message-ID: <4040i4$mhv@knot.queensu.ca> References: NNTP-Posting-Host: free2-slip230.tele.queensu.ca Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 1.1N (Windows; I; 16bit) To: Andy.Law@bbsrc.ac.uk Andy.Law@bbsrc.ac.uk (Andy Law (Big Nose)) wrote: >I will soon have to evaluate a number of graphing >and drawing packages on Macs and PCs (and possibly OSF1 and Sun Solaris). >What do you use and is it any good? We've used SigmaPlot for DOS and/or Windows for years. It's very good, but VERY user-UNfriendly. Being a lab tech, I've had to teach many grad students to use the package, a less than pleasant task. I recently downloaded a demo of GraphPad Prism by the GraphPad company and was extremely impressed. We've ordered the full version and plan on using it in place of all the programs we've used to date (SigmaPlot, Excel, QuattroPro). No, I'm not associated with the company in any capacity, I just think the program beats the hell out of anything else we've tried. It's simple to use, simple to learn, and very flexible. Just my two cents worth. Jim Gore From owner-software@net.bio.net Sun Aug 06 23:00:00 1995 Path: biosci!bcm!news.msfc.nasa.gov!elroy.jpl.nasa.gov!swrinde!emory!news.cc.emory.edu!pkrevat-sl From: pkrevat@emory.edu (Peter Krevat, M. D.) Newsgroups: bionet.software Subject: Plasmid Drawing Date: Mon, 07 Aug 95 20:25:40 GMT Organization: Emory University Lines: 12 Distribution: world Message-ID: <405sui$se8@moe.cc.emory.edu> NNTP-Posting-Host: pkrevat-sl.cc.emory.edu X-Newsreader: News Xpress Version 1.0 Beta #2 Byron, I just got a copy of WinPlas, a Windows based plasmid drawing program, and have been very pleased. For more information, they have a WWW site: http://www.phantom.com/~goldstei/winplas.html Hope this helps. Peter Krevat, M. D. From owner-software@net.bio.net Sun Aug 06 23:00:00 1995 Path: biosci!bcm!news.msfc.nasa.gov!newsfeed.internetmci.com!tank.news.pipex.net!pipex!dish.news.pipex.net!pipex!dircon!usenet From: medcalf@dircon.co.uk (Mark S. Medcalf) Newsgroups: bionet.software Subject: Dynatec MR650 Software? Date: Mon, 07 Aug 1995 21:28:54 GMT Organization: The Direct Connection (Call 0181 297 2200 for info) Lines: 13 Message-ID: <40657o$hjo@newsgate.dircon.co.uk> Reply-To: medcalf@dircon.co.uk NNTP-Posting-Host: medcalf.dircon.co.uk X-Newsreader: Forte Agent .99.82 I am looking for software to run the Dynatec MR650 multiplate reader via a PC. Does anyone know of such a program. I would be grateful for any advice - please E-mail to medcalf @dircon.co.uk Many thanks, Mark Medcalf. London. From owner-software@net.bio.net Mon Aug 07 23:00:00 1995 Path: biosci!bcm!news.msfc.nasa.gov!newsfeed.internetmci.com!bloom-beacon.mit.edu!news.moneng.mei.com!uwm.edu!lll-winken.llnl.gov!osi-east2.es.net!oracle.pnl.gov!mica.inel.gov!cwis.isu.edu!news.cc.utah.edu!news.cs.utah.edu!cc.usu.edu!philm From: philm@cc.usu.edu (Phil) Newsgroups: bionet.software Subject: Sale of Softare on WWW Message-ID: <1995Aug7.112107.58237@cc.usu.edu> Date: 7 Aug 95 11:21:07 MDT Organization: Utah State University Lines: 55 This survey is for companies that sell softwarre via a website. Thank you for your assistance! PhilM@cc.usu.edu Utah State University July 28, 1995 Dear Webmaster: The following survey is part of a study on selling software on the World Wide Web. The data from this study will allow you to make better business decisions on the upkeep of your web site. Please respond as completely and accurately as possible. A summary of the results will be sent to you if you if you complete the survey. Thank you for your time and effort. Sincerely yours, Phil McElfresh Graduate Student Business Information Systems All of the following questions should be answered about your web site. Answer with as current data as you have available. All information will be kept in strict confidence. Does your Web page sell commercial software? [ ] Yes [ ] No What types of transactions does your web page support? Type an X by all that apply. [ ] Credit Card [ ] Money Order/Check [ ] Electrical Payment [ ] What is the average number of software orders per week? [ ] What is the average value of gross software sales per week? [ ] On average, how many times is your web site accessed per week? [ ] Including any setup fees, what do your average weekly web access fees come to? From owner-software@net.bio.net Mon Aug 07 23:00:00 1995 Path: biosci!bcm!pendragon!news.msfc.nasa.gov!newsfeed.internetmci.com!news.sprintlink.net!uunet!in1.uu.net!demos!dnews-server From: mashko@vnigen.msk.su (Lab 13) Newsgroups: bionet.software,bionet.molbio.proteins Subject: Needs: a program for isoelectric point calculation Date: 8 Aug 1995 19:28:49 +0400 Organization: Union Institute for Genetics Lines: 12 Sender: news-server@news.demos.su Distribution: world Message-ID: Reply-To: mashko@vnigen.msk.su NNTP-Posting-Host: news.demos.su X-Return-Path: news.demos.su!kremvax.demos.su!kiae!vnigen!mashko Xref: biosci bionet.software:12948 bionet.molbio.proteins:5262 Dear Colleagues, Does anybody know a software to calculate the isoelectric point for a protein? Could you please write to my address: MASHKO@VNIGEN.MSK.SU Thank you in advance. Sincerely, Katya Rogozhkina From owner-software@net.bio.net Mon Aug 07 23:00:00 1995 Path: biosci!bcm!pendragon!news.msfc.nasa.gov!newsfeed.internetmci.com!gatech!concert!bigblue.oit.unc.edu!mmlds1.pha.unc.edu!iiv From: Iosif Vaisman Newsgroups: bionet.molbio.proteins,bionet.molec-model,bionet.software,bionet.software.gcg Subject: Computational Molecular Biology Workshop Date: Tue, 8 Aug 1995 13:17:47 -0400 Organization: The University of North Carolina at Chapel Hill Lines: 52 Message-ID: NNTP-Posting-Host: mmlds1.pha.unc.edu Mime-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII Xref: biosci bionet.molbio.proteins:5265 bionet.molec-model:531 bionet.software:12949 bionet.software.gcg:1340 CAROLINA WORKSHOPS Computational Molecular Biology October 22 -- October 27, 1995 University of North Carolina at Chapel Hill This course is designed for scientists with limited prior experience in computational molecular biology. The topics to be covered include: biomolecular informatics and computer networks, protein and nucleic acid databases, protein and nucleic acid sequence analysis and alignment, 3D protein structure analysis and prediction, molecular modeling and dynamic simulations of proteins and nucleic acids, and structure-based drug design. The workshop will consist of the in-depth theoretical lectures and intensive hands-on laboratory sessions. The course will be taught at the training facility of the North Carolina Supercomputing Center, Research Triangle Park, North Carolina. CAROLINA WORKSHOPS are intensive hands-on courses designed to teach cutting edge methods in molecular biology and biotechnology. Four or five courses on different topics in molecular biology and/or biotechnology are offered each year. The courses are designed for novice students as well as for individuals with prior experience. All students benefit from in-depth interaction with