From owner-software@net.bio.net Fri Aug 01 23:00:00 1997 Path: biosci!agate!hammer.uoregon.edu!csulb.edu!gatech!newsjunkie.ans.net!newsfeeds.ans.net!dahlia.singnet.com.sg!columbine.singnet.com.sg!not-for-mail From: "Rawn" Newsgroups: bionet.software Subject: Right Writer Date: 2 Aug 1997 07:18:47 GMT Organization: Singapore Telecommunications Ltd Lines: 6 Message-ID: <01bc9f13$e7c0d2a0$749715a5@phantom.sp.ac.sg> NNTP-Posting-Host: ts900-3232.singnet.com.sg X-Newsreader: Microsoft Internet News 4.70.1160 Im looking for a copy of rightwriter. A document editor program. Need it to use with some missionary work in asean countries. Anyone with a copy could u please post one to me at friarminor@hotmail.com. Thanks Benedict Sim OFM From owner-software@net.bio.net Fri Aug 01 23:00:00 1997 Path: biosci!news.Stanford.EDU!su-news-hub1.bbnplanet.com!news.bbnplanet.com!xfer.kren.nm.kr!nntp.kreonet.re.kr!newsfeed.kornet.nm.kr!news-stock.gsl.net!news-dc.gsl.net!news.gsl.net!news.belnet.be!surfnet.nl!ruu.nl!not-for-mail From: r.j.raggers@lab.azu.nl Newsgroups: bionet.software Subject: Raggers Test on Lipids Date: Sat, 02 Aug 1997 18:47:23 +0200 Organization: Academic Computer Centre Utrecht, (ACCU) Lines: 6 Message-ID: <33E3649B.7CFE@lab.azu.nl> NNTP-Posting-Host: anx1p2.cc.ruu.nl Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 2.02 (Win95; I) This is a test.... But also..I am looking for somebody who knows about methods to substitute a sugar-moiety on lipids. please send comments to the group From owner-software@net.bio.net Fri Aug 01 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!europa.clark.net!194.162.162.196!newsfeed.nacamar.de!blackbush.xlink.net!news-ge.switch.ch!news-zh.switch.ch!surfnet.nl!ruu.nl!not-for-mail From: Raggers Newsgroups: bionet.software Subject: Re: Gene Discovery in silico, Atlanta 1997 Date: Sat, 02 Aug 1997 19:46:15 +0200 Organization: Academic Computer Centre Utrecht, (ACCU) Lines: 1 Message-ID: <33E37267.67B@lab.azu.nl> References: <9707312310.AA18955@intron.biology.gatech.edu> NNTP-Posting-Host: anx1p2.cc.ruu.nl Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 2.02 (Win95; I) me From owner-software@net.bio.net Fri Aug 01 23:00:00 1997 Path: biosci!NCBI.NLM.NIH.GOV!francis From: francis@NCBI.NLM.NIH.GOV Newsgroups: bionet.software Subject: Re: Raggers Test on Lipids Date: 2 Aug 1997 10:45:47 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 931 Sender: daemon@net.bio.net Distribution: world Message-ID: <199708021746.NAA02310@borduas.nlm.nih.gov> NNTP-Posting-Host: net.bio.net > From r.j.raggers@lab.azu.nl Sat Aug 2 12:56:52 1997 > To: bio-soft@net.bio.net > From: r.j.raggers@lab.azu.nl > Subject: Raggers Test on Lipids > Date: Sat, 02 Aug 1997 18:47:23 +0200 > This is a test.... this is not really a newsgroup to send tests to ... > But also..I am looking for somebody who knows about methods to > substitute a sugar-moiety on lipids. > > please send comments to the group pobably a better newsgroup for you would be: GLYCOSCI Discussions about carbohydrate and glycoconjugate molecules. I include the info sheet for European sites. cheers, f. -- | B.F. Francis Ouellette | GenBank Coordinator | | francis@ncbi.nlm.nih.gov From biosci-help@net.bio.net Fri Aug 1 06:56:51 1997 Date: Fri, 1 Aug 1997 01:03:03 -0700 (PDT) To: nobody@net.bio.net X-Really-To: bionews@net.bio.net From: BIOSCI Administrator Subject: BIOSCI Newsgroups Information - Europe, Africa, Central Asia ---------------------------------------------------------------------- THE BIOSCI ELECTRONIC NEWSGROUP NETWORK INFORMATION SHEET (last revised 14-JULY-97) ---------------------------------------------------------------------- > IMPORTANT NOTE: In addition to the USENET and e-mail methods described > below, one can also participate in the BIOSCI newsgroups through the > World Wide Web. The URL is http://www.bio.net/. After connecting to > this site, click on the "Access the BIOSCI/bionet Newsgroups" > hyperlink. This is the BIOSCI information sheet for Europe, Africa, and Central Asia. If you are located in the Americas or the Pacific Rim countries, please retrieve that version of the information sheet by sending the command info usinfo in the body of an e-mail message addressed to the Internet address biosci-server@net.bio.net Any text placed on the Subject: line of your message is ignored, so please be sure to put the "info usinfo" command in the main body of your e-mail message. New users of BIOSCI/bionet may want to read the "Frequently Asked Questions" or "FAQ" sheet for BIOSCI. The FAQ provides details on how to participate in these forums and is available at http://www.bio.net/BIOSCI/biosci.FAQ.html. It may also be requested by sending e-mail to biosci-server@net.bio.net as described above except that the command info faq should be used in the body of the mail message. The FAQ is also posted on the first of each month to the newsgroup BIONEWS/bionet.announce immediately following the posting of both versions of the BIOSCI information sheet. ---------------------------------------------------------------------- Contents of this Document ------------------------- Introduction List of BIOSCI Mailing Lists and Newsgroups List of BIOSCI Newsgroup Topics BIOSCI Newsgroup Discussion Leaders Participating in BIOSCI Using USENET News Software Participating in BIOSCI by E-mail E-mail Subscription Requests and other Information E-mail Address Changes Interruption of E-mail Service Posting Messages to Newsgroups by E-mail Retrieval of old postings from the BIOSCI archives BIOSCI "prototype" newsgroups Retrieving Other BIOSCI Documentation Introduction ------------ The BIOSCI newsgroup network was developed to allow easy worldwide communications between biological scientists who work on a variety of computer networks. BIOSCI is supported by advertising sponsorships on its web site (http://www.bio.net/) in the U.S.A. and by the CCL Daresbury Laboratory in the United Kingdom. BIOSCI services are available to users free of charge. BIOSCI messages are broadcast by two means: USENET news software and electronic mail. They are also available on the WWW at http://www.bio.net/. We strongly encourage all interested users to explore getting "USENET news" software at your site. The software is in the public domain, and you will find it much more convenient than subscribing to newsgroups by e-mail. Please consult your systems manager (the news client software is now incorporated in many Web browsers, and the news server (NNTP server) software may already be available on a machine at your institution). NOTE, however, that the installation and maintenance of news software requires the assistance of a trained systems operator in most cases and is not a task to be undertaken by a computer novice. Why is news software preferable to e-mail? News software recovers messages automatically after network interruptions, whereas your e-mail address may have to be removed from the subscription list at times if your computer/network malfunctions and undelivered mail starts bouncing back to the BIOSCI administrative sites. You will have to view lost e-mail messages in the WWW archives at http://www.bio.net/ if your e-mail subscription is suspended. News software organizes messages by topic and subtopic for easy browsing. In contrast if you subscribe by e-mail to more than one discussion list, messages from multiple lists arrive into your personal mail file in chronological order of posting only and are mixed in with your personal messages. You have to connect the discussion threads yourself if you use e-mail. In summary, e-mail participation should be seen as a last resort to be used only if news software can not be installed locally. List of BIOSCI Mailing Lists and Newsgroups ------------------------------------------- BIOSCI messages are distributed on the newsgroups in the "bionet" hierarchy of USENET and on the corresponding mailing lists indicated below. Contents of the USENET newsgroups and the e-mail distributions are *identical*, i.e., messages sent in by e-mail are also forwarded to USENET and messages posted to USENET newsgroups are also distributed to e-mail subscribers. An expanded description of the purpose of each newsgroup follows this list. MAILING LIST NAME USENET Newsgroup Name ----------------- --------------------- ACEDB-SOFT bionet.software.acedb AFCR ** bionet.prof-society.afcr AGEING bionet.molbio.ageing AGROFORESTRY bionet.agroforestry AIBS ** bionet.prof-society.aibs AMYLOID ** bionet.neuroscience.amyloid ARABIDOPSIS ** bionet.genome.arabidopsis ASCB ** bionet.prof-society.ascb AUDIOLOGY bionet.audiology AUTOMATED-SEQUENCING ** bionet.genome.autosequencing BIOCAN ** bionet.prof-society.cfbs BIOFILMS bionet.microbiology.biofilms BIOFORUM bionet.general BIO-INFORMATION-THEORY + bionet.info-theory BIONAUTS bionet.users.addresses BIONEWS ** bionet.announce BIO-JOURNALS ** bionet.journals.contents BIO-MATRIX bionet.molbio.bio-matrix BIOPHYSICAL-SOCIETY ** bionet.prof-society.biophysics BIOPHYSICS bionet.biophysics BIO-SOFTWARE bionet.software BIO-SRS bionet.software.srs BIOTECHNIQUES ** bionet.journals.letters.biotechniques BIOTHERMOKINETICS bionet.metabolic-reg BIO-WWW ** bionet.software.www CARDIOVASCULAR-RESEARCH bionet.biology.cardiovascular CELEGANS bionet.celegans CELL-BIOLOGY bionet.cellbiol CHLAMYDOMONAS ** bionet.chlamydomonas CHROMOSOMES bionet.genome.chromosomes COMPUTATIONAL-BIOLOGY ** bionet.biology.computational CSM ** bionet.prof-society.csm CYTONET bionet.cellbiol.cytonet DEEPSEA ** bionet.biology.deepsea DIAGNOSTICS ** bionet.diagnostics DROSOPHILA bionet.drosophila ECOPHYSIOLOGY ** bionet.ecology.physiology EMBL-DATABANK bionet.molbio.embldatabank EMF-BIO ** bionet.emf-bio EMPLOYMENT ** bionet.jobs.offered EMPLOYMENT-WANTED bionet.jobs.wanted FASEB ** bionet.prof-society.faseb FLUORESCENT-PROTEINS bionet.molbio.proteins.fluorescent FREE-RADICALS ** bionet.molecules.free-radicals G-PROTEIN-COUPLED-RECEPTOR bionet.molbio.proteins.7tms_r GDB bionet.molbio.gdb GENBANK-BB bionet.molbio.genbank GENETIC-LINKAGE bionet.molbio.gene-linkage GENSTRUCTURE ** bionet.genome.gene-structure GLYCOSCI bionet.glycosci GRASSES-SCIENCE bionet.biology.grasses HIV-MOLECULAR-BIOLOGY bionet.molbio.hiv HUMAN-GENOME-PROGRAM ** bionet.molbio.genome-program IMMUNOLOGY bionet.immunology INFO-GCG bionet.software.gcg INSULIN-ACTION ** bionet.cellbiol.insulin JOURNAL-NOTES bionet.journals.note METHODS-AND-REAGENTS bionet.molbio.methds-reagnts MICROBIOLOGY bionet.microbiology MOLECULAR-EVOLUTION bionet.molbio.evolution MOLECULAR-MODELLING bionet.molec-model MOLECULAR-REPERTOIRES ** bionet.molecules.repertoires MOLLUSC-MOLECULAR-NEWS ** bionet.molbio.molluscs MYCOLOGY bionet.mycology NAVBO ** bionet.prof-society.navbo NEUROSCIENCE bionet.neuroscience N2-FIXATION bionet.biology.n2-fixation P450 bionet.molecules.p450 PARASITOLOGY bionet.parasitology PEPTIDES ** bionet.molecules.peptides PHOTOSYNTHESIS ** bionet.photosynthesis PLANT-BIOLOGY bionet.plants PLANT-EDUCATION bionet.plants.education PLANT-SIGNAL-TRANSDUCTION ** bionet.plants.signaltransduc POPULATION-BIOLOGY bionet.population-bio PRENATAL-DIAGNOSTICS bionet.diagnostics.prenatal PROTEIN-ANALYSIS bionet.molbio.proteins PROTEIN-CRYSTALLOGRAPHY bionet.xtallography PROTISTA bionet.protista PSEUDOMONADS