instructors. To apply, send a curriculum vitae and a brief letter describing your research interests and their relevance to the Workshop. Applicants should contact the program office as soon as possible. Please indicate your complete mailing address and telephone/fax number. Application Deadline-September 7, 1995. Tuition - $ 1,200.00. Participation is limited to 15 people, please apply early. COURSE DIRECTOR: Alexander Tropsha, University of North Carolina at Chapel Hill INSTRUCTORS: Frank K. Brown (Glaxo-Wellcome) Wayne Litaker (UNC-Chapel Hill) Michael Mitchell (Becton-Dickinson) David C. Richardson (Duke University) Alexander Tropsha (UNC-Chapel Hill) Iosif Vaisman (UNC-Chapel Hill) For further information or to apply, contact: Dr. Wayne Litaker, Facility Director University of North Carolina at Chapel Hill Program in Molecular Biology & Biotechnology 402 Taylor Hall, CB 7100 Chapel Hill, North Carolina 27599-7100 TELEPHONE (919) 966-1730, FAX (919) 966-6821 Email Address: litaker@med.unc.edu From owner-software@net.bio.net Mon Aug 07 23:00:00 1995 Path: biosci!bcm!pendragon!news.msfc.nasa.gov!newsfeed.internetmci.com!nntp-hub2.barrnet.net!news3.near.net!yale!yale.edu!news.ycc.yale.edu!morpheus!maxwell From: maxwell@morpheus.cis.yale.edu (Maxwell Heiman (BR 1997)) Newsgroups: bionet.software Subject: WebCutter: On-line Restriction Analysis Date: 8 Aug 1995 18:27:46 GMT Organization: Yale University Lines: 30 Message-ID: <408ab2$ml6@news.ycc.yale.edu> NNTP-Posting-Host: morpheus.cis.yale.edu I'd like to invite everyone to try WebCutter, a WWW-based program to restriction-map DNA sequences, at: http://firstmarket.com/firstmarket/cutter I think you will find it a useful tool for generating restriction maps. Because it is a part of the WWW its enzyme database is kept automatically up-to-date, it can be accessed from any internetted terminal, and it puts at your disposal the extensive sequence libraries available on the web. Webcutter can performs full analyses, single out those enzymes with unique sites, or list those that cut any specific number of times. The database can be limited to any set of enzymes you choose, or to those with sites of a given length, or it can be set to include all commercially available enzymes. The analysis can be returned as a sequence print-out with sites marked, as a table of sites sorted alphabetically by enzyme, or as a table ordered sequentially by position of site. I think you will find WebCutter a versatile and convenient tool. Please use it with caution, though: It has only been tested in moderation, and may still be a little buggy. However, email to me any bugs you discover, and they will be IMMEDIATELY repaired (and I'll give you credit for your help, too!) Let me know what you think. Enjoy! MH From owner-software@net.bio.net Tue Aug 08 23:00:00 1995 Path: biosci!bcm!pendragon!news.msfc.nasa.gov!newsfeed.internetmci.com!tank.news.pipex.net!pipex!oleane!jussieu.fr!univ-lyon1.fr!swidir.switch.ch!scsing.switch.ch!news.belwue.de!news.dfn.de!gina.zfn.uni-bremen.de!ecotox.biologie.uni-bremen.de!backhaus From: backhaus@zfn.uni-bremen.de (Thomas Backhaus) Newsgroups: bionet.software Subject: Software for calculating molvolumes Date: Wed, 9 Aug 1995 00:42:36 Organization: University of Bremen Lines: 6 Message-ID: NNTP-Posting-Host: ecotox.biologie.uni-bremen.de X-Newsreader: Trumpet for Windows [Version 1.0 Rev A] As the subject says, I'm looking for software to calculate the molvolumes of certain chemicals (surfactants). Are there any freeware, public domain or shareware programs out there? Any commercial programs? Bye Thomas From owner-software@net.bio.net Tue Aug 08 23:00:00 1995 Path: biosci!daresbury!hgmp.mrc.ac.uk!hgmp.mrc.ac.uk!pcunning From: pcunning@hgmp.mrc.ac.uk (Mr. P. Cunningham) Newsgroups: bionet.software Subject: DNA shape (twist) Date: 9 Aug 1995 14:09:50 GMT Organization: UK HGMP Resource Centre Lines: 13 Distribution: world Message-ID: <40afje$6h2@mercury.hgmp.mrc.ac.uk> NNTP-Posting-Host: iron.hgmp.mrc.ac.uk Keywords: DNA conformation Does anyone know of any free s/w for predicting dna conformation from linear sequence? Unix VMS PC or MAC useful thanks Phil Cunningam Bioinformatics Officer King's College London From owner-software@net.bio.net Tue Aug 08 23:00:00 1995 Path: biosci!BACATA.USC.UNAL.EDU.CO!agarcia From: agarcia@BACATA.USC.UNAL.EDU.CO (Alexander Garcia) Newsgroups: bionet.software Subject: (none) Date: 9 Aug 1995 11:43:50 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 21 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net Does anyone knows anything about a program that calculates genetic frecuences from phenotipes? I am working with unrelated individuals. I would apreciate any colaboration. Thanks. -# Alexander Garcia Castro Universidad Nacional de Colombia # - -# E-Mail:agarcia@bacata.usc.unal.edu.co Facultad de Ciencias # - -# Fax :(57) (1) (2359274) Dept. Farcmacia # - -# Voice :(57) (1) (6729301) # - -# Bogota, Colombia, South America # - From owner-software@net.bio.net Tue Aug 08 23:00:00 1995 Path: biosci!bcm!news.msfc.nasa.gov!newsfeed.internetmci.com!news.sprintlink.net!howland.reston.ans.net!agate!darkstar.UCSC.EDU!news.scruz.net!usenet From: Nadine Nemec & Peter Wilde Newsgroups: bionet.software Subject: Re: where to get Date: 9 Aug 1995 16:24:40 GMT Organization: scruz-net Lines: 10 Message-ID: <40ang8$g0m@news.scruz.net> References: NNTP-Posting-Host: 165.227.93.127 Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 1.1 (Windows; U; 16bit) For Pegasus mail, try ftp'ing: coast.ucsd.edu in /pub/software (or so) _____________________________________________________________________________ Nadine Nemec's Peter Wilde nadpete@cruzio.com FAX: 408-423-1241 Stone & Clay Bass & Nonsense "The dog barks, but the caravan moves on." _____________________________________________________________________________ From owner-software@net.bio.net Tue Aug 08 23:00:00 1995 Newsgroups: bionet.software Path: biosci!daresbury!nntp-trd.UNINETT.no!Norway.EU.net!EU.net!uknet!bcc.ac.uk!news From: t.klonisch@ucl.ac.uk (Thomas Klonisch) Subject: Origin 3.5 plotting package and Win '95 Sender: news@ucl.ac.uk (Usenet News System) Message-ID: <1995Aug9.094127.7041@ucl.ac.uk> Date: Wed, 9 Aug 1995 09:41:27 GMT Mime-Version: 1.0 Organization: Univ. Coll. London Med. Sch. X-Newsreader: WinVN 0.99.4 Lines: 15 Does anybody out there use MicroCal Origin 3.5 plotting package, it is quite a versatile package. It worked fine under windows 3.11 but under Win '95 it will only print blank pages. Both MicroCal and Microsoft cannot track down the problem. Is it anything to do with incompatable printer drivers? Anybody got any suggestions ? Nadeem Sheikh e-mail : N.Sheikh@UCL.ac.uk UCL Med Sch. Dept Imm. From owner-software@net.bio.net Tue Aug 08 23:00:00 1995 Path: biosci!bcm!news.msfc.nasa.gov!elroy.jpl.nasa.gov!swrinde!howland.reston.ans.net!torn!news.bc.net!mala.bc.ca!howesan From: howesan@mala.bc.ca Newsgroups: bionet.software Subject: sequencing program recommendation Message-ID: <1995Aug9.162627.9546@malins.mala.bc.ca> Date: 9 Aug 95 16:26:27 -0700 Organization: Malaspina University-College Lines: 7 I am looking for a sequencing program. The program is going to be used to develop obligonucleotide primers for PCR. The program will need to predict annealing/ denaturing temperatures for specific sequences. Any experience and programs you can recommendwould be greatly appreciated. Thank -you. reply to Howesan@mala.bc.ca. From owner-software@net.bio.net Tue Aug 08 23:00:00 1995 Path: biosci!galaxy.ucr.edu!ihnp4.ucsd.edu!news1.ucsd.edu!usenet From: rcaspi@sdcc3.ucsd.edu (Ron Caspi) Newsgroups: bionet.software Subject: designing oligonucleotides Date: Wed, 09 Aug 1995 20:03:19 GMT Organization: The Avant-Garde of the Now, Ltd. Lines: 24 Message-ID: <40b3sr$1ip@news1.ucsd.edu> NNTP-Posting-Host: choop.ucsd.edu X-Newsreader: Forte Free Agent 1.0.82 Hi everybody This is a dumb question, but I might as well ask it: I need to design oligonucleotides, that will be used mainly as primers for cycle sequencing. I have a program that can analyze the oligos (vectorNTI), and provide thermodynamic data about the stability of possible dimers and hairpin loops. My problem is - what are acceptable numbers: for example, if the program anticipates a dimer with dG of 0.4Kcal/mol, is this acceptabe for my purpose, or not? And what if I use these oligos for radioactive probing, what are the limits in that case? Thank you for any input on this issue] Ron ] ______________________________________________________ Ron Caspi Scripps Institution of Oceanography Phone (619) 534-0638 La Jolla CA 92093-0202 Fax (619) 534-7313 From owner-software@net.bio.net Wed Aug 09 23:00:00 1995 Path: biosci!bcm!pendragon.jsc.nasa.gov!news.msfc.nasa.gov!newsfeed.internetmci.com!news.sprintlink.net!dispatch.news.demon.net!demon!uknet!daresbury!s-crim1!yk From: yk@s-crim1.dl.ac.uk Newsgroups: bionet.software Subject: A tool to search tmbase Date: 10 Aug 1995 15:18:34 GMT Organization: SERC Daresbury Lab, Warrington, U.K. Lines: 11 Sender: yk@s-crim1 (Y. Khan) Distribution: world Message-ID: <40d80a$a70@mserv1.dl.ac.uk> NNTP-Posting-Host: s-crim1.dl.ac.uk Keywords: tmbase Hi Everyone I would be very grateful if someone could tell me of a program which searches tmbase (the database of transmembrane domains). Please could you tell me whether the program is readily available and how one can get it? Thanks for any help Yasmin From owner-software@net.bio.net Wed Aug 09 23:00:00 1995 Newsgroups: bionet.software Path: biosci!agate!spool.mu.edu!usenet.eel.ufl.edu!newsfeed.internetmci.com!news.sprintlink.net!malgudi.oar.net!news.ysu.edu!neoucom.edu!usenet From: Tim Teyler Subject: Animated Biomedical Software DEMO on the Web Content-Type: text/plain Message-ID: Sender: usenet@riker.neoucom.edu Content-Transfer-Encoding: 7bit Organization: NE Ohio College of Medicine Mime-Version: 1.0 Date: Thu, 10 Aug 1995 16:45:49 GMT X-Mailer: Mozilla 1.1N (Windows; I; 16bit) Lines: 20 Animated DEMOs on the WEB............. GRAPHIC BRAIN-neurophysiology * * * ANIMATED PHYSIOLOGY We have created ANIMATED SOFTWARE for teaching NEUROSCIENCE and ORGAN PHYSIOLOGY. The courseware is designed to supplement college and medical school neuroscience and physiology courses. You can see DEMOs of this software at: http://www.neoucom.edu/DEPTS/NEUR/animation/animation.html The software runs on DOS and Mac computers and is available for purchase now. If you would like to learn more about these teaching animations but don't have a Web browser, please reply to: tjt@neoucom.edu Tim Teyler From owner-software@net.bio.net Wed Aug 09 23:00:00 1995 Path: biosci!rutgers!igor.rutgers.edu!newsserver.jvnc.net!princeton!cnn.Princeton.EDU!usenet From: "Lee M. Silver" Newsgroups: bionet.software Subject: Re: New Journal Editor seeking application to help manage .... Date: 8 Aug 1995 17:14:44 GMT Organization: Princeton University Lines: 27 Message-ID: <408624$6ot@cnn.Princeton.EDU> References: <3vqjk2$66k@columba.udac.uu.se> NNTP-Posting-Host: molecular17.princeton.edu Vera.Noest@vaxtbio.uu.se (Vera Noest) wrote: > > In article , GRANDCHA@cmu.unige.ch > says... > >My boss has recently become the new editor of a journal. > >To manage the lot I could make an application in a DBMS, but we are pressed > >for time. > > > >Is there anyone who knows of a ready-made application that will help us > keep > >track of addresses, manuscripts, reviewers, editors, labels and the > innumerous > >dates for recalls and reminders ? > I may have what you want. I am the editor of a journal called Mammalian Genome, and I have developed a database that does all of things that you need using the relational database program 4D First, which can be purchased for $99. The relational database structure is much better than FoxPro or other like it because you maintain separate files for manuscripts, reviewers, reviews, etc. If you are interested, I can provide you with my application at no cost, but you'll have to have a copy of 4D FIrst or Fourth Dimension. Lee Silver Department of Molecular Biology PRinceton University PRinceton, NJ 08544-1014 FAX: 609-258-3345 From owner-software@net.bio.net Wed Aug 09 23:00:00 1995 Path: biosci!NCBI.NLM.NIH.GOV!recipon From: recipon@NCBI.NLM.NIH.GOV (Herve Recipon) Newsgroups: bionet.software Subject: Re: source code for 'xnu' filter Date: 10 Aug 1995 13:01:57 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 33 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net On 10 Aug 1995, Bob DuBose wrote: > I'm looking for the source code (if available) for the "xnu" BLAST > filter. I've looked around on several of the likely places (ncbi, > EMBL, IUBio), but unless I'm really overlooking something haven't found > it. > > If the source is available, I'd appreciate a pointer to an ftp site or > e-mail address. Bob, The source code for the seg and xnu programs are available for public use in the NCBI ftp site (anonymous ftp to ncbi.nlm.nih.gov) in the pub/seg and pub/jmc/xnu directories. Sincerely, -- Herve RECIPON, PhD. __ __ __ / \/ \/ \/1001001001 NCBI - NLM - NIH \__/\__/\__/\ recipon@ncbi.nlm.nih.gov 1 / (301) 496-2475 ext 273 ======================================================================== For more details and advice on using BLAST programs send an e-mail to blast@ncbi.nlm.nih.gov with "help" (without the quotes) in the body of the message to obtain the help file or read the BLAST Notebook, using a WWW browser program to : http://www.ncbi.nlm.nih.gov/Recipon/index.html ======================================================================== From owner-software@net.bio.net Wed Aug 09 23:00:00 1995 Path: biosci!bcm!pendragon.jsc.nasa.gov!news.msfc.nasa.gov!newsfeed.internetmci.com!news.sprintlink.net!in1.uu.net!nwfocus1.wa.com!news1.halcyon.com!usenet From: duboser@immunex.com (Bob DuBose) Newsgroups: bionet.software Subject: source code for 'xnu' filter Date: 10 Aug 1995 19:04:11 GMT Organization: Immunex Corporation Lines: 19 Sender: dubose@198.178.220.224 Message-ID: <40dl7b$rch@news1.halcyon.com> NNTP-Posting-Host: 198.178.217.1 X-Posted-From: InterNews 1.0.7@198.178.220.221 X-Authenticated: dubose on POP host 198.178.220.224 Hello, I'm looking for the source code (if available) for the "xnu" BLAST filter. I've looked around on several of the likely places (ncbi, EMBL, IUBio), but unless I'm really overlooking something haven't found it. If the source is available, I'd appreciate a pointer to an ftp site or e-mail address. Thanks, Bob DuBose ----------------------------------------------------------- Robert F. DuBose, Ph.D. Associate Staff Scientist duboser@immunex.com Immunex Research & Development 51 University St. TEL: (206) 587-0430 Seattle, WA 98101 FAX: (206) 233-9733 ----------------------------------------------------------- From owner-software@net.bio.net Wed Aug 09 23:00:00 1995 Path: biosci!daresbury!nntp-trd.UNINETT.no!Norway.EU.net!EU.net!newsfeed.internetmci.com!news.compuserve.com!news.production.compuserve.com!news From: Tommy Humfrey <100666.113@CompuServe.COM> Newsgroups: bionet.software Subject: Digital Imaging Date: 10 Aug 1995 07:52:12 GMT Organization: Education Interactive Imaging Lines: 13 Message-ID: <40cdrc$sn2$1@mhade.production.compuserve.com> Hello, If you need any assistance with Photomicroscopy or Electron microscopy in relation to the production of high resolution digital images drop me a line at: 100666.113@compuserve.com always happy to assist. Tommy Humfrey [Education Interactive Imaging] Producers of Photomicrograph PhotoCDs. From owner-software@net.bio.net Thu Aug 10 23:00:00 1995 Path: biosci!rutgers!uwm.edu!cs.utexas.edu!news.sprintlink.net!in2.uu.net!cis.ohio-state.edu!magnus.acs.ohio-state.edu!slip2-3.acs.ohio-state.edu!ealcanta From: ealcanta@postbox.acs.ohio-state.edu (edwin alcantara) Newsgroups: bionet.software Subject: shareware for binding kinetics Date: Fri, 11 Aug 1995 02:55:01 GMT Organization: The Ohio State University Lines: 3 Message-ID: NNTP-Posting-Host: slip2-3.acs.ohio-state.edu X-Newsreader: Trumpet for Windows [Version 1.0 Rev B final beta #1] Can somebody suggest a site were I can download a shareware or freeware program to calculate dissociation constant (Kd) and Bmax from a binding experiment. Thanks. From owner-software@net.bio.net Thu Aug 10 23:00:00 1995 Path: biosci!daresbury!nntp-trd.UNINETT.no!Norway.EU.net!EU.net!gatech!newsfeed.internetmci.com!news.sprintlink.net!in2.uu.net!news.moneng.mei.com!news.ecn.bgu.edu!newspump.wustl.edu!newsreader.wustl.edu!ibc!zuker From: zuker@ibc.wustl.edu (Michael Zuker) Newsgroups: bionet.software Subject: RNA folding software, free energies and enthalpies Date: 11 Aug 1995 19:35:30 GMT Organization: Washington University in St. Louis, MO USA Lines: 40 Message-ID: <40gbe2$ch5@newsreader.wustl.edu> NNTP-Posting-Host: zuker%@ibc.wustl.edu X-Newsreader: TIN [version 1.2 PL2] My RNA folding software that computes optimal and suboptimal RNA secondary structures based on energy minimization is available on the net (version 2.2). 1. Anonymous ftp: snark.wustl.edu (pub directory) README file describes contents of pub directory. 2. Both the folding software and directions for using it can be obtained on the WWW (World Wide Web) at http://ibc.wustl.edu/~zuker. I recommend using 'Netscape 1.1' or higher. Click on 'Software: Personal FTP Archives' for access to software and ------------------------------- on 'An mfold manual. RNA folding by energy minimization.' for an ---------------------------------------------------- updated HTML version of: | M. Zuker | Prediction of RNA Secondary Structure by Energy Minimization. | In Computer Analysis of Sequence Data A.M. Griffin and Griffin eds. | Methods in Molecular Biology, Humana Press Inc., 267-294 (1994) The original article is available as PostScript files in the mfold/doc directory after software installation. 3. Free energy tables at 37 degrees are in the mfold/doc directory (.dat files) as are the enthalpies (.dh files). The 'newtemp' program will create free energy tables for folding at any temperature, assuming constant enthalpies. ~ ~ Michael Zuker @,@ / zuker@snark.wustl.edu ( ) / Tel: (314) 362-2932 -"-"-/ Fax: (314) 362-0234 / http://ibc.wustl.edu/~zuker Institute for Biomedical Computing Washington University, Campus Box 8036 700 S. Euclid Avenue St. Louis, MO 63110 From owner-software@net.bio.net Thu Aug 10 23:00:00 1995 Path: biosci!daresbury!nntp-trd.UNINETT.no!Norway.EU.net!EU.net!news.sprintlink.net!in1.uu.net!spool.mu.edu!torn!news.bc.net!info.ucla.edu!nnrp.info.ucla.edu!usenet From: walter Newsgroups: bionet.software Subject: Re: designing oligonucleotides Date: 10 Aug 1995 21:30:20 GMT Organization: UCLA Dept.of Medicine Lines: 11 Message-ID: <40dtpc$u1i@saba.info.ucla.edu> References: <40b3sr$1ip@news1.ucsd.edu> NNTP-Posting-Host: 149.142.212.93 Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 1.1N (Macintosh; I; 68K) X-URL: news:40b3sr$1ip@news1.ucsd.edu I use Oligo to design both PCR primers and sequencing primers. Alot of times, due to incorporarion of restriction sites, duplex formation of my primers have had dGs of -12 kcal/mol with no ill effects. as long as the melting temp of the duplex (Oligo calculates these for me, your program may/may not) is sufficiently lower than the ann temp of your rxn, you should not have any problems. Walter Lech UCLA Dept. of Medicine From owner-software@net.bio.net Fri Aug 11 23:00:00 1995 Path: biosci!galaxy.ucr.edu!ihnp4.ucsd.edu!agate!howland.reston.ans.net!news.sprintlink.net!nntp.bnl.gov!ping From: ping@bnlux1.bnl.gov (Shiping Zhang) Newsgroups: bionet.software Subject: a www site to run DNA/protein sequence analysis programs Date: 12 Aug 1995 17:53:45 GMT Organization: Brookhaven National Laboratory Lines: 12 Message-ID: <40ipr9$4lh@sun20.ccd.bnl.gov> Reply-To: ping@genome1.bio.bnl.gov NNTP-Posting-Host: bnlux1.bnl.gov Those who want to do some simple DNA/protein sequence analysis but don't have a program at hand can take a look at the www site http://genome1.bio.bnl.gov/bbq.html At the moment, there are several dozens of programs available doing DNA/protein sequence analysis, such as pI calculation, restriction enzyme analysis, oligo Tm/dG calculation, sequence comparison, GenBank data retrieval, etc. -ping From owner-software@net.bio.net Fri Aug 11 23:00:00 1995 Path: biosci!daresbury!nntp-trd.UNINETT.no!Norway.EU.net!EU.net!howland.reston.ans.net!ix.netcom.com!netnews From: caper@ix.netcom.com (Ors Deak) Newsgroups: bionet.software Subject: Conversion program Date: 12 Aug 1995 00:45:04 GMT Organization: Netcom Lines: 6 Message-ID: <40gtig$kie@ixnews5.ix.netcom.com> NNTP-Posting-Host: ix-wp2-12.ix.netcom.com I need a program to convert graphycs created on a mac to run on a pc. I just want to be able to see the picture displayed on a pc. Any help is appreciated. I can be reached at Caper@ix.netcom.com as well. Regards, OD From owner-software@net.bio.net Fri Aug 11 23:00:00 1995 Path: biosci!agate!howland.reston.ans.net!newsfeed.internetmci.com!news.compuserve.com!news.production.compuserve.com!news From: Michael Strohdeicher <100577.3663@CompuServe.COM> Newsgroups: bionet.software Subject: Help:Microcalc Origin Date: 12 Aug 1995 12:50:16 GMT Organization: CompuServe, Inc. (1-800-689-0736) Lines: 7 Message-ID: <40i828$1o8$1@mhade.production.compuserve.com> Does anyone know the software package "Origin" from Microcalc and perhaps the German distributor? -- Michael Strohdeicher Goeppingen/Germany e-mail: 100577.3663@compuserve.com From owner-software@net.bio.net Fri Aug 11 23:00:00 1995 Path: biosci!agate!howland.reston.ans.net!newsfeed.internetmci.com!news.compuserve.com!news.production.compuserve.com!news From: Michael Strohdeicher <100577.3663@CompuServe.COM> Newsgroups: bionet.software Subject: Help: Microcalc Origin Date: 12 Aug 1995 12:53:46 GMT Organization: CompuServe, Inc. (1-800-689-0736) Lines: 9 Message-ID: <40i88q$1o8$2@mhade.production.compuserve.com> Is there anyone who knows the software-package "Origin" from Microcalc and perhaps the German distributor? Thanks for your help Michael -- Michael Strohdeicher Goeppingen/Germany e-mail: 100577.3663@compuserve.com From owner-software@net.bio.net Sat Aug 12 23:00:00 1995 Path: biosci!bloom-beacon.mit.edu!spool.mu.edu!agate!hpg30a.csc.cuhk.hk!linuxguy.pku.edu.cn!pchindig!ldw From: ldw@pchindig (Lin Dawei) Newsgroups: bionet.software Subject: SCOP mirror site in China Date: 13 Aug 1995 15:58:43 GMT Organization: Peking University,China Lines: 37 Message-ID: <40l7fj$2i7@linuxguy.pku.edu.cn> NNTP-Posting-Host: pchindigo2.ipc.pku.edu.cn X-Newsreader: TIN [version 1.2 PL1] Dear Netters, Now the SCOP database has aother mirror site in China. This work is done by Ph.D Student Dawei LIN at Institute of Physical Chemistry, Peking University, P.R.China. The SCOP database is a structural classification database of proteins. A more detail introduction is availble at URL http://scop.mrc-lmb.cam.ac.uk/scop/intro.html The China mirror site URL is http://www.ipc.pku.edu.cn/scop/ The home page of Institute of Physical Chemistry(IPC), Peking Unviversity is at URL http://www.ipc.pku.edu.cn The home server's URL is http://scop.mrc-lmb.cam.ac.uk/scop/ Mang thanks to Steven E. Brenner at MRC Laboratory of Molecular Biology and Centre for Protein Engineering,Hills Road, Cambridge, CB2 2QH, England. He gave many help for setting up the mirror site. Welcome to access our Web server! Best regards for all, -------------------------------------------------------------------- ''*'''*'''*'''*'''*'''*'''*'''*'''*'''*'''*'''*'''*'''*'''*'''*'''*' '***'***'***'***'***'***'***'***'***'***'***'***'***'***'***'***'*** ''|'''|'''|'''|'''|'''|'''|'''|'''|'''|'''|'''|'''|'''|'''|'''|'''|' -------------------------------------------------------------------- Dawei LIN Ph.D student of Institute of Physical Chemistry Chemistry Department Peking University ldw@pschnetware.pku.edu.cn Beijing 100871 Telephone 86-10-2501490 P.R.China Fax 86-10-2501725 -------------------------------------------------------------------- ~ From owner-software@net.bio.net Sat Aug 12 23:00:00 1995 Path: biosci!bloom-beacon.mit.edu!newsfeed.internetmci.com!news.sprintlink.net!in1.uu.net!news.ios.com!babbage.ece.uc.edu!root From: "Jeffrey L. Nauss" Newsgroups: bionet.software Subject: Re: DNA shape (twist) Date: 11 Aug 1995 13:09:47 GMT Organization: Dept. Chemistry, Univer. Cincinnati Lines: 27 Message-ID: <40fkqr$sqd@babbage.ece.uc.edu> References: <40afje$6h2@mercury.hgmp.mrc.ac.uk> NNTP-Posting-Host: ucmodl.che.uc.edu Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 1.1N (X11; I; IRIX 5.3 IP22) X-URL: news:40afje$6h2@mercury.hgmp.mrc.ac.uk pcunning@hgmp.mrc.ac.uk (Mr. P. Cunningham) wrote: >Does anyone know of any free s/w for predicting dna conformation >from linear sequence? > >Unix VMS PC or MAC useful If you are considering supercoiling, you may want to contact Prof. Wilma Olson at Rutger University (olson@chemf.rutgers.edu) or her collaborator Dr. AR Srinivasan (SRINI@chemf.rutgers.edu). Their program was published in Journal of Molecular Graphics vol 6, no.3, pp 126-134 (1988). -- Jeff Nauss **************************************************************************** * UU UU Jeffrey L. Nauss, PhD * * UU UU Director, Molecular Modeling Services * * UU UU Department of Chemistry * * UU UU CCCCCCC University of Cincinnati * * UU UU CCCCCCCC Cincinnati, OH 45221-0172 * * UUUU CC * * CC Telephone: 513-556-0148 Fax: 513-556-9239 * * CC * * CCCCCCCC e-mail: nauss@ucmod2.che.uc.edu * * CCCCCCC http://www.che.uc.edu/~nauss * **************************************************************************** From owner-software@net.bio.net Sun Aug 13 23:00:00 1995 Path: biosci!bloom-beacon.mit.edu!newsfeed.internetmci.com!tank.news.pipex.net!pipex!dispatch.news.demon.net!demon!farl.demon.co.uk From: richard@farl.demon.co.uk (richard) Newsgroups: bionet.software Subject: Environmental effects evaluation software Date: Mon, 14 Aug 1995 10:21:58 GMT Lines: 35 Message-ID: <808395718.7953@farl.demon.co.uk> NNTP-Posting-Host: farl.demon.co.uk X-NNTP-Posting-Host: farl.demon.co.uk X-Newsreader: WinVN 0.92.6 e3 Environmental Effects Evaluation Software. e3 is a program which is used by companies as part of their environmental management programmes. It takes the user through all the stages of an environmental effects evaluation as specified by BS7750 and ISO 9000. The price for this program is GBP595 (+vat in GB). e3 runs in Windows and has full on-line help facilities. Also introducing Special Offer of Software to Educational Establishments e3 can also be easily used to by students to gain insight into environmental decision making and the use of software in environmental management.We are offering this program to educational users for the greatly reduced price of GBP 100. For further details contact us at the following address: Compuserve: 100607,2711 Internet : richard@farl.demon.co.uk Fawley Aquatic Research Laboratories Ltd Fawley Southampton SO45 1TW UK PHONE 01703 893513 FAX: 01703 243274 From owner-software@net.bio.net Sun Aug 13 23:00:00 1995 Path: biosci!agate!howland.reston.ans.net!news.sprintlink.net!nwfocus1.wa.com!nwfocus.wa.com!islander.whidbey.net!asn14.whidbey.net!user From: jdjensen@whidbey.net (Dustin Deppe) Newsgroups: bionet.software,biz.comp.software,chinese.comp.software,misc.forsale.computers.mac-specific.misc Subject: WTB: AppleScript & Scriptable Finder. Date: 14 Aug 1995 00:15:25 GMT Organization: Deppe Enterprises Lines: 8 Message-ID: NNTP-Posting-Host: asn14.whidbey.net Xref: biosci bionet.software:12976 biz.comp.software:6702 misc.forsale.computers.mac-specific.misc:10859 I am looking for an inexpensive copy of System 7.5, or just AppleScript and the Scriptable Finder. If yours is for sale, or you know someone who is selling theirs, please let me know. Thanks. -- Dustin T. Deppe Head Web Developer for IIG jdjensen@whidbey.net Deppe Enterprises home page: http://www.whidbey.net/~jdjensen/dustin.htm From owner-software@net.bio.net Sun Aug 13 23:00:00 1995 Path: biosci!agate!howland.reston.ans.net!news.moneng.mei.com!news.inc.net!news.sprintlink.net!nwfocus1.wa.com!nwfocus.wa.com!islander.whidbey.net!asn14.whidbey.net!user