bionet.organisms.pseudomonas RAPD bionet.molbio.rapd RECOMBINATION bionet.molbio.recombination SCHISTOSOMA ** bionet.organisms.schistosoma SCIENCE-RESOURCES ** bionet.sci-resources STADEN bionet.software.staden STRUCTURAL-NMR ** bionet.structural-nmr SYMBIOSIS-RESEARCH ** bionet.biology.symbiosis TIBS ** bionet.journals.letters.tibs TOXICOLOGY bionet.toxicology TROPICAL-BIOLOGY bionet.biology.tropical URODELES ** bionet.organisms.urodeles VECTOR-BIOLOGY ** bionet.biology.vectors VIROLOGY ** bionet.virology WOMEN-IN-BIOLOGY bionet.women-in-bio X-PLOR bionet.software.x-plor YEAST bionet.molbio.yeast ZBRAFISH bionet.organisms.zebrafish + full name is BIOLOGICAL-INFORMATION-THEORY-AND-CHOWDER-SOCIETY ** Note that newsgroups flagged with ** are moderated, i.e., postings are directed to a moderator who later forwards messages (possibly modified) to the newsgroup. List of BIOSCI Newsgroup Topics ------------------------------- MAILING LIST NAME TOPIC ----------------- ----- ACEDB-SOFT Discussions by users and developers of genome databases using the ACEDB software. AFCR ** American Federation for Clinical Research announcements AGEING Discussions about ageing research AGROFORESTRY Discussions about agroforestry research AIBS ** American Institute of Biological Sciences announcements AMYLOID ** Forum for researchers on Alzheimer's disease and related disorders including prion diseases ARABIDOPSIS ** Newsgroup for the Arabidopsis Genome Project ASCB ** Announcements from The American Society for Cell Biology AUDIOLOGY Topics in audiology and hearing science BIOFILMS Research on microbial biofilms BIOFORUM Discussions about biological topics for which there is not yet a dedicated newsgroup AUTOMATED-SEQUENCING ** Research and support on automated DNA sequencing BIOCAN ** Newsgroup for the Canadian Federation of Biological Societies (CFBS) BIOLOGICAL-INFORMATION- THEORY-AND-CHOWDER-SOCIETY Applications of information theory to biology; this group is not for general information or for discussion of theories in general. BIONAUTS Question/answer forum for help using electronic networks, locating e-mail addresses, etc. BIONEWS ** General announcements of widespread interest to biologists BIO-JOURNALS ** Tables of Contents of biological journals BIO-MATRIX Applications of computers to biological databases BIOPHYSICAL-SOCIETY ** Official announcements/information from the Biophysical Society. BIOPHYSICS Discussion of issues related to the science and profession of biophysics BIO-SOFTWARE Information on software for the biological sciences BIO-SRS Discussions about the Sequence Retrieval System (SRS) software BIOTECHNIQUES ** Discussions of articles in the journal Biotechniques BIOTHERMOKINETICS Discussions about the kinetics, thermodynamics and control of biological processes at the cellular level BIO-WWW ** Announcements about new information resources in biology which can be accessed via electronic networked information retrieval software CARDIOVASCULAR-RESEARCH Research discussions in cardiovascular biology CELEGANS Research discussions on the model organism Caenorhabditis elegans and related nematodes CELL-BIOLOGY Discussions about cell biology including cancer research at the cellular level CHLAMYDOMONAS ** Discussions about the biology of the green alga Chlamydomonas and related genera CHROMOSOMES Discussions about mapping and sequencing of eucaryote chromosomes COMPUTATIONAL-BIOLOGY ** Mathematical and computer applications in biology CSM ** Announcements from the Canadian Society of Microbiologists. CYTONET Discussions about research on the cytoskeleton, plasma membrane, and cell wall DEEPSEA ** Research in deep-sea marine biology, oceanography, and geology DIAGNOSTICS ** Discussions of problems and techniques in all fields of diagnostics DROSOPHILA Discussions about biological research on Drosophila ECOPHYSIOLOGY ** Research and education in physiological ecology EMBL-DATABANK Messages to and from the EMBL database staff EMF-BIO ** Discussions about research on electromagnetic field interactions with biological systems EMPLOYMENT ** Job opportunities in biology EMPLOYMENT-WANTED Forum for posting resumes/CVs by individuals seeking employment in the biological sciences or in support of the biological sciences FASEB ** Announcements from the Federation of American Societies for Experimental Biology FLUORESCENT-PROTEINS Research on fluorescent proteins and bioluminescence FREE-RADICALS ** Research on free radicals in biology and medicine G-PROTEIN-COUPLED-RECEPTOR Discussions about signal transducing receptors which interact with G-proteins GDB Messages to and from the Genome Data Bank staff GENBANK-BB Messages to and from the GenBank database staff GENETIC-LINKAGE Newsgroup for genetic linkage analysis GENSTRUCTURE ** Genome and chromatin structure and function GLYCOSCI Discussions about carbohydrate and glycoconjugate molecules. GRASSES-SCIENCE Discussions regarding grasses, especially cereal, forage, and turf species HIV-MOLECULAR-BIOLOGY Discussions about the molecular biology of HIV HUMAN-GENOME-PROGRAM ** NIH-sponsored newsgroup on human genome issues IMMUNOLOGY Discussions about research in immunology INFO-GCG Discussions about the GCG sequence analysis software INSULIN-ACTION ** Discussions about the biology and chemistry of insulin and related receptors. JOURNAL-NOTES Practical advice on dealing with professional journals METHODS-AND-REAGENTS Requests for information and lab reagents MICROBIOLOGY Discussions about research in microbiology MOLECULAR-EVOLUTION Discussions about research in molecular evolution MOLECULAR-MODELLING Discussions about molecular modelling MOLECULAR-REPERTOIRES ** Generation and use of libraries of molecules MOLLUSC-MOLECULAR-NEWS ** Discussions about research on mollusc DNA MYCOLOGY Discussions about research on filamentous fungi NAVBO ** Forum for the North American Vascular Biology Organization NEUROSCIENCE Discussions about research in the neurosciences N2-FIXATION Discussion about biological nitrogen fixation P450 Research on cytochrome P450 PARASITOLOGY Discussions about research in parasitology PEPTIDES ** Research involving peptides PHOTOSYNTHESIS ** Discussions about photosynthesis research PLANT-BIOLOGY Discussions about research in plant biology PLANT-EDUCATION Education issues in plant biology PLANT-SIGNAL-TRANSDUCTION ** Research on plant signal transduction POPULATION-BIOLOGY Discussions about research in population biology PRENATAL-DIAGNOSTICS Discussions about research in prenatal diagnostics PROTEIN-ANALYSIS Discussions about research on proteins and messages for the PIR and SWISS-PROT databank staffs PROTEIN-CRYSTALLOGRAPHY Discussion about crystallography of macromolecules and messages for the PDB staff PROTISTA Discussions about research on ciliates and other protists PSEUDOMONADS Research on the genus Pseudomonas RAPD Discussions about Randomly Amplified Polymorphic DNA RECOMBINATION Research on the recombination of DNA or RNA SCHISTOSOMA ** Discussions about Schistosoma research SCIENCE-RESOURCES ** Information from/about scientific funding agencies STADEN Discussions between scientists using the Staden molecular sequence analysis software STRUCTURAL-NMR ** Discussions about the use of NMR for macromolecular structure determination SYMBIOSIS-RESEARCH ** Discussions about symbiosis research TIBS ** "Letters to the Editor" of "Trends in Biochemical Sciences" TOXICOLOGY Discussions about research in toxicology TROPICAL-BIOLOGY Discussions about research in tropical biology URODELES ** Discussions about research in urodele amphibian biology VECTOR-BIOLOGY ** Research and control of arthropods which transmit disease VIROLOGY ** Discussions about research in virology WOMEN-IN-BIOLOGY Discussions about issues concerning women biologists X-PLOR Discussions about the X-PLOR software for 3D macromolecular structure determination YEAST Discussions about the molecular biology and genetics of yeast ZBRAFISH Discussions about research using the model organism Zebrafish (Danio rerio) ** Note that newsgroups flagged with ** are moderated, i.e., postings are directed to a moderator who later forwards messages (possibly modified) to the newsgroup. BIOSCI Newsgroup Discussion Leaders ----------------------------------- Most scientific specialty newsgroups (except for a few created several years ago) have individuals who are responsible for stimulating discussion on the newsgroup. Discussion leaders, however, do not screen or edit messages to their newsgroups. General purpose forums such as METHODS-AND-REAGENTS do not have discussion leaders. If a group that you are interested in does not seem to have much activity recently, please contact the discussion leader and ask why. Groups marked with "**" are moderated. In this case the group leader is instead called the newsgroup "moderator." The moderator actually receives all postings by e-mail prior to public distribution, reviews them, and then decides on their suitability for distribution on their newsgroup. In most cases moderators usually do not edit messages themselves, but sometimes request the poster to modify their content prior to distribution. The moderation policy for each newsgroup is contained in the newsgroup's charter which is available at http://www.bio.net/ in each individual newsgroup archive. MAILING LIST NAME Discussion Leader or Moderator ----------------- ------------------------------ ACEDB-SOFT Mike Cherry (cherry@genome.stanford.edu) AFCR ** Jon T. Schafer (pp001101@interramp.com) AGEING Sydney Shall (bafa1@central.sussex.ac.uk) AGROFORESTRY Gerry Lawson (gjl@ite.ac.uk) AIBS ** Rebecca Chasan (moderator@aibs.org) AMYLOID ** David Small (david_small@muwayf.unimelb.edu.au) ARABIDOPSIS ** Charles Gasser Lab (atmod@ucdavis.edu) ASCB ** Vincent Shan (moderator@faseb.org) AUDIOLOGY Jeff Sirianni (sirianni@uts.cc.utexas.edu) and Susan Moreland (smorelan@magnus.acs.ohio-state.edu) AUTOMATED-SEQUENCING ** David Cain (dcain@hgmp.mrc.ac.uk) and Robert Feakes (rwf@mole.bio.cam.ac.uk) BIOCAN ** Neil Haave (biocan@augustana.ab.ca) BIOFILMS Claus Sternberg (cs@im.dtu.dk) BIOFORUM None BIOLOGICAL-INFORMATION- THEORY-AND-CHOWDER-SOCIETY Tom Schneider (toms@ncifcrf.gov) BIONAUTS Rob Harper (harper@convex.csc.fi) BIONEWS ** Todd McGee (biosci-help@net.bio.net) BIO-JOURNALS ** Julie Lawrence (biosci-help@net.bio.net) BIO-MATRIX Dan Davison (davison@uh.edu) BIOPHYSICAL-SOCIETY ** Carol Gross (cgross@biosci.cbs.umn.edu) BIOPHYSICS Carol Gross (cgross@biosci.cbs.umn.edu) BIO-SOFTWARE None BIO-SRS Thure Etzold (etzold@embl-heidelberg.de) and Reinhard Doelz (doelz@comp.bioz.unibas.ch) BIOTECHNIQUES ** Mary McCarthy (mmccarthy@biotechnet.com) BIOTHERMOKINETICS John Woods (eanv20@castle.edinburgh.ac.uk) BIO-WWW ** Nicole Redaschi (redaschi@ebi.ac.uk) CARDIOVASCULAR-RESEARCH Zhandong Zhou (zhandong@macc.wisc.edu) CELEGANS William Morgan (wmorgan@acs.wooster.edu) CELL-BIOLOGY Ola Myklebost (ola.myklebost@dnr.uio.no) CHLAMYDOMONAS ** Elizabeth H. Harris (chlamy@acpub.duke.edu) CHROMOSOMES Bruce Roe (broe@aardvark.ucs.uoknor.edu) and Greg Lennon (greg@mendel.llnl.gov) COMPUTATIONAL-BIOLOGY ** Todd McGee (biosci-help@net.bio.net) CSM ** John Nash (csm@nrcbsa.bio.nrc.ca) CYTONET Nicholas C. Carpita (carpita@btny.purdue.edu) DEEPSEA ** Andrew Grant McArthur (mcarthur@onyx.si.edu) DIAGNOSTICS ** Kevin O'Donnell (odonnell@sasa.gov.uk) and Robert Burns (burns@sasa.gov.uk) DROSOPHILA Michael Ashburner (m.ashburner@gen.cam.ac.uk) ECOPHYSIOLOGY ** Martyn M. Caldwell (mmc@cc.usu.edu) EMBL-DATABANK None (datalib@embl-heidelberg.de) EMF-BIO ** Allan H. Frey (afrey@uunet.uu.net) EMPLOYMENT ** Todd McGee (biosci-help@net.bio.net) EMPLOYMENT-WANTED None FASEB ** Vincent Shan (moderator@faseb.org) FLUORESCENT-PROTEINS Paul Kitts (paulki@clontech.com) Steve Kain (stevek@clontech.com) FREE-RADICALS ** Javier J. Zulueta (javier.zulueta@es.nemc.org) and Kevin Clancy PhD (clancy@eri.uchsc.edu) and Neil Hogg PhD (nhogg@post.its.mcw.edu) G-PROTEIN-COUPLED-RECEPTOR Lee F. Kolakowski, Jr. (kolakowski@uthscsa.edu) GDB Kerryn Brandt (kab@welchgate.welch.jhu.edu) GENBANK-BB Dennis Benson (benson@ncbi.nlm.nih.gov) GENETIC-LINKAGE Steve Bryant (s_bryant@icrf.ac.uk) GENSTRUCTURE ** Graham Dellaire (dellaire@odyssee.net) GLYCOSCI Iain Wilson (iwilson@molbiol.ox.ac.uk) and Barry Hardy (bhardy@convex.ox.ac.uk) GRASSES-SCIENCE Allen Wright (adwright@iastate.edu) HIV-MOLECULAR-BIOLOGY Mika Salminen (msalminen@nphi.fi) HUMAN-GENOME-PROGRAM ** Betty Mansfield (k76@ornl.gov) IMMUNOLOGY Donald Forsdyke (forsdyke@qucdn.queensu.ca) INFO-GCG John Cargill (ontogen@nic.cerf.net) INSULIN-ACTION ** T. S. Pillay (tpillay@ucsd.edu) JOURNAL-NOTES Donald Forsdyke (forsdyke@qucdn.queensu.ca) METHODS-AND-REAGENTS None MICROBIOLOGY Martin Latterich (Martin_Latterich@qm.salk.edu) MOLECULAR-EVOLUTION Dan Davison (davison@uh.edu) MOLECULAR-MODELLING Philippe Stas (philstas@vub.ac.be) MOLECULAR-REPERTOIRES ** Andrew Wallace (a.wallace@qub.ac.uk) MOLLUSC-MOLECULAR-NEWS ** Elizabeth Grace Boulding (boulding@uoguelph.ca) MYCOLOGY Tom Adams (tom@bio.tamu.edu) Leland Ellis (leland@straylight.tamu.edu) Greg May (gsmay@bcm.tmc.edu) NAVBO ** Valeri Kolpakov (kolpakov@umich.edu) Steve Schwartz (steves@u.washington.edu) D. Gordon (David.Gordon@pobox.pds.med.umich.edu) NEUROSCIENCE Vincent A Mazzarella (vamg6792@uxa.cso.uiuc.edu) James L. Olds (olds@anatomy.org) N2-FIXATION Eng-Leong Foo (eng-leong_foo_mircen-ki%micforum@mica.mic.ki.se) P450 Dr. A. Zimmerlin (Alfred.zimmerlin@fmi.ch) PARASITOLOGY Daniel R. Brooks, Sherwin S. Desser and Henry Hong (parasite@zoo.toronto.edu) PEPTIDES ** Michael Breslav (mbreslav@rarusraexs1.prius.jnj.com) and Christopher Gross (cmgross@biosci.cbs.umn.edu) and Terry Mulcahy (tmulcahy@medusa.unm.edu) PHOTOSYNTHESIS ** Larry Orr (larry.orr@asu.edu) PLANT-BIOLOGY Tony Travis (ajt@rri.sari.ac.uk) PLANT-EDUCATION Jonathan D. Monroe (monroejd@jmu.edu) and Susan R. Singer (ssinger@carleton.edu) PLANT-SIGNAL-TRANSDUCTION ** Bratislav Stankovic (stankovic.1@osu.edu) POPULATION-BIOLOGY None PRENATAL-DIAGNOSTICS Aneal Chandra (chandra@cardiff.ac.uk) and David Miller (davidm@pathology.leeds.ac.uk) and Tim Reynolds (timreyno@burton.demon.co.uk) PROTEIN-ANALYSIS Amos Bairoch (bairoch@cmu.unige.ch) and John Garavelli (garavelli@nbrf.georgetown.edu) PROTEIN-CRYSTALLOGRAPHY Morten Kjeldgaard (morten@oase.kemi.aau.dk) PROTISTA Marsha Altschule (marsha.i.altschuler@williams.edu) and Mark Farmer (farmer@emlab.zoo.uga.edu) PSEUDOMONADS Bruce W. Ritchings (bwr@icbr.ifas.ufl.edu) RAPD James Farmer (jlfarmer@bioag.byu.edu) RECOMBINATION Graham Dellaire (popa0206@po-box.mcgill.ca) and George Szatmari (szat@ere.umontreal.ca) and Terry Chow (MDTY@musica.mcgill.ca) and Dana Lasko (CZDL@musica.mcgill.ca) SCHISTOSOMA ** Christoph Grevelding (Christoph.Grevelding@uni-duesseldorf.de) SCIENCE-RESOURCES ** Julie Lawrence (biosci-help@net.bio.net) and Todd McGee (biosci-help@net.bio.net) STADEN Tim Littlejohn (tim@bch.umontreal.ca) STRUCTURAL-NMR ** C. S. Raman (raman@bioc01.uthscsa.edu) SYMBIOSIS-RESEARCH ** James F. White, Jr. (jwhite@aesop.rutgers.edu) TIBS ** Jo McEntyre (TIBS@elsevier.co.uk) and Todd McGee (biosci-help@net.bio.net) TOXICOLOGY Charles A. Miller (rellim@mailhost.tcs.tulane.edu) TROPICAL-BIOLOGY Matti Nummelin (mnummelin@cc.helsinki.fi) URODELES ** Susan Duhon (duhon@ucs.indiana.edu) and Anthony Mescher (mescher@ucs.indiana.edu) VECTOR-BIOLOGY ** Dennis Knudson (dknudson@lamar.colostate.edu) and Martin Ferguson (martinf@lamar.colostate.edu) VIROLOGY ** Marnix L. Bosch (marnix@saul.u.washington.edu) and Brett Lindenbach (bdl@borcim.wustl.edu) and Thomas Pfitzner (thomas.pfitzner@stud.uni-regensburg.de) WOMEN-IN-BIOLOGY Cassandra Smith (cls@buenga.bu.edu) X-PLOR Axel T. Brunger (brunger@laplace.csb.yale.edu) YEAST Francis Ouellette (francis@ncbi.nlm.nih.gov) ZBRAFISH Richard Vogt (vogt@biol.scarolina.edu) and Una Smith (smith-una@yale.edu) ** Note that newsgroups flagged with ** are moderated. Participating in BIOSCI Using USENET News Software -------------------------------------------------- Users who have access to USENET news software and the bionet USENET groups can participate immediately, i.e., they do not need to "subscribe" to anything. They can read and reply to messages using their local news software (e.g., the newsreader contained in the Netscape WWW browser) and post new messages of their own. Users will have to consult their local systems managers for help in using news software. There are many different programs available and the BIOSCI staff can not provide training in news software use. Fortunately, most news software is fairly simple to use and can be learned quickly. When posting new messages, USENET users should be sure to set the message "distribution" to "world" or else your message may not be distributed beyond your local computer. In most cases, messages are posted directly to the newsgroups without editorial intervention. Some groups (indicated in the lists above) are "moderated," however. This means that postings to these newsgroups will be sent to the newsgroup moderator who will decide whether or not the message is suitable for posting to the newsgroup in question. Participating in BIOSCI by E-mail --------------------------------- PLEASE NOTE THAT IF YOU HAVE ACCESS TO USENET NEWS YOU DO NOT NEED AN E-MAIL SUBSCRIPTION!! Simply read and post to the newsgroups in the "bionet" newsgroup hierarchy using your USENET news software. E-mail Subscription Requests and other Information -------------------------------------------------- For users in Europe, Africa, and Central Asian countries, e-mail subscription and cancellation requests are handled automatically by an e-mail server, although personal assistance is also available via the biosci@daresbury.ac.uk address. Once your e-mail address is added to a subscription list, mail will be sent to your address automatically each time someone posts a message. This will continue until you remove your address from the subscription list. To obtain instructions automatically on BIOSCI e-mail server use, send a mail message to mxt@dl.ac.uk with the lines, help info help returns a message with the list of mxt commands. info returns a message with the list of mxt mail lists; the BIOSCI lists are under the master name bionet-news. Subscribing and unsubscribing with MXT - examples - - - - - - - - - - - - - - - - - - - - - - - - - To subscribe and unsubscribe to/from the BIOSCI lists, you need to specify the full USENET newsgroup name with bionet-news. prepended. For example, sub bionet-news.bionet.jobs.offered unsub bionet-news.bionet.molbio.methds-reagnts To unsubscribe from all the lists, use unsub bionet-news These commands should be sent in a mail message to mxt@dl.ac.uk. Please note that if the address in the list is different to the one in your mail message header you will not be able to unsubscribe by this method. If you have problems, please mail biosci@daresbury.ac.uk. NOTE!! WE WILL ASSUME THAT YOU HAVE FOLLOWED THESE INSTRUCTIONS and will DELETE any message to the administrative address biosci@daresbury.ac.uk that simply requests us to carry out manually "subscribe" or "unsubscribe" commands without further explanation. IF YOU NEED HUMAN ASSISTANCE, PLEASE SAY SO PROMINENTLY AND EXPLICITLY AT THE BEGINNING OF YOUR MAIL. For example, please put the line ASSISTANCE NEEDED at the beginning of the body of your message or in the Subject: line of your message to biosci@daresbury.ac.uk. E-mail Address Changes ---------------------- If you have subscribed to a newsgroup and are now leaving an institution or changing your e-mail address, it is IMPERATIVE that you send a note to biosci@daresbury.ac.uk and cancel your subscription! Non-existent addresses or overflowing mailboxes cause computer mail programs to send back "daemon" messages which might bother everybody on the newsgroup. We will immediately remove any address causing such a problem, but would prefer it if you would notify us in advance as a courtesy to the rest of the user community. Interruption of E-mail Service ------------------------------ It is our policy to remove any address from our mailing lists which becomes inaccessible and causes mail to bounce back to the sender. This might happen to you if your local computer or network fails for a significant period of time. If you notice that you are no longer receiving BIOSCI postings, it may be because your address was removed for the above reason. It will be necessary for you to contact biosci@daresbury.ac.uk and resubscribe. Please see the BIOSCI FAQ, mentioned at the beginning of this document, for more details on how BIOSCI handles addresses which reject mail. Posting Messages to Newsgroups by E-mail ---------------------------------------- Those who use e-mail to post messages should send their mail to the following addresses in the U.K.: ********************************************************************** DO NOT, REPEAT, DO NOT POST SUBSCRIPTION OR CANCELLATION REQUESTS DIRECTLY TO ANY OF THE NEWSGROUP E-MAIL POSTING ADDRESSES. PLEASE USE ONLY THE ADDRESS biosci@daresbury.ac.uk for subscription or cancellation requests as explained above. Your posting could go to several thousand people. Supposing that each person spends a couple of seconds to figure out that you did this, before they go on to the next message. You will have wasted the equivalent of several hours of one person's time, not to mention wasted computer time and disk storage. ********************************************************************** MAILING LIST NAME Mailing Address ----------------- ---------------- ACEDB-SOFT acedb@daresbury.ac.uk AFCR ** afcr@daresbury.ac.uk AGEING ageing@daresbury.ac.uk AGROFORESTRY ag-forst@daresbury.ac.uk AIBS ** aibslist@daresbury.ac.uk AMYLOID ** amyloid@daresbury.ac.uk ARABIDOPSIS ** arab-gen@daresbury.ac.uk ASCB ** ascb@daresbury.ac.uk AUDIOLOGY audiolog@daresbury.ac.uk AUTOMATED-SEQUENCING ** autoseq@daresbury.ac.uk BIOCAN ** biocan@daresbury.ac.uk BIOFORUM bioforum@daresbury.ac.uk BIO-INFORMATION-THEORY + bio-info@daresbury.ac.uk BIONAUTS bio-naut@daresbury.ac.uk BIONEWS ** bionews@daresbury.ac.uk BIO-JOURNALS ** bio-jrnl@daresbury.ac.uk BIO-MATRIX biomatrx@daresbury.ac.uk BIOPHYSICAL-SOCIETY ** bphyssoc@daresbury.ac.uk BIOPHYSICS biophys@daresbury.ac.uk BIO-SOFTWARE bio-soft@daresbury.ac.uk BIO-SRS bio-srs@daresbury.ac.uk BIOTECHNIQUES ** btechniq@daresbury.ac.uk BIOTHERMOKINETICS btk-mca@daresbury.ac.uk BIO-WWW ** bio-www@daresbury.ac.uk CARDIOVASCULAR-RESEARCH cardiors@daresbury.ac.uk CELEGANS celegans@daresbury.ac.uk CELL-BIOLOGY cellbiol@daresbury.ac.uk CHLAMYDOMONAS ** chlamy@daresbury.ac.uk CHROMOSOMES biochrom@daresbury.ac.uk COMPUTATIONAL-BIOLOGY ** comp-bio@daresbury.ac.uk CSM ** csm@daresbury.ac.uk CYTONET cytonet@daresbury.ac.uk DEEPSEA ** deepsea@daresbury.ac.uk DIAGNOSTICS ** diagnost@daresbury.ac.uk DROSOPHILA dros@daresbury.ac.uk ECOPHYSIOLOGY ** ecophys@daresbury.ac.uk EMBL-DATABANK embl-db@daresbury.ac.uk EMF-BIO ** emf-bio@daresbury.ac.uk EMPLOYMENT ** biojobs@daresbury.ac.uk EMPLOYMENT-WANTED wantjob@daresbury.ac.uk FASEB ** faseb@daresbury.ac.uk FLUORESCENT-PROTEINS fluorpro@daresbury.ac.uk FREE-RADICALS ** freerad@daresbury.ac.uk G-PROTEIN-COUPLED-RECEPTOR 7tms_r@daresbury.ac.uk GDB gdb@daresbury.ac.uk GENBANK-BB genbankb@daresbury.ac.uk GENETIC-LINKAGE gen-link@daresbury.ac.uk GENSTRUCTURE ** genstruc@daresbury.ac.uk GLYCOSCI glycosci@daresbury.ac.uk GRASSES-SCIENCE grasses@daresbury.ac.uk HIV-MOLECULAR-BIOLOGY hiv-biol@daresbury.ac.uk HUMAN-GENOME-PROGRAM ** gnome-pr@daresbury.ac.uk IMMUNOLOGY immuno@daresbury.ac.uk INFO-GCG info-gcg@daresbury.ac.uk INSULIN-ACTION ** insulin@daresbury.ac.uk JOURNAL-NOTES jrnlnote@daresbury.ac.uk METHODS-AND-REAGENTS methods@daresbury.ac.uk MICROBIOLOGY microbio@daresbury.ac.uk MOLECULAR-EVOLUTION mol-evol@daresbury.ac.uk MOLECULAR-MODELLING molmodel@daresbury.ac.uk MOLECULAR-REPERTOIRES ** molreps@daresbury.ac.uk MOLLUSC-MOLECULAR-NEWS ** molluscs@daresbury.ac.uk MYCOLOGY mycology@daresbury.ac.uk NAVBO ** navbo@daresbury.ac.uk NEUROSCIENCE neur-sci@daresbury.ac.uk N2-FIXATION n2fix@daresbury.ac.uk PARASITOLOGY parasite@daresbury.ac.uk PEPTIDES ** peptides@daresbury.ac.uk PHOTOSYNTHESIS ** photosyn@daresbury.ac.uk PLANT-BIOLOGY plantbio@daresbury.ac.uk PLANT-EDUCATION plant-ed@daresbury.ac.uk PLANT-SIGNAL-TRANSDUCTION ** plsignal@daresbury.ac.uk POPULATION-BIOLOGY pop-bio@daresbury.ac.uk PRENATAL-DIAGNOSTICS prenatal@daresbury.ac.uk PROTEIN-ANALYSIS proteins@daresbury.ac.uk PROTEIN-CRYSTALLOGRAPHY xtal-log@daresbury.ac.uk PROTISTA protista@daresbury.ac.uk PSEUDOMONADS pseudomo@daresbury.ac.uk RAPD rapd@daresbury.ac.uk RECOMBINATION recom@daresbury.ac.uk SCHISTOSOMA ** schisto@daresbury.ac.uk SCIENCE-RESOURCES ** sci-res@daresbury.ac.uk STADEN staden@daresbury.ac.uk STRUCTURAL-NMR ** str-nmr@daresbury.ac.uk SYMBIOSIS-RESEARCH ** symbios@daresbury.ac.uk TIBS ** tibs@daresbury.ac.uk TOXICOLOGY toxicol@daresbury.ac.uk TROPICAL-BIOLOGY trop-bio@daresbury.ac.uk URODELES ** urodeles@daresbury.ac.uk VECTOR-BIOLOGY ** vect-bio@daresbury.ac.uk VIROLOGY ** virology@daresbury.ac.uk WOMEN-IN-BIOLOGY womenbio@daresbury.ac.uk X-PLOR x-plor@daresbury.ac.uk YEAST yeast@daresbury.ac.uk ZBRAFISH zbrafish@daresbury.ac.uk + full name is BIOLOGICAL-INFORMATION-THEORY-AND-CHOWDER-SOCIETY ** Note that newsgroups flagged with ** are moderated, i.e., postings are directed to a moderator who later forwards messages (possibly modified) to the newsgroup. Retrieval of old postings from the BIOSCI archives -------------------------------------------------- All BIOSCI newsgroups are archived on the World Wide Web at URL http://www.bio.net/. BIOSCI "prototype" newsgroups ----------------------------- To assist areas of research in developing their own electronic communication forums, BIOSCI at net.bio.net will set up, on request, a mailing list *without* an associated USENET newsgroup. The mailing list is created only at net.bio.net, the U.S. BIOSCI node, and all subscription requests must be sent to the e-mail server at biosci-server@net.bio.net regardless of one's geographical location. There is no charge for this or any other BIOSCI service. This procedure waives the rule that requires each new newsgroup proposal to be put to a vote of the readership first (see the BIOSCI FAQ, mentioned at the beginning of this document, for details on creating new full-fledged newsgroups and prototype newsgroups). Each mailing list ("prototype newsgroup") must have a scientist volunteer to serve as its discussion leader and an initial list of e-mail subscribers. The prototype newsgroup has six months to build up its readership after which time it is put out for a vote for full newsgroup status (i.e., to have both a mailing list *and* parallel USENET newsgroup created at both BIOSCI nodes in the U.S. and U.K.). If you are interested in establishing such a forum for your research specialty, please contact biosci-help@net.bio.net. The current prototype newsgroups are listed below. Please send subscription requests to biosci-server@net.bio.net and NOT to the newsgroup posting addresses. Posting Address Purpose --------------- ------- annelida@net.bio.net Discussions of the scientific study of Phylum Annelida bigblue@net.bio.net Discussions between researchers who use transgenic animal systems for mutation assays. bioherv@net.bio.net Discussions about human endogenous retroviral elements. maize@net.bio.net Research on maize. mutation@net.bio.net Discussions about mutation research. phbiotec@net.bio.net Discussions about research in pharmaceutical biotechnology. radoncjc@net.bio.net Radiation Oncology journal club (moderated list) rna@net.bio.net Discussions about RNA editing, RNA splicing, and ribozyme activities of RNA. rust-mil@net.bio.net Research about the biotrophic foliar fungal diseases of cereals, including rusts, powdery mildews and downy mildews. yac@net.bio.net Discussions about yeast artificial chromosomes. Retrieving Other BIOSCI Documentation ------------------------------------- BIOSCI documents are kept on the WWW at http://www.bio.net/BIOSCI/docs.html. Documents can also be retrieved by addressing e-mail to the Internet address biosci-server@net.bio.net and including any of the commands below in the body of your mail message. Text placed on the Subject: line of your message is ignored, so please be sure that the commands are in the body of the mail message. Although multiple commands may be placed in one message, we recommend instead that one message be sent per command to avoid having to extract multiple documents from a single message. The server sends back all information requested from a multiple command query in a single response message. Document to Retrieve Command to send to biosci-server@net.bio.net -------------------- -------------------------------------------- BIOSCI FAQ info faq (Frequently Asked ?'s about using BIOSCI) BIOSCI info sheet for the Americas & Pacific Rim info usinfo BIOSCI info sheet for Europe, Africa, & Central Asia info ukinfo FURTHER QUESTIONS??? Please address them to biosci@daresbury.ac.uk. PLEASE DO NOT DIRECT BIOSCI QUESTIONS TO THE PERSONAL E-MAIL ADDRESSES OF PEOPLE ON THE BIOSCI STAFF!! DUE TO OUR VOLUME OF MAIL, ANSWERS MAY BE DELAYED OR NOT SENT AT ALL!! From owner-software@net.bio.net Sat Aug 02 23:00:00 1997 Path: biosci!agate!newsfeed.kornet.nm.kr!news.maxwell.syr.edu!news.he.net!news.pagesat.net!ultra.sonic.net!not-for-mail From: nisibori@info-niigata.or.jp (nisibori) Newsgroups: bionet.software Subject: Free Software? Date: Sun, 03 Aug 1997 21:32:37 GMT Organization: Sonic,Santa Rosa CA,http://www.sonic.net Lines: 4 Message-ID: <33e7f89b.14980227@news.sonic.net> NNTP-Posting-Host: d44.pm.sonic.net Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Newsreader: Forte Agent .99f/32.299 I have been told there is free software at http://169.132.45.225 anyone know anything about this offer? nisibori From owner-software@net.bio.net Sun Aug 03 23:00:00 1997 Newsgroups: bionet.software Path: biosci!agate!howland.erols.net!rill.news.pipex.net!pipex!join.news.pipex.net!pipex!server1.netnews.ja.net!server5.netnews.ja.net!leeds.ac.uk!news From: garyt@bmb.leeds.ac.uk (Gary Sheldon Thompson) Subject: don't follow link in nisibori Free Software ? Message-ID: <33E5A16A.167E@bmb.leeds.ac.uk> NNTP-Posting-Host: bmbsgi14.leeds.ac.uk X-Mailer: Mozilla 3.01 (X11; I; IRIX 5.3 IP22) Content-Type: text/plain; charset=us-ascii Organization: Biochemistry and Molecular Biology, University of Leeds MIME-Version: 1.0 Date: Mon, 4 Aug 1997 10:30:00 +0100 (BST) Lines: 51 Content-Transfer-Encoding: 7bit The following message has appeared on the news group bionet.software: I have been told there is free software at http://169.132.45.225 anyone know anything about this offer? nisibori Now amongst other things bionet.software is for the distribution of free academic software for biological research, however when i followed the link in the mail message I recieved the following web page: your access from bmbsgi14.leeds.ac.uk [129.11.141.43] has been logged. this log can and will be used against you. previous offenders (now under investigation by several organizations): bmbsgi14.leeds.ac.uk [129.11.141.43] >>> many more name deleted end of message This is rather offensive as I am 'a ordinary citizen going about his business' and I am posting this message to bionet.software and my system administrator will recieve a followup as well your sinceerely gary thompson -- end ********************************************************************* Dr. Gary S. Thompson Address: Wellcome Postdoctoral Fellow Biochemistry and Molecular Biology, Sheena Radford's Laboratory Woodhouse Lane, University of Leeds, Studying the structure and Leeds, LS2 9JT. folding of proteins by nmr. England. e-mail: garyt@bmb.leeds.ac.uk. tel: 0113 233 3134 fax: 0113 233 3167 ********************************************************************* From owner-software@net.bio.net Sun Aug 03 23:00:00 1997 Path: biosci!daresbury!lyra.csx.cam.ac.uk!server1.netnews.ja.net!server5.netnews.ja.net!server3.netnews.ja.net!news.ox.ac.uk!worf.molbiol.ox.ac.uk!rgrant From: rgrant@see.sig.for.address (Richard P Grant) Newsgroups: bionet.software Subject: Re: don't follow link in nisibori Free Software ? Date: 4 Aug 1997 10:14:14 GMT Organization: Oxford University Lines: 26 Message-ID: <5s4a1m$95s@news.ox.ac.uk> References: <33E5A16A.167E@bmb.leeds.ac.uk> NNTP-Posting-Host: worf.molbiol.ox.ac.uk X-Newsreader: TIN [version 1.2 PL2] Gary Sheldon Thompson (garyt@bmb.leeds.ac.uk) wrote: } The following message has appeared on the news group bionet.software: } I have been told there is free software at http://169.132.45.225 } anyone know anything about this offer? nslookup 169.132.45.225 Server: ermine.ox.ac.uk Address: 163.1.2.13 Name: www.warez.org Address: 169.132.45.225 } your access from bmbsgi14.leeds.ac.uk [129.11.141.43] has been } logged. } this log can and will be used against you. Not a problem if you didn't download anything. What can they do? Nada. Richard -- Richard P. Grant MA DPhil University of Oxford | rgrant@molbiol http://www.molbiol.ox.ac.uk/~rgrant FFPGP | .ox.ac.uk From owner-software@net.bio.net Sun Aug 03 23:00:00 1997 Path: biosci!daresbury!uninett.no!sn.no!Norway.EU.net!EU.net!howland.erols.net!