From: jdjensen@whidbey.net (Dustin Deppe) Newsgroups: bionet.software,biz.comp.software,chinese.comp.software,misc.forsale.computers.mac-specific.misc Subject: WTB QuickBooks: Mac Version. Date: 14 Aug 1995 00:17:30 GMT Organization: Deppe Enterprises Lines: 7 Message-ID: NNTP-Posting-Host: asn14.whidbey.net Xref: biosci bionet.software:12977 biz.comp.software:6703 misc.forsale.computers.mac-specific.misc:10860 I am looking for a used copy of QuickBooks. If you're selling yours, or know someone who is, please let me know. Thanks. -- Dustin T. Deppe Head Web Developer for IIG jdjensen@whidbey.net Deppe Enterprises home page: http://www.whidbey.net/~jdjensen/dustin.htm From owner-software@net.bio.net Sun Aug 13 23:00:00 1995 Path: biosci!agate!howland.reston.ans.net!xlink.net!news.dfn.de!RRZ.Uni-Koeln.DE!usenet From: "Dr. Joerg Sprengel" Newsgroups: bionet.software Subject: [Q]Mult.Align. Achoring Date: 14 Aug 1995 10:18:43 GMT Organization: Institute of Genetics/Virology Lines: 15 Message-ID: <40n7u3$cla@news.rrz.uni-koeln.de> NNTP-Posting-Host: gz.genetik.uni-koeln.de Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 1.1N (X11; I; SunOS 4.1.3 sun4m) To: sprengel@scan.genetik.uni-koeln.de X-URL: news:bionet.software Dear Netters, I was wondering whether one has the possibility to specify kind of anchors (i.e segments which are known to belong to each other and should not be interrupted by the alignement process) in the input file of the multiple alignement programs first instead of shifting and moving around the output later on. Do clustal, treealign, pileup,... provide this possibility? If not is it possible easiliy to add this feature? Is this a feature? Greetings, // Jorg From owner-software@net.bio.net Sun Aug 13 23:00:00 1995 Path: biosci!CGL.UCSF.EDU!lonetto From: lonetto@CGL.UCSF.EDU (Michael A. Lonetto) Newsgroups: bionet.software Subject: Re: [Q]Mult.Align. Achoring Date: 14 Aug 1995 09:03:22 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 37 Sender: daemon@net.bio.net Distribution: world Message-ID: <199508141600.JAA28523@socrates.ucsf.EDU> NNTP-Posting-Host: net.bio.net >I was wondering whether one has the possibility to specify kind of anchors (i.e >segments which are known to belong to each other and should not be interrupted >by the alignement process) in the input file of the multiple alignement >programs first instead of shifting and moving around the output later on. > >Do clustal, treealign, pileup,... provide this possibility? If not is it >possible easiliy to add this feature? Is this a feature? It's always possible to add this feature, provided you can edit the comparison matrix and sequences: Just pick a symbolt that is not used in your sequence alignment (eg: X) and give it a really high score vs itself and a very low or negative score vs. others. Now insert an "X" in each sequence where you want them to be anchored. If you want to anchor a segment you may need to add X's at each end. I've used this method successfully with Pileup to force the location of a large (300 aa) insertion relative to other sequences. Note that you are really forcing the alignment, so you should think hard about how you can justify the location of the anchor. I haven't used any programs that allow expicit definition of anchors. If you find any please let me know. Mike. -------------=-=-=-=-=-=-=-------------=-=-=-=-=-=-=------------- Michael Lonetto // Phone: 415-476-1493 // Email: lonetto@cgl.ucsf.edu UCSF Depts. of Stomatology and Microbiology, San Francisco, CA 94143-0512 =-=-=-=-=-=-=-------------=-=-=-=-=-=-=-------------=-=-=-=-=-=-= "The name of the game in the entertainment business short-term profit. This is exactly what what Congress is all about -- how can we get re-elected in the short term and every other value be damned." Norman Lear 5/31/95 From owner-software@net.bio.net Sun Aug 13 23:00:00 1995 Path: biosci!bloom-beacon.mit.edu!newsfeed.internetmci.com!news.sprintlink.net!EU.net!uknet!bhamcs!news.ox.ac.uk!oxpath!rpgrant From: rpgrant@molbiol.ox.ac.uk (Mad Dan Eccles) Newsgroups: bionet.software Subject: Graphing Prog on Mac Date: 14 Aug 95 17:23:07 GMT Organization: Oxford University Molecular Biology Data Centre Lines: 13 Message-ID: <1995Aug14.172307@ania.path.ox.ac.uk> NNTP-Posting-Host: ania.path.ox.ac.uk Hi, Any suggestions for a good Mac Graphing prog? TIA, Richard -- Richard P. Grant MA DPhil rpgrant@molbiol.ox.ac.uk Nuffield Department of Obstetrics and Gynaecology, University of Oxford. http://sable.ox.ac.uk/~lady0266 There are more things in heaven and earth, Horatio, Than are dreamt of in your philosophy. From owner-software@net.bio.net Sun Aug 13 23:00:00 1995 Path: biosci!bloom-beacon.mit.edu!panix!zip.eecs.umich.edu!newshost.marcam.com!usc!howland.reston.ans.net!news.sprintlink.net!news.unicomp.net!ns1.unicomp.net!microbiol.org!sutton Subject: A New Biology BBS Newsgroups: bionet.software From: sutton@microbiol.org Date: Mon, 14 Aug 95 06:51:40 EST Message-ID: <7950139408705@microbiol.org> Organization: Microbiol BBS 817-557-0330 Lines: 27 THE MICROBIOLOGY BBS An electronic bulletin board specifically aimed at the concerns of the professional biologist and interested layperson is now available. The Microbiology BBS is online at 817-557-0330. The goal of this service is to provide quality, timely information and communication in the biological and healthcare arenas. All relevant Internet newsgroups and BBS echoes are provided. File areas include Medicine, HIV/AIDS, Microbiology, Biostatistics Biology, Molecular Biology, and many others. Email information on this service may be requested from the online information server. The subject of the request is INFO, and the message text blank. Address request to: Internet: info@microbiol.org. FidoNet: info@1:130/415 -- The Microbiology BBS 817-557-0330 (USA) Dedicated to the biologist in industry, academics, and health care. Providing specialized file collections, and network communication on AegisNet, Internet (microbiol.org), FidoNet (1:130/415), HealthCare Net (60:6220/1). From owner-software@net.bio.net Sun Aug 13 23:00:00 1995 Path: biosci!agate!howland.reston.ans.net!news.sprintlink.net!nwfocus1.wa.com!nwfocus.wa.com!islander.whidbey.net!asn14.whidbey.net!user From: jdjensen@whidbey.net (Dustin Deppe) Newsgroups: bionet.software,biz.comp.software,chinese.comp.software,misc.forsale.computers.mac-specific.misc Subject: WTB Mac Syst 7.5 Date: 14 Aug 1995 00:14:16 GMT Organization: Deppe Enterprises Lines: 8 Message-ID: NNTP-Posting-Host: asn14.whidbey.net Xref: biosci bionet.software:12975 biz.comp.software:6701 misc.forsale.computers.mac-specific.misc:10858 I am looking for an inexpensive copy of System 7.5, or just AppleScript and the Scriptable Finder. If yours is for sale, or you know someone who is selling theirs, please let me know. Thanks. -- Dustin T. Deppe Head Web Developer for IIG jdjensen@whidbey.net Deppe Enterprises home page: http://www.whidbey.net/~jdjensen/dustin.htm From owner-software@net.bio.net