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!news.maxwell.syr.edu!newsspool.doit.wisc.edu!news.itis.com!not-for-mail From: Petr Kuzmic Newsgroups: bionet.software Subject: Re: don't follow link in nisibori Free Software ? Date: Mon, 04 Aug 1997 14:30:37 -0500 Organization: BioKin Consulting Lines: 76 Message-ID: <33E62DDD.F43A1F0A@biokin.com> References: <33E5A16A.167E@bmb.leeds.ac.uk> NNTP-Posting-Host: s28.itis.com Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 4.01 [en] (Win95; I) X-Priority: 3 (Normal) Gary Sheldon Thompson wrote: > (deleted) ... when i followed the > link in the mail message I recieved the following web page: > > your access from bmbsgi14.leeds.ac.uk [129.11.141.43] has been > logged. > this log can and will be used against you. This is probably a prank, possibly someone very young (in their mind) learning PERL and/or CGI. I am only a beginner (wrote about three or four PERL scripts), but I already know that this kind of a thing can be done very easily in several lines of computer code. If I went insane, or regressed to the fourth-grade level wanting to scare people (who are not computer programmers), I could write a page like that infamous http://169.132.45.225 in about ten minutes. The reason I say it's a prank is the "this log can and will be used against YOU". You see, there is (fortunately) absolutely no way for anyone to know which PERSON actually used the server bmbsgi14.leeds.ac.uk [129.11.141.43] at any given time. There is no camera hidden in the computer screen, watching you sitting down to work. In other words, to make a long story short, don't worry about this idiotic indicent too much. It is much less threatening than when people send viruses to delete data on your disk. Petr Kuzmic _______________________________________________________ P.S.: For example, here is how you can write into a file that sits on your own server who (that is, which SERVER) is browsing: # ******** BEGIN EXCERPT ********* # Some of Perl's network info functions # ------------------------------------- ($part1,$part2,$part3,$part4)=split(/\./,$ENV{REMOTE_ADDR}); $IP_adr=pack("C4",$part1,$part2,$part3,$part4); ($host_name)=(gethostbyaddr("$IP_adr", 2)); # open log file for output and append new log data # skip all hits that originated in my own server # ------------------------------------------------ $idx = index $host_name, $myownhost; if ($idx eq (-1)) { open (LOGFILE, ">>$logfile"); print LOGFILE "$host_name \t "; print LOGFILE "$ENV{'DOCUMENT_URI'} \t " if $log_page; print LOGFILE "$ENV{'HTTP_REFERER'} \t "; print LOGFILE "$ENV{'HTTP_USER_AGENT'} \t "; print LOGFILE "$ENV{REMOTE_ADDR} \t " if $log_IP; print LOGFILE "$datetime \t "; print LOGFILE "\n"; close (LOGFILE); } # ******** ENDEXCERPT ********* The fragment above is sitting on the server in a file called for example "hitlog.pl" or "hitlog.cgi". You make it an executable file by using the Unix function "chmod". Then you include the following code into a page that you want to have logged, say http://www.stupid_joke.com/trap_for_perl_newbies.htm: At this point, if anyone accesses the page the PERL script sitting on the server can "write" a new HTML page and display it in your browser. From owner-software@net.bio.net Sun Aug 03 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!news-spur1.maxwell.syr.edu!news.maxwell.syr.edu!howland.erols.net!ix.netcom.com!news From: magoldst@ix.netcom.com (Marc Goldstein) Newsgroups: bionet.software Subject: Reverse Complement utility Date: Mon, 4 Aug 1997 14:44:53 -0500 Organization: Netcom Lines: 14 Message-ID: NNTP-Posting-Host: mil-wi8-01.ix.netcom.com X-NETCOM-Date: Mon Aug 04 2:44:13 PM CDT 1997 X-Newsreader: Anawave Gravity v1.10 Hi, I am looking for a very simple utility that can run in the Win95 environment that will take an input sequence of up to a KB and create the reverse-complement of it, and save that. The input could be either ascii or GCG or similar or even just copy-paste into the utility. Anyone know of a utility to accomplish this? Please remove NOSPAM in my address if using auto-reply functions. Thanks. Marc Goldstein, Ph.D. magoldst@ix.netcom.com From owner-software@net.bio.net Sun Aug 03 23:00:00 1997 Path: biosci!agate!howland.erols.net!newsxfer3.itd.umich.edu!oleane!jussieu.fr!univ-lille1.fr!u-strasbg.fr!news From: pingouin@chouchen.u-strasbg.fr (Francois Jeanmougin) Newsgroups: bionet.software Subject: Re: don't follow link in nisibori Free Software ? Date: 4 Aug 1997 11:31:14 GMT Organization: CRC - Universite Louis Pasteur - Strasbourg France Lines: 54 Message-ID: <5s4ei2$b43@news.u-strasbg.fr> References: <33E5A16A.167E@bmb.leeds.ac.uk> Reply-To: jeanmougin@igbmc.u-strasbg.fr NNTP-Posting-Host: 130.79.78.242 Mime-Version: 1.0 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: 8bit X-Newsreader: knews 0.9.8 In article <33E5A16A.167E@bmb.leeds.ac.uk>, garyt@bmb.leeds.ac.uk (Gary Sheldon Thompson) writes: [...] > This is rather offensive as I am 'a ordinary citizen going about his > business' and I am posting this message to bionet.software and my > system administrator will recieve a followup as well [...] Probably a bad joke : bash$ whois warez.org [rs.internic.net] We All R Elite Zookeepers (WAREZ7-DOM) 16802 E. Campbell Gilber, AZ 85234 USA Domain Name: WAREZ.ORG Administrative Contact: Tolle, Matthew (MT300) out@NIGHT.COM (602) 416-6416 Technical Contact, Zone Contact: Primenet Network Operations Center (PRM-NOC) noc@PRIMENET.COM 602-416-6400 / 800-404-7714 Fax- 602-416-6499 Record last updated on 08-Jan-97. Record created on 27-Nov-96. Database last updated on 4-Aug-97 04:29:21 EDT. Domain servers in listed order: DNS1.PRIMENET.NET 206.165.5.10 DNS2.PRIMENET.NET 206.165.50.10 DNS3.PRIMENET.NET 204.245.15.10 The InterNIC Registration Services Host contains ONLY Internet Information (Networks, ASN's, Domains, and POC's). Please use the whois server at nic.ddn.mil for MILNET Information. ***** I really don't know what it means. I also subscribe (?) to this page to see what they want to do. I will let all of you know if there is anything consistent. Anyway, you can try to send a mail to abuse@primenet.net and ask about this "organisation". François. -- François Jeanmougin | groupe de bioinformatique / bioinformatics groupe tel:(+33) 3 88 65 32 71 | IGBMC BP 163 67404 Illkirch France "Ce sont des désespoirs d'intellectuels ennuyés, ou des ennuis d'intellectuels désespérés, comme vous voulez, comme vous voulez" M. Benin From owner-software@net.bio.net Mon Aug 04 23:00:00 1997 Path: biosci!fcs280s.ncifcrf.gov!cpk-news-feed4.bbnplanet.com!cpk-news-feed1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!europa.clark.net!208.134.241.18!infeed1.internetmci.com!newsfeed.internetmci.com!jump.net!grunt.dejanews.com!not-for-mail Date: Tue, 05 Aug 1997 10:35:12 -0600 From: Els.VanGeldre@rug.ac.be Subject: intron - splice junctions Newsgroups: bionet.software,bionet.general Message-ID: <870792844.10383@dejanews.com> Reply-To: Els.VanGeldre@rug.ac.be Organization: Deja News Posting Service To: Els.VanGeldre@rug.ac.be X-Article-Creation-Date: Tue Aug 05 14:54:05 1997 GMT X-Originating-IP-Addr: 157.193.70.33 (farmbiot.rug.ac.be) X-Http-User-Agent: Mozilla/2.02 (Win16; I) X-Authenticated-Sender: Els.VanGeldre@rug.ac.be Lines: 19 Xref: biosci bionet.software:19276 bionet.general:27698 Dear all, First of all I would like to thank you for all previous answers and suggestions to my questions. Secondly, I would like to ask you the following. Does someone know wether there exists (and where I can find it) a program that is capable to find splice junctions in a given gDNA sequence ? I have some PCR products derived from gDNA of plants (about 1kb). I would like to derive the protein sequence from these DNA sequences, but only the exons without the introns. I found such a program specific for Arabidopsis, but I wonder wether there exists something more general for plants. Thank you for answering, Els -------------------==== Posted via Deja News ====----------------------- http://www.dejanews.com/ Search, Read, Post to Usenet From owner-software@net.bio.net Mon Aug 04 23:00:00 1997 Path: biosci!fcs280s.ncifcrf.gov!cpk-news-feed4.bbnplanet.com!cpk-news-feed1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!newsfeed.nacamar.de!peernews.ftech.net!Aladdin!aladdin.net!ns2.aladdin.net!RMplc!rmplc.co.uk!yama.mcc.ac.uk!hydraulix.bangor.ac.uk!manager From: Keith James Newsgroups: bionet.software Subject: Re: Reverse Complement utility Date: 05 Aug 1997 14:39:39 +0100 Organization: University of Wales, Bangor. Lines: 30 Sender: bss194@pwilliams.bangor.ac.uk Message-ID: References: NNTP-Posting-Host: pwilliams.bangor.ac.uk X-Newsreader: Gnus v5.3/Emacs 19.34 magoldst@ix.netcom.com (Marc Goldstein) writes: > > Hi, > > I am looking for a very simple utility that can run in the Win95 > environment that will take an input sequence of up to a KB and create the > reverse-complement of it, and save that. The input could be either ascii > or GCG or similar or even just copy-paste into the utility. > > Anyone know of a utility to accomplish this? Please remove NOSPAM in > my address if using auto-reply functions. Ignore this if you don't have Unix (or Windows + win32-Perl + Cygwin32 GNU fileutils). If you have Perl available you can do: perl -ln0e 'tr/ACGTNacgtn- /TGCANtgcan/d; print scalar reverse $_;' outfile to the end, of course. Only for ascii files... you will get a horrible mess with a GCG file! It's a handful to type, so I alias it to something short. If you use GNU csplit you can get it to take Pearson/Fasta files by splitting on the headers and directing the output files through this. -- Keith James Ph.D. - k.james@bangor.ac.uk PGP 2.6.2i Key ID 469A9FA1 Biodegradation Group *Encrypt and Survive* School of Biological Sciences Guvf znl znxr ab frafr vs bar bs gur University of Wales, Bangor, UK vasvavgr ahzore bs zbaxrlf vf bssyvar From owner-software@net.bio.net Mon Aug 04 23:00:00 1997 Path: biosci!NCBI.NLM.NIH.GOV!francis From: francis@NCBI.NLM.NIH.GOV Newsgroups: bionet.software Subject: Re: Translation program for PCs Date: 5 Aug 1997 12:12:42 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 63 Sender: daemon@net.bio.net Distribution: world Message-ID: <199708051912.PAA06599@borduas.nlm.nih.gov> NNTP-Posting-Host: net.bio.net There is also "ORF finder" on the WWW (ie all platforms that run a browser) at NCBI: http://www.ncbi.nlm.nih.gov/gorf/gorf.html (you can also get there from our home page: http://www.ncbi.nlm.nih.gov/) It can call any sequence in GenBank, or allow you to copy/paste your own. It can use all the different genetic codes we support (presently 13 different ones) and presents a clickable output (6 frames) where you can send the selected ORF to our blast server. You can save the ORF you want to a FASTA file format, or GenBank format. This perl of a utility was written by Tatiana Tatusov at NCBI. cheers, f. -- | B.F. Francis Ouellette | GenBank Coordinator | | francis@ncbi.nlm.nih.gov > From k.james@bangor.ac.uk Tue Aug 5 13:34:10 1997 > To: bio-soft@net.bio.net > From: Keith James > Subject: Re: Translation program for PCs > Date: 05 Aug 1997 17:55:38 +0100 > NNTP-Posting-Host: pwilliams.bangor.ac.uk > X-Newsreader: Gnus v5.3/Emacs 19.34 > > jclewley@hgmp.mrc.ac.uk (Dr. J.P. Clewley) writes: > > > > > > > Can anyone recommend a public domain program for PCs that will take > > a sequence and translate it in all 6 reading frames, so that the > > coding strand can be identified and a file of the translated amino > > acid sequence made. > > It won't do both strands at once, but ORF by Jean-Michel Claverie will > get all ORFs from a sequence (it's a simple matter to rev-comp a > sequence with text editor macro or file utility). > > You can define limits for the length of ORFs in nucleotides and it will > print a nice summary table and a Pearson/Fasta output of translations > sorted by size and annotated with their position in the original DNA > sequence. > > There is C source available at ftp://ncbi.nlm.nih.gov/pub/jmc/orf/orf.c > It compiles on Linux with a couple of errors, but seems to work. It > may compile with a DOS/Windows version of gcc, but I haven't tried it. > > -- > Keith James Ph.D. - k.james@bangor.ac.uk PGP 2.6.2i Key ID 469A9FA1 > Biodegradation Group *Encrypt and Survive* > School of Biological Sciences Guvf znl znxr ab frafr vs bar bs gur > University of Wales, Bangor, UK vasvavgr ahzore bs zbaxrlf vf bssyvar > > From owner-software@net.bio.net Mon Aug 04 23:00:00 1997 Path: biosci!news.Stanford.EDU!su-news-hub1.bbnplanet.com!cam-news-hub1.bbnplanet.com!news.bbnplanet.com!news-xfer.netaxs.com!europa.clark.net!205.252.116.205!howland.erols.net!rill.news.pipex.net!pipex!join.news.pipex.net!pipex!Aladdin!aladdin.net!ns2.aladdin.net!RMplc!rmplc.co.uk!yama.mcc.ac.uk!hydraulix.bangor.ac.uk!manager From: Keith James Newsgroups: bionet.software Subject: Re: Translation program for PCs Date: 05 Aug 1997 17:55:38 +0100 Organization: University of Wales, Bangor. Lines: 27 Sender: bss194@pwilliams.bangor.ac.uk Distribution: bionet Message-ID: References: <5s7ivp$7ht@mserv1.dl.ac.uk> NNTP-Posting-Host: pwilliams.bangor.ac.uk X-Newsreader: Gnus v5.3/Emacs 19.34 jclewley@hgmp.mrc.ac.uk (Dr. J.P. Clewley) writes: > > > Can anyone recommend a public domain program for PCs that will take > a sequence and translate it in all 6 reading frames, so that the > coding strand can be identified and a file of the translated amino > acid sequence made. It won't do both strands at once, but ORF by Jean-Michel Claverie will get all ORFs from a sequence (it's a simple matter to rev-comp a sequence with text editor macro or file utility). You can define limits for the length of ORFs in nucleotides and it will print a nice summary table and a Pearson/Fasta output of translations sorted by size and annotated with their position in the original DNA sequence. There is C source available at ftp://ncbi.nlm.nih.gov/pub/jmc/orf/orf.c It compiles on Linux with a couple of errors, but seems to work. It may compile with a DOS/Windows version of gcc, but I haven't tried it. -- Keith James Ph.D. - k.james@bangor.ac.uk PGP 2.6.2i Key ID 469A9FA1 Biodegradation Group *Encrypt and Survive* School of Biological Sciences Guvf znl znxr ab frafr vs bar bs gur University of Wales, Bangor, UK vasvavgr ahzore bs zbaxrlf vf bssyvar From owner-software@net.bio.net Mon Aug 04 23:00:00 1997 Path: biosci!daresbury!not-for-mail From: jclewley@hgmp.mrc.ac.uk (Dr. J.P. Clewley) Newsgroups: bionet.software Subject: Translation program for PCs Date: 5 Aug 1997 17:05:13 +0100 Lines: 7 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <5s7ivp$7ht@mserv1.dl.ac.uk> Original-To: bio-soft@dl.ac.uk Can anyone recommend a public domain program for PCs that will take a sequence and translate it in all 6 reading frames, so that the coding strand can be identified and a file of the translated amino acid sequence made. Jon Clewley From owner-software@net.bio.net Mon Aug 04 23:00:00 1997 Path: biosci!fcs280s.ncifcrf.gov!cpk-news-feed4.bbnplanet.com!cpk-news-feed1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!news-xfer.netaxs.com!iagnet.net!newsspool.doit.wisc.edu!news.itis.com!not-for-mail From: Petr Kuzmic Newsgroups: bionet.software,bionet.biophysics,bionet.metabolic-reg Subject: Thrombin/Hirudin: Rate constants determined by DYNAFIT Date: Tue, 05 Aug 1997 02:28:36 -0500 Organization: BioKin Consulting Lines: 34 Message-ID: <33E6D624.3619D7D1@biokin.com> NNTP-Posting-Host: j38.itis.com Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 4.01 [en] (Win95; I) X-Priority: 3 (Normal) Xref: biosci bionet.software:19274 bionet.biophysics:3435 bionet.metabolic-reg:1545 This is a message to all users of the freeware program DYNAFIT -------------------------------------------------------------- August 4, 1997 THROMBIN TUTORIAL - COMPETITIVE BINDING KINETICS A new online tutorial was added: Determination of rate constants for the simultaneous, competitive binding of thrombin and its chemical mutant (dehydrothrombin) to hirudin. Everyone is encouraged to compare the approach described on the BioKin website [1] with the original paper from Scheraga's laboratory at Cornell [2]. Since I am planning to submit the re-analysis of the thrombin data as a journal article, any comments, criticisms, and suggestions for improvements are welcome. Please take a look at the original report [1] and observe the spectacular complexity of the algebraic approach: 97 equations and three appendices in ref. [1], compared with the DYNAFIT [2] formalism: [mechanism] Enzyme + Ligand <===> Complex-1 : k1 k2 Mutant + Ligand <===> Complex-2 : k3 k4 REFERENCES [1] Wedemeyer et al. (1997) Anal. Biochem. 248, 130-140. [2] http://www.biokin.com/dynafit/tutorial/thrompap.shtml -------------------------------------------------------------- Petr Kuzmic Ph.D. * BioKin Ltd. * Madison, WI 53708-8336 (USA) (pkuzmic@biokin.com) [http://www.biokin.com] 608.256.1269 fax From owner-software@net.bio.net Tue Aug 05 23:00:00 1997 Path: biosci!fcs280s.ncifcrf.gov!cpk-news-feed4.bbnplanet.com!cpk-news-feed1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!baron.netcom.net.uk!netcom.net.uk!uknet!yama.mcc.ac.uk!hydraulix.bangor.ac.uk!manager From: Keith James Newsgroups: bionet.software Subject: Re: Reverse Complement utility Date: 06 Aug 1997 10:29:19 +0100 Organization: University of Wales, Bangor. Lines: 22 Sender: bss194@pwilliams.bangor.ac.uk Message-ID: References: NNTP-Posting-Host: pwilliams.bangor.ac.uk X-Newsreader: Gnus v5.3/Emacs 19.34 Keith James writes: > Ignore this if you don't have Unix (or Windows + win32-Perl + Cygwin32 GNU > fileutils). If you have Perl available you can do: > > perl -ln0e 'tr/ACGTNacgtn- /TGCANtgcan/d; print scalar reverse $_;' References: <5s7ivp$7ht@mserv1.dl.ac.uk> NNTP-Posting-Host: frenzy.u-strasbg.fr X-Newsreader: Trumpet for Windows [Version 1.0 Rev A] In article <5s7ivp$7ht@mserv1.dl.ac.uk> jclewley@hgmp.mrc.ac.uk (Dr. J.P. Clewley) writes: >From: jclewley@hgmp.mrc.ac.uk (Dr. J.P. Clewley) >Subject: Translation program for PCs >Date: 5 Aug 1997 17:05:13 +0100 >Can anyone recommend a public domain program for PCs that will take >a sequence and translate it in all 6 reading frames, so that the >coding strand can be identified and a file of the translated amino >acid sequence made. >Jon Clewley Vector NTI viewer, which is freeware, does this and more. Look at http://www.informaxinc.com/ Cheers Francis =============================================================== Dr. Francis Durst CNRS / Universite Louis Pasteur Dept Cell. Mol. Enzymology Plant Mol. Biol. Inst. F-67083 Strasbourg, France From owner-software@net.bio.net Tue Aug 05 23:00:00 1997 Path: biosci!agate!newsfeed.kornet.nm.kr!news.maxwell.syr.edu!dispatch.news.demon.net!demon!zetnet.co.uk!not-for-mail From: JGW Computing Newsgroups: bionet.software Subject: Quality Control software available for download Date: Thu, 7 Aug 1997 00:17:45 +0100 Message-ID: <1997080700174571355@zetnet.co.uk> NNTP-Posting-Host: besses.zetnet.co.uk X-Mailer: ZIMACS Version 1.10c 10002114 Lines: 39 QC-Record is a menu-driven program that provides a specialised environment for handling all quality control storage needs. It incorporates facilities to store QC data, which can be reviewed in graphical form or as pure data, on screen or as hard copy. Easy to set up, but at the same time very configurable, the program offers the opportunity for the user to define their own quality control rules, although it is supplied as standard with rules based on criteria proposed by Westgard and associates (A Multi-Rule Shewart Chart for Quality Control in Clinical Chemistry. Clin. Chem 27,493-500, 1981). Hardware requirements are low, and it will run as a stand-alone package, or across a computer network. The main features of QC-Record are: * Immediate analysis of input data by user-defined rules * Will recall, edit, display, summarise and print stored QC results * Calculates mean and SD for any defined period * Stores running mean and SD on stored data * Stores changes in reagents and/or standards * User-definable data ranges * User-definable program configuration (colours, printers, etc.) * User-definable tests * Maintains audit trail of changes to QC database * Context-sensitive on-line help * Backup, restore and archive of essential data * Password restriction of sensitive data * Automatically network aware * Runs on most PC's from an 8086 upwards At http://www.users.zetnet.co.uk/jgw.computing/ you can download a demo, and also a restricted use working version of QC-Record. Contact JGW Computing by email to: jgw.computing@zetnet.co.uk From owner-software@net.bio.net Tue Aug 05 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!europa.clark.net!208.134.241.18!infeed1.internetmci.com!newsfeed.internetmci.com!vixen.cso.uiuc.edu!ais.net!newsfeed.concentric.net!news-master!news From: Ketchup@concentric.net (ketchup) Newsgroups: bionet.software Subject: Re: Reverse Complement utility Date: Wed, 06 Aug 1997 18:51:39 GMT Organization: Concentric Internet Services Lines: 27 Message-ID: <5sah3l$hr3@chronicle.concentric.net> References: NNTP-Posting-Host: ts015d06.cup-ca.concentric.net X-Newsreader: Forte Free Agent 1.0.82 GeneDoc will do this for you for PC/Windows machines. http://www.cris.com/~ketchup/genedoc.shtml Look in the Seq Dialog. Karl Nicholas. >Hi, >I am looking for a very simple utility that can run in the Win95 >environment that will take an input sequence of up to a KB and create the >reverse-complement of it, and save that. The input could be either ascii >or GCG or similar or even just copy-paste into the utility. >Anyone know of a utility to accomplish this? Please remove NOSPAM in >my address if using auto-reply functions. >Thanks. >Marc Goldstein, Ph.D. >magoldst@ix.netcom.com From owner-software@net.bio.net Tue Aug 05 23:00:00 1997 Path: biosci!ERIENET.NET!dayton From: dayton@ERIENET.NET (Dayton Lab) Newsgroups: bionet.software Subject: Information Request Date: 6 Aug 1997 07:09:35 -0700 Organization: Dayton Lab Lines: 10 Sender: daemon@net.bio.net Distribution: world Message-ID: <33E8E65E.29E9@erienet.net> Reply-To: dayton@erienet.net NNTP-Posting-Host: net.bio.net Good Persons: I am interested in creating some slides for use with my students using photographic images of different invertebrates and other organsisms taken off of the WWW. Does anyone know of any software or techniques which can be used to reduce the "jagged" edges and boxy appearance some of these images have? ANy help in this matter is much appreciated. Thank you. David Gerrick From owner-software@net.bio.net Tue Aug 05 23:00:00 1997 Path: biosci!agate!usenet.INS.CWRU.Edu!news.apk.net!uunet!in3.uu.net!204.238.120.130!jump.net!grunt.dejanews.com!not-for-mail Date: Wed, 06 Aug 1997 08:12:44 -0600 From: luca.toldo@merck.de Subject: Re: Automatic Biological Database searches... Newsgroups: bionet.software Message-ID: <870862430.8573@dejanews.com> Reply-To: k.james@bangor.ac.uk Organization: Deja News Posting Service To: m3wwm6z13k.fsf@pwilliams.bangor.ac.uk References: <33E0FD16.1441@post.its.mcw.edu> X-Article-Creation-Date: Wed Aug 06 10:13:50 1997 GMT X-Originating-IP-Addr: 155.250.128.1 (wingate.merck.de) X-Http-User-Agent: Mozilla/4.01 [en] (WinNT; I) via proxy gateway CERN-HTTPD/3.0 libwww/2.17 X-Authenticated-Sender: luca.toldo@merck.de Lines: 23 In article , Keith James wrote: > There is such a beast, called FastAlert, that "performs periodic scans of > permanently updated protein or DNA databanks with user-supplied query > sequences". After a quick search I haven't been able to find a URL or ftp > site to download the source from, but it does exist. I reccomend the following URLS on the topic: http://www.bork.embl-heidelberg.de/Alerting/ http://www.mips.biochem.mpg.de/mips/programs/alert.html http://expasy.hcuge.ch/swisshop/SwissShopReq.html a reference to fastalert (found by a search on altavista.digital.com) is: http://www.csc.fi/molbio/progs/fastalert/ -------------------==== Posted via Deja News ====----------------------- http://www.dejanews.com/ Search, Read, Post to Usenet From owner-software@net.bio.net Wed Aug 06 23:00:00 1997 Path: biosci!bloom-beacon.mit.edu!panix!howland.erols.net!news.maxwell.syr.edu!news.bc.net!news.sfu.ca!not-for-mail From: Nick Glover Newsgroups: bionet.software,bionet.molec-model Subject: MSI/BIOSYM USENET group.. Date: Thu, 07 Aug 1997 09:46:58 -0700 Organization: Simon Fraser University Lines: 17 Message-ID: <33E9FC02.2781@sfu.ca> NNTP-Posting-Host: gremlin.chem.sfu.ca Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01SGoldC-SGI (X11; I; IRIX 6.3 IP32) Xref: biosci bionet.software:19289 bionet.molec-model:1726 What interest in the community is there for a discussion group focused on the use and application of the MSI/Biosym range of applications, i.e. Discover/Homology/Quanta, etc. ? If there is sufficent response, perhaps steps could be taken to launch such a group. ---------- Nick Glover Department of Chemistry Simon Fraser University 8888 University Drive Burnaby, BC V5A 1S6 Canada From owner-software@net.bio.net Wed Aug 06 23:00:00 1997 Path: biosci!news.Stanford.EDU!su-news-hub1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!infeed1.internetmci.com!newsfeed.internetmci.com!newsfeeder.triton.net!news.triton.net!news From: 809@nlreg.com Newsgroups: bionet.software Subject: NLREG - Nonlinear & linear statistical regression program - 37 0807034651 IHL Date: Thu, 7 Aug 97 03:46:54 Organization: Nonlinear Regression Software Lines: 53 Message-ID: <5sc1s7$pi0@news.triton.net> NNTP-Posting-Host: 204.181.142.21 Mime-Version: 1.0 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: 8bit ** Announcing NLREG -- Nonlinear Statistical Regression Program ** http://www.sandh.com/sherrod/nlreg.html NLREG is a powerful statistical analysis program for Windows 95 and NT that performs linear and nonlinear regression analysis and curve fitting. NLREG determines the values of parameters for an equation, whose form you specify, that cause the equation to best fit a set of data values. NLREG can handle linear, polynomial, exponential, logistic, periodic, and general nonlinear functions. NLREG features a full programming language with a syntax similar to C for specifying the function that is to be fitted to the data. This allows you to compute intermediate work variables, use conditionals, and even iterate in loops. With NLREG it is easy to construct piecewise functions that change form over different domains. NLREG performs true nonlinear regression, it does not transform the function into a linear form. As a result, it can handle functions that are impossible to linearize such as: Y = Amplitude*SIN(Freq*X+Phase) + A*EXP(X); Another advantage of handing the function in true nonlinear form is that the minimization of the sum of squared residual values (i.e., "least squares") is based on the true nonlinear value rather than some linearized transformation. In addition to computing the optimal values of the parameters, NLREG can generate plots of the data points and the fitted equation. In addition, it can plot the distribution of residual values. In addition to performing classic nonlinear regression, NLREG can be used to find the root or minimum value of a general nonlinear function. It can also be used in a special form where the independent variable is omitted; an interesting application of this is "circular regression" where a circle is fitted to a set of data points. NLREG is in use at hundreds of universities, laboratories, and government agencies around the world (including the U.S. Navy, Harvard, and Duke). The price of NLREG is only $65 ($70 if outside the USA), which is far below the cost of comparable commercial regression programs. And you can download a shareware demonstration version of NLREG to try out before you decide to purchase it. To learn more about NLREG and download your free shareware version, visit the web site: http://www.sandh.com/sherrod/nlreg.html -- 37: bionet.software 0807034651 -- From owner-software@net.bio.net Wed Aug 06 23:00:00 1997 Path: biosci!agate!usenet.INS.CWRU.Edu!news.apk.net!uunet!in3.uu.net!128.230.129.112!news-spur1.maxwell.syr.edu!news.maxwell.syr.edu!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!baron.netcom.net.uk!netcom.net.uk!news-peer!btnet!btnet-feed1!skynet.be!news.belnet.be!surfnet.nl!rug.nl!not-for-mail From: "Rob Penninkhof" Newsgroups: bionet.software Subject: func. analysis DNA through bioinformatics Date: 7 Aug 1997 20:06:59 GMT Organization: RUG Lines: 3 Message-ID: <01bca36d$5f17f6a0$3d247d81@rob> NNTP-Posting-Host: client36-61.oprit.rug.nl X-Newsreader: Microsoft Internet News 4.70.1161 if you like to discuss this very hot area in biology look at: http://www.oprit.rug.nl/penninkhof From owner-software@net.bio.net Wed Aug 06 23:00:00 1997 Path: biosci!agate!usenet.INS.CWRU.Edu!vncnews!HSNX!newsfeed.direct.ca!europa.clark.net!4.1.16.34!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!baron.netcom.net.uk!netcom.net.uk!news-peer!btnet!btnet-feed1!skynet.be!news.belnet.be!surfnet.nl!rug.nl!not-for-mail From: "Rob Penninkhof" Newsgroups: bionet.software Subject: func. analysis DNA through bioinformatics Date: 7 Aug 1997 20:05:00 GMT Organization: RUG Lines: 5 Message-ID: <01bca36d$1826f3e0$3d247d81@rob> NNTP-Posting-Host: client36-61.oprit.rug.nl X-Newsreader: Microsoft Internet News 4.70.1161 if you like to discuss this hot area in biology look at: http://www.oprit.rug.nl/penninkhof From owner-software@net.bio.net Wed Aug 06 23:00:00 1997 Path: biosci!bloom-beacon.mit.edu!panix!howland.erols.net!news.maxwell.syr.edu!news.bc.net!news.sfu.ca!not-for-mail From: Nick Glover Newsgroups: bionet.software.x-plor,bionet.molec-model,bionet.software Subject: Peptide 'fishing' simulation Date: Thu, 07 Aug 1997 09:52:26 -0700 Organization: Simon Fraser University Lines: 20 Message-ID: <33E9FD4A.446B@sfu.ca> NNTP-Posting-Host: gremlin.chem.sfu.ca Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01SGoldC-SGI (X11; I; IRIX 6.3 IP32) Xref: biosci bionet.software.x-plor:1436 bionet.molec-model:1727 bionet.software:19290 Is anybody interested in helping me set up a peptide 'fishing' simulation using Xplor? My suggestion is to have Xplor generate a large library of peptides by sequential replacement of sequential amino acids, and then use the program, or some other methodology (DOCK?) to screen the library against the known coordinates of an enzyme in order to obtain - at the least - a profile of the peptides with higest affinty for the target. It sounds ambitious, but I'm sure that it could be done. ---------- Nick Glover Department of Chemistry Simon Fraser University 8888 University Drive Burnaby, BC V5A 1S6 Canada From owner-software@net.bio.net Thu Aug 07 23:00:00 1997 Path: biosci!daresbury!uninett.no!Norway.EU.net!EU.net!howland.erols.net!vixen.cso.uiuc.edu!uwm.edu!newsspool.doit.wisc.edu!news.itis.com!not-for-mail From: Petr Kuzmic Newsgroups: bionet.software Subject: Program DynaFit: BioInformer & MEDLINE links Date: Fri, 08 Aug 1997 09:27:27 -0500 Organization: BioKin Consulting Lines: 21 Message-ID: <33EB2CCF.2910F886@biokin.com> NNTP-Posting-Host: s12.itis.com Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 4.01 [en] (Win95; I) X-Priority: 3 (Normal) DYNAFIT Featured in BIOINFORMER --------------------------------------- Program DYNAFIT [P. Kuzmic (1996) Anal. Biochem. 237, 260-273] for the statistical analysis of biochemical data is featured in the Summer '97 issue of BIOINFORMER - A quarterly publication of the European Bioinformatics Institute: http://bioinformer.ebi.ac.uk/newsletter/ http://bioinformer.ebi.ac.uk/newsletter/archives/2/Dynafit.html MEDLINE Link ------------ MEDLINE (National Library of Medicine) contains an abstract referencing the original publication of DYNAFIT. To view the abstract, link your browser to http://www.ncbi.nlm.nih.gov/htbin-post/Entrez/query?uid=8660575&form=6&db=m&Dopt=r _____________________________________________________________ Petr Kuzmic Ph.D. * BioKin Ltd. * Madison, WI 53708-8336, USA pkuzmic@biokin.com * http://www.biokin.com * 608.256.1269 fax From owner-software@net.bio.net Thu Aug 07 23:00:00 1997 Path: biosci!OSAKA-PC.AC.JP!konaka From: konaka@OSAKA-PC.AC.JP (HARUO KONAKA) Newsgroups: bionet.software Subject: (=?iso-2022-jp?B?GyRCTDVCahsoSg==?=) Date: 8 Aug 1997 02:56:55 -0700 Organization: Polytech College Osaka Lines: 3 Sender: daemon@net.bio.net Distribution: world Message-ID: <33EBCED7.569E@osaka-pc.ac.jp> NNTP-Posting-Host: net.bio.net help form:konaka@osaka-pc.ac.jp From owner-software@net.bio.net Thu Aug 07 23:00:00 1997 Newsgroups: bionet.software Path: biosci!bloom-beacon.mit.edu!spool.mu.edu!uwm.edu!vixen.cso.uiuc.edu!ais.net!newsfeed.direct.ca!torn!utnut!info.ecf!yuwaraj From: yuwaraj@ecf.toronto.edu (Murugathas Yuwaraj) Subject: Request: advice on software tools in demand Sender: news@ecf.toronto.edu (News Administrator) Message-ID: Date: Fri, 8 Aug 1997 15:23:06 GMT X-Nntp-Posting-Host: spark15.ecf Organization: University of Toronto, Engineering Computing Facility Lines: 29 Please note that I am posting this on behalf of a friend of mine. Kindly direct responses either to the news group or to the address indicated below. Thank you. I recently received my Masters degree in Molecular Biology from University of Toronto. I am interested in familiarizing myself with some commonly used Molecular biology software tools. I intend to learn some of these tools so that I can be a viable candidate for research positions in biotech/bioinformatics firms. Could you kindly suggest a list of some of these tools and their utility? Please note that I am well versed in MSWindows and UNIX, so the operating system is not an issue. I would also appreciate if you could list some Institutions that would offer training in these tools (or Web pages with on-line tutorial). To aid you further in your suggestions, I list below some of my technical skills. Molecular Biology Techniques: PCR, DNA sequencing, expression cDNA library screening, tissue culture, Western/Northern/Southern blotting, immunoprecipitation, in situ hybridization, monoclonal antibody production and purification, and immunohistochemistry. Computer Skills: Windows NT, Windows95, User level UNIX, MSWord, Excel and PowerPoint. Thank you kindly, Subo Pera (subodini.perampalam@utoronto.ca) From owner-software@net.bio.net Fri Aug 08 23:00:00 