Sun Aug 13 23:00:00 1995 Path: biosci!bloom-beacon.mit.edu!newsfeed.internetmci.com!news.sprintlink.net!nntp.bnl.gov!ping From: ping@bnlux1.bnl.gov (Shiping Zhang) Newsgroups: bionet.software Subject: Re: a www site to run DNA/protein sequence analysis programs Date: 14 Aug 1995 14:51:36 GMT Organization: Brookhaven National Laboratory Lines: 38 Message-ID: <40nnto$dap@sun20.ccd.bnl.gov> References: <40ipr9$4lh@sun20.ccd.bnl.gov> Reply-To: ping@genome1.bio.bnl.gov NNTP-Posting-Host: bnlux1.bnl.gov In article <40ipr9$4lh@sun20.ccd.bnl.gov>, Shiping Zhang wrote: >Those who want to do some simple DNA/protein sequence analysis >but don't have a program at hand can take a look at the www site > >http://genome1.bio.bnl.gov/bbq.html > >At the moment, there are several dozens of programs available doing >DNA/protein sequence analysis, such as pI calculation, restriction >enzyme analysis, oligo Tm/dG calculation, sequence comparison, GenBank >data retrieval, etc. We fixed a bug with fasta setup. Due to the bug, the result was not sent back to the user. If you have run fasta through BBQ and didn't get anything, you may try again. Those who have tried BBQ would probably feel that the biggest problem is inputting sequence data. Though the cut/paste feature likely exists in your browser, it's realy not as convenient as simply typing a file name (along with the path if necessary). We have proposed to add a new tag to the fill-out FORM so the input to a field marked with the tag will be taken as a local file name and the content of the file will be loaded by the browser as the real input when the form is submitted. As a test, I have modified lynx2-3-7 to recognize such a tag and do as specified above and it works really great. It really needs little effort to add such a feature into a browser. The IETF group for HTML has extented the specs to include such a tag. But it tries to cover a lot of situations, such as binary data (therefore involving encode/decode and type specification for different binary format, such as .tiff, .gif, .wav, .au, etc), and makes it very very complicated to implement the tag. So far, I'm not aware of any browser that has implemented the IETF tag. (Some browsers may allow you to directly upload the content of local files into a field.) To sort of working around such problem, we implemented a mechanism in BBQ that allows you to input a sequence only once for repeatly uses. (See "sequence input method" and "retain" at above www site for details.) -ping From owner-software@net.bio.net Mon Aug 14 23:00:00 1995 Path: biosci!bcm!news.tamu.edu!bioch.tamu.edu!liyer From: liyer@bioch.tamu.edu Newsgroups: bionet.software Subject: Need info for soft. for drawing DNA structures. Date: 14 Aug 1995 20:25 CST Organization: Texas A&M University, Academic Computing Services Lines: 9 Distribution: world Message-ID: <14AUG199520255230@bioch.tamu.edu> NNTP-Posting-Host: bioch.tamu.edu News-Software: VAX/VMS VNEWS 1.41 Hi, I am looking for a software which can draw standard DNA structures (A,B, Z for e.g.) from a given sequence. Thanks in advance. Please reply to ilnm@bio.tamu.edu Thanks, Lakshminarayan From owner-software@net.bio.net Mon Aug 14 23:00:00 1995 Newsgroups: bionet.announce.bionet.biology.computational,bionet.physics,bionet.general,bionet.info-theory,bionet.structural-nmr,bionet.software,can.med.misc,fj.sci.bio,fj.sci.medical,sci.bio,sci.bio.technology,sci.engr.biomed,sci.image.processing,sci.med,sci.med.informatics,sci.med.pathology,sci.med.physics Path: biosci!galaxy.ucr.edu!library.ucla.edu!info.ucla.edu!newsfeed.internetmci.com!news.sprintlink.net!dispatch.news.demon.net!demon!uknet!liv!ch0s4005 From: ch0s4005@liverpool.ac.uk (Mr DJ Beechs) Subject: 3D RECONSTRUCTION OF TERMINAL DUCTS Message-ID: Keywords: lung terminal duct sids 3d reconstruction Sender: news@liverpool.ac.uk (News System) Nntp-Posting-Host: elm-21.liv.ac.uk Organization: The University of Liverpool Date: Tue, 15 Aug 1995 12:47:27 GMT Lines: 27 Xref: biosci bionet.general:16525 bionet.info-theory:3567 bionet.structural-nmr:713 bionet.software:12990 sci.bio:18365 sci.bio.technology:3594 sci.engr.biomed:4231 sci.image.processing:14926 sci.med:89273 sci.med.informatics:3382 sci.med.pathology:1154 sci.med.physics:3328 > Please help! I am currently studying for a PhD, looking into anatomical defects in the lungs and kidneys of cot death (SIDS) victims. I want to 3 dimensionally reconstruct the terminal duct complex of SIDS and non-SIDS infants, using microscopy and histology. If anyone has any information could they please contact me. Many thanks, DARREN J. BEECH Department of Fetal and Infant Pathology RLCH Mulberry St LIVERPOOL L7 7DG UK Phone - +44 151 794 3856 Fax - +44 151 794 3854 E-Mail - ch0s4005@liverpool.ac.uk From owner-software@net.bio.net Mon Aug 14 23:00:00 1995 Path: biosci!SAKURA.KUDPC.KYOTO-U.AC.JP!i51646 From: i51646@SAKURA.KUDPC.KYOTO-U.AC.JP (Takashi Fukada) Newsgroups: bionet.software Subject: How to open .zip files? Date: 15 Aug 1995 06:25:32 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 13 Sender: daemon@net.bio.net Distribution: world Message-ID: <9508151322.AA13237@locus.nig.ac.jp> NNTP-Posting-Host: net.bio.net Hello. I afraid it's might be inappropriate to post it here, but I wonder if anyone knows how I can open .zip image files on Macintosh. Is there any appropriate viewer or converter as a free/shareware? I connot read this newsgroup regularly, please send an e-mail directly to my address. Thanks in advance. Takashi Fukada Kyoto University i51646@sakura.kudpc.kyoto-u.ac.jp From owner-software@net.bio.net Mon Aug 14 23:00:00 1995 Path: biosci!bcm!cs.utexas.edu!news.sprintlink.net!newsfeed.internetmci.com!tank.news.pipex.net!pipex!lyra.csx.cam.ac.uk!mole.bio.cam.ac.uk!tjrc1 From: tjrc1@mole.bio.cam.ac.uk (Tim Cutts (Zoology)) Newsgroups: bionet.software Subject: Re: Graphing Prog on Mac Date: 15 Aug 1995 10:56:56 GMT Organization: U. of Cambridge, England Lines: 7 Message-ID: <40puho$aj4@lyra.csx.cam.ac.uk> References: <1995Aug14.172307@ania.path.ox.ac.uk> <40o75t$cn8@mark.ucdavis.edu> NNTP-Posting-Host: mole.bio.cam.ac.uk In article <40o75t$cn8@mark.ucdavis.edu> "Bruce R. Thomas" writes: >Excel is the among best Mac spreadsheets, but cannot do error bars, one >of the most needed functions for graphing of scientific data. As of version 5, Excel *does* do error bars. It also does automatic curve firring and all sorts of other stuff useful to scientists. From owner-software@net.bio.net Mon Aug 14 23:00:00 1995 Path: biosci!bcm!cs.utexas.edu!howland.reston.ans.net!news.moneng.mei.com!uwm.edu!msunews!harbinger.cc.monash.edu.au!aggedor.rmit.EDU.AU!news.unimelb.EDU.AU!wehi.edu.au!woozle.mel.dbe.CSIRO.AU!woozle.mel.dbe.CSIRO.AU!usenet From: deanh@tigger.mel.dbe.csiro.au (Dean Hewish) Newsgroups: bionet.software Subject: Help- conference on Chaos theory Date: 10 Aug 1995 23:15:22 GMT Organization: CSIRO Australia Lines: 11 Message-ID: <40e3uaINNs60@woozle.mel.dbe.CSIRO.AU> NNTP-Posting-Host: deanh.mel.dbe.csiro.au X-Posted-From: InterNews 1.0.5@deanh.mel.dbe.csiro.au X-Authenticated: deanh on POP host tigger.mel.dbe.csiro.au A couple of weeks ago I saw an advance notice for a conference on applications of Chaos Theory in biology, to be held in Switzerland, I think. I didn't keep a copy and now the article has been deleted from our server. If someone has a copy of the notice, I would be grateful if they could forward it to me. Thanks Dean R. Hewish Cell biologist and Flow Cytometrist CSIRO Division of Biomolecular Engineering Parkville, Victoria, Australia From owner-software@net.bio.net Mon Aug 14 23:00:00 1995 Path: biosci!rutgers!gatech!bloom-beacon.mit.edu!panix!zip.eecs.umich.edu!newsxfer.itd.umich.edu!news.itd.umich.edu!sdering.uis.itd.umich.edu!shawn_Dering From: shawn_Dering@umich.edu Newsgroups: bionet.software Subject: BMP Files Date: Mon, 14 Aug 1995 11:55:16 Organization: University of Michigan Lines: 11 Message-ID: NNTP-Posting-Host: sdering.uis.itd.umich.edu X-Newsreader: Trumpet for Windows [Version 1.0 Rev Final Beta #7] To: All Netters I was wondering if anyone knew where to find BMP files. I'm looking for some nice and new BMP files for Windows 3.1. If anyone could point me in the right direction I would greatly appreciate it. Being that I'm new to the net, I'm not very swift on getting the this big web. Thanks in advance!!! Shawn_Dering@dsc.umich.edu From owner-software@net.bio.net Mon Aug 14 23:00:00 1995 Path: biosci!daresbury!nntp-trd.UNINETT.no!Norway.EU.net!EU.net!news.sprintlink.net!ddi2.digital.net!usenet From: rengar@digital.net (Rene Garcia) Newsgroups: bionet.software Subject: Okidata printer driver for Windows Date: 16 Aug 1995 00:32:24 GMT Organization: Florida Online Lines: 8 Message-ID: <40reao$gk4@ddi2.digital.net> NNTP-Posting-Host: @pm4_3.digital.net X-Newsreader: WinVN 0.92.6 I have an Okidata printer Microline 82A and I am unable to print any graphics from windows. The reason is I don't have a orinter driver for it. If anyone knows where I can get one or if anyone has a driver for it I would appreciate the help. Thank you. From owner-software@net.bio.net Mon Aug 14 23:00:00 1995 Path: biosci!bcm!news.msfc.nasa.gov!newsfeed.internetmci.com!tank.news.pipex.net!pipex!dispatch.news.demon.net!demon!vlnet.demon.co.uk From: Danny@vlnet.demon.co.uk (Daniela Vollmair) Newsgroups: bionet.software Subject: Help!! Molecular Drawing Package Required Date: Tue, 15 Aug 1995 19:38:38 GMT Organization: vlnet Lines: 11 Message-ID: <808515390.10985@vlnet.demon.co.uk> NNTP-Posting-Host: vlnet.demon.co.uk X-NNTP-Posting-Host: vlnet.demon.co.uk X-Newsreader: Forte Free Agent 1.0.82 Please could someone tell me where I can get a ms-windows package that allows me to draw complex molecular structures. I have to draw molecular structures of resins for my MSc project, so this is a big urgency!!! Many thanks Danielle From owner-software@net.bio.net Mon Aug 14 23:00:00 1995 Path: biosci!rutgers!gatech!newsfeed.internetmci.com!news.sprintlink.net!in1.uu.net!news1.digital.com!ames!newsfeed.gsfc.nasa.gov!eosnorth.gsfc.nasa.gov!north From: Bill North Newsgroups: bionet.software,comp.graphics.algorithms,comp.graphics.api.misc,comp.graphics.apps.avs,comp.graphics.apps.data-explorer,comp.graphics.apps.gnuplot,comp.graphics.apps.iris-explorer Subject: ANNOUNCE: Vendor Seminar for Earth Observation Data Access Date: 15 Aug 1995 19:28:30 GMT Organization: NASA Goddard Space Flight Center -- Greenbelt, Maryland USA Lines: 132 Distribution: world Message-ID: <40qsgu$lkl@post.gsfc.nasa.gov> NNTP-Posting-Host: eosnorth.gsfc.nasa.gov Mime-Version: 1.0 Content-Type: text/plain; charset=ISO-8859-1 Content-Transfer-Encoding: 8bit X-Newsreader: Nuntius 2.0.3_PPC X-XXMessage-ID: X-XXDate: Tue, 15 Aug 1995 20:42:11 GMT Xref: biosci bionet.software:12994 comp.graphics.algorithms:18453 comp.graphics.api.misc:114 comp.graphics.apps.avs:98 comp.graphics.apps.data-explorer:47 comp.graphics.apps.gnuplot:571 comp.graphics.apps.iris-explorer:48 Please do not to poster. Respond to: karenw@ulabsgi.gsfc.nasa.gov or via instructions in body. ANNOUNCE: Vendor Seminar for Earth Observation Data Access NASA is interested in introducing you to its proposed data standards for Earth science data. The Earth Observing System (EOS) Data and Information System (EOSDIS) will archive and distribute Earth science data sets for a very large user community. Information about EOSDIS is attached. The Earth Science Data and Information System Project (ESDISP) is committed to providing easy access to its data. EOSDIS will use a standard format for data set generation, ingest, and distribution. It is the goal of EOSDIS to provide interoperability among the Earth science users which will allow them to interchange data and use a large suite of analysis and visualization tools. If you have a World Wide Web (WWW) browser, such as Mosaic, there is an EOSDIS WWW server with further information about EOSDIS development at the following URL address: "http://spsosun.gsfc.nasa.gov/ESDIShome.html". Standards regarding structure and format of the Earth science data sets to be distributed have been prototyped using the Hierarchical Data Format (HDF) over the past four years. The National Center for Supercomputing Applications (NCSA) at the University of Illinois at Urbana-Champaign is the developer of HDF. In September 1993, the ESDISP adopted HDF as a baseline standard for EOSDIS development for its data sets. For more information on HDF, including the HDF Reference Manual, the URL for the HDF server is "http://hdf.ncsa.uiuc.edu:8001/". Over the past two years, the ESDISP has developed EOS conventions for science data and metadata in implementing HDF. These conventions provide a consistent, self-describing collection of data objects that model the Earth science data. The EOSDIS developers are building a subroutine library that will encapsulate these conventions. The ESDISP is currently contacting vendors, both commercial and public domain, regarding their interest in learning more about the EOS conventions and HDF. The ESDISP proposes that a seminar on EOS conventions and HDF be held in the Washington, DC area in early fall. If you have interest in attending this seminar, please contact us by e- mail address via Karen Whalen, CSC, karenw@ulabsgi.gsfc.nasa.gov; or by phone: (301) 794-1854. Please provide your name, company name and address, telephone number, fax number and e-mail address. Please respond by the end of August 1995. Based on your positive response, final arrangements will be made as to the exact date and place for the seminar. If you prefer to use postal mail or would like to send information about your product, please send to Ted Meyer, NASA Goddard Space Flight Center, Code 505, Greenbelt, MD 20771. Attachment: Earth Observing System Data and Information System (EOSDIS) The Earth Observing System (EOS) is the centerpiece of Mission to Planet Earth (MTPE). MTPE is a NASA-initiated concept that will address the interdisciplinary global change issues with its long-term satellite observations of the Earth and its comprehen