1997 Path: biosci!agate!howland.erols.net!news.maxwell.syr.edu!dispatch.news.demon.net!demon!zetnet.co.uk!not-for-mail From: JGW Computing Newsgroups: bionet.software Subject: Re: Liquid Nitrogen freezer contents software Date: Sat, 9 Aug 1997 10:13:57 +0100 Message-ID: <1997080910135771355@zetnet.co.uk> References: <33D72398.546D@picr.cr.man.ac.uk> NNTP-Posting-Host: besses.zetnet.co.uk X-Mailer: ZIMACS Version 1.10c 10002114 Lines: 76 In message <33D72398.546D@picr.cr.man.ac.uk> Steve Roberts writes: > We have a number of freezers from several suppliers storing cell lines > and tissue/blood samples . Currently we use either paper records or a > rather inadequate home-brew database to store details of what is in > there. As the Vax which hosts the database is going in a few months we > need a replacement system. We are reluctant to spend time porting the > existing application! > Can anyone point us towards any alternative ready-made packages - we > will even consider things we have to pay for. What do other labs use > these days? (When we asked this question a few years ago the answer we > failed to find anything suitable). Our requirements are fairly simple - > freezers are either rod/cane or box based, we need to be able to log > samples in and out, move samples around and find samples by whatever the > user decided to call them! > Any suggestions or pointers gratefully received. Our news feed is a > little dodgy at the moment so Email would be appreciated. > Steve. > bmcsar@picr.cr.man.ac.uk Hi, I've recently written a program which keeps a record of where samples are kept in racks in a fridge. I wrote this because in our medical laboratory we wasted absolutely ages sorting samples into order, and even then some disappeared into a "black hole". We receive more than 500 samples a day, and we keep them for 1 week. The idea is that you choose a rack, enter a sample number, then store the sample in the alloted place in your rack. The program instantly searches for duplicate entries and warns you if another sample with the same number is already on the system. It also has a trap for numbers outside a set range, e.g. between 10,000 and 500,000. The sample number can be entered either by a barcode reader or from the keyboard. When you want to find the sample, you can enter your sample number and the program tells you in which rack(s) and what position(s) the sample is. Duplicate samples in different racks are allowed for. When the samples are discarded, the program allows you to delete the record(s) from the database. You can define the name of your rack, which can be up to 100 holes in size. Currently the program only accepts numbers to identify the sample, although the racks can be identified in any way you want - we've labelled ours "Monday 1, Monday 2, Tuesday 1" etc. Extra options allow you to backup and restore the database to/from floppy disc. The program is written in a DOS-based database language (Clipper), so it's quick and should run on most PC's. We use it on a 10 year old IBM 386 16 MHz with 640 k memory and a 20 Mb HD, with a bar-code reader attached to a serial port (COM1). My staff think it's ace! If this is the sort of thing you're looking for, please reply to: jgw.computing@zetnet.co.uk I've got a web-site from where you can down-load a demo and a restricted working version of another program I've developed, which stores and analyses Quality Control samples. This could give you a taste of my style of programs. My web-site is: http://www.users.zetnet.co.uk/jgw.computing Regards, Garth Williams, Worcester. From owner-software@net.bio.net Fri Aug 08 23:00:00 1997 Path: biosci!daresbury!server5.netnews.ja.net!server3.netnews.ja.net!baron.netcom.net.uk!netcom.net.uk!dispatch.news.demon.net!demon!cam-news-hub1.bbnplanet.com!news.bbnplanet.com!news-xfer.netaxs.com!iagnet.net!199.242.16.13!news4.ixa.net!ixa.net!news.nwlink.com!not-for-mail From: solarust@nwlink.com Newsgroups: alt.image.medical,bionet.software,comp.graphics.visualization Subject: Need to Scan Dental X-Rays Date: Fri, 08 Aug 1997 23:21:25 -0700 Organization: Northwest Link Message-ID: <33EC0C65.52ED@nwlink.com> NNTP-Posting-Host: ip165.m7.nwlink.com Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 2.02Gold (Win95; I) Lines: 8 Need to Scan Dental X-Rays I have to find out what is required to scan dental x-rays. I have a class II scanner, but it doesn't have the necessary resolution, etc. Please advise, Rodney solarust@nwlink.com From owner-software@net.bio.net Fri Aug 08 23:00:00 1997 Date: 7 Aug 1997 14:00:18 +0300 Path: biosci!agate!hammer.uoregon.edu!news.oru.edu!news-spur1.maxwell.syr.edu!news.maxwell.syr.edu!infeed2.internetmci.com!newsfeed.internetmci.com!in3.uu.net!206.67.134.2!hst1us.satlink.com!satlink!ul3.satlink.com!giga.com.ar!lilio Newsgroups: bionet.software From: lilio@giga.com.ar (Lilio) Message-ID: <8709768189102@bbs.giga.com.ar> Organization: Giga System - Buenos Aires, Argentina Subject: VIDEO PHONE Lines: 16 I bought a Quick Cam and downloaded Video Phone because I was told to do so. I tried to establish a connection in internet (video-conferencing) and couldn't do it. Once I got connected with someone called Peggy but I couldn't either talk to her or listen to her. Could you explain me how to handle this! IMPORTANT: DO NOT REPLY TO THE FORUM. MAKE IT PERSONAL OR PRIVATE TO MY ADDRESS OTHERWISE I WILL NOT BE ABLE TO READ IT. THANK YOU VERY MUCH -- ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ GIGA SYSTEM BBS | Telnet: giga.com.ar (login: new) BUENOS AIRES - ARGENTINA | http://www.giga.com.ar From owner-software@net.bio.net Sat Aug 09 23:00:00 1997 Path: biosci!news.Stanford.EDU!su-news-hub1.bbnplanet.com!news.bbnplanet.com!iagnet.net!199.222.50.6!newsjunkie.ans.net!newsfeeds.ans.net!dahlia.singnet.com.sg!columbine.singnet.com.sg!not-for-mail From: "Rawn" Newsgroups: bionet.software Subject: Rightwriter Date: 10 Aug 1997 13:42:20 GMT Organization: Singapore Telecommunications Ltd Lines: 6 Message-ID: <01bca592$c9d4b560$419c15a5@phantom.sp.ac.sg> NNTP-Posting-Host: ts900-5113.singnet.com.sg X-Newsreader: Microsoft Internet News 4.70.1160 Im desperatly looking for a program called the rightwriter. Can someone post a copy for me. I need it to do some technical writing project. Thanks From owner-software@net.bio.net Sun Aug 10 23:00:00 1997 Path: biosci!agate!newsfeed.kornet.nm.kr!howland.erols.net!netnews.com!news2.euro.net!news.euro.net!usenet From: "Nico" Newsgroups: bionet.software Subject: modem Date: 11 Aug 1997 17:41:15 GMT Organization: EuroNet Internet Lines: 4 Message-ID: <01bca67d$8db36b80$ce0786c2@default> NNTP-Posting-Host: breda06.pstn129.concepts.nl X-Newsreader: Microsoft Internet News 4.70.1161 ik heb een modeem (Best28.8) dat perfekt werkt, alleen moet ik de pc 2 of 3 maal opstarten voordat ie het doet, waar kan dat aan liggen? Nico Danebroek From owner-software@net.bio.net Sun Aug 10 23:00:00 1997 Path: biosci!NCBI.NLM.NIH.GOV!francis From: francis@NCBI.NLM.NIH.GOV Newsgroups: bionet.software Subject: Re: Database of journal abbreviations? Date: 11 Aug 1997 11:40:21 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 25 Sender: daemon@net.bio.net Distribution: world Message-ID: <199708111839.OAA22957@borduas.nlm.nih.gov> NNTP-Posting-Host: net.bio.net > From marty@ionchannel.med.harvard.edu Mon Aug 11 13:51:12 1997 > > Does anyone know of a database that contains the correct journal title > abbreviations? Hopefully, it would include relatively obscure journal Martin, We have 9308 journal in PubMed. have a look at: http://www.ncbi.nlm.nih.gov/PubMed/jbrowser.html It will have the ones you need. cheers, f. -- | B.F. Francis Ouellette | GenBank Coordinator | | francis@ncbi.nlm.nih.gov From owner-software@net.bio.net Sun Aug 10 23:00:00 1997 Path: biosci!daresbury!uninett.no!news-feed.inet.tele.dk!europa.clark.net!205.252.116.205!howland.erols.net!news.starnet.net!news.starnet.net!newsreader.wustl.edu!NewsWatcher!user From: marty@ionchannel.med.harvard.edu (Martin J. Gallagher) Newsgroups: bionet.software Subject: Medline Search Scripts Date: Mon, 11 Aug 1997 12:40:24 -0500 Organization: Dept. of Neurobiology, Harvard Medical School Lines: 28 Message-ID: NNTP-Posting-Host: 128.252.84.170 Hello, I have a years worth of journal articles that I need to enter into my bibliography program. I would like to avoid typing all this information. Is there a way to make a script to search medline in batch to do this tedious job for me? Could I (for instance) make a list of first authors and publication years and get back a list with complete author lists, artilce titles, journal titles, etc.? Searching Medline for each artlcle one by one (using OVID) would probably take as long as typing in each artilce's information individually, but an automated script would certainly make it worthwhile. I have access to PC, Mac, and UNIX systems with full internet connections. Thanks, Martin Gallagher -- Martin J. Gallagher Washington University M.D./Ph.D. Program gallaghm@medicine.wustl.edu http://medicine.wustl.edu/~gallaghm ===================================================================== Finger, or WWW for PGP Public Key ===================================================================== -- When I feed the poor, they call me saint. When I ask why the poors do not have food, they call me communist - Archbishop Camaran From owner-software@net.bio.net Sun Aug 10 23:00:00 1997 Path: biosci!daresbury!uninett.no!Norway.EU.net!EU.net!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!howland.erols.net!news.starnet.net!news.starnet.net!newsreader.wustl.edu!NewsWatcher!user From: marty@ionchannel.med.harvard.edu (Martin J. Gallagher) Newsgroups: bionet.software Subject: Database of journal abbreviations? Date: Mon, 11 Aug 1997 12:41:39 -0500 Organization: Dept. of Neurobiology, Harvard Medical School Lines: 21 Message-ID: NNTP-Posting-Host: 128.252.84.170 Hello, Does anyone know of a database that contains the correct journal title abbreviations? Hopefully, it would include relatively obscure journal titles. Thanks, Martin Gallagher -- Martin J. Gallagher Washington University M.D./Ph.D. Program gallaghm@medicine.wustl.edu http://medicine.wustl.edu/~gallaghm ===================================================================== Finger, or WWW for PGP Public Key ===================================================================== -- When I feed the poor, they call me saint. When I ask why the poors do not have food, they call me communist - Archbishop Camaran From owner-software@net.bio.net Sun Aug 10 23:00:00 1997 Path: biosci!bloom-beacon.mit.edu!news.starnet.net!news.starnet.net!spool.mu.edu!uwm.edu!iagnet.net!newsfeed.direct.ca!news-sea-19.sprintlink.net!news-in-west.sprintlink.net!news.sprintlink.net!Sprint!192.83.166.5!news.edu.tw!news.nctu.edu.tw!news.cis.nctu.edu.tw!not-for-mail From: "djr" Newsgroups: bionet.software Subject: Why empty Date: 11 Aug 1997 01:54:15 GMT Organization: Dept. of Computer & Information Science, NCTU, Taiwan Lines: 1 Message-ID: <01bca42e$00235e20$5a65878c@DJR.be.cycu.edu.tw> NNTP-Posting-Host: @140.135.101.90 X-Newsreader: Microsoft Internet News 4.70.1155 Why empty? From owner-software@net.bio.net Sun Aug 10 23:00:00 1997 Path: biosci!agate!newsfeed.kornet.nm.kr!newsfeed.dacom.co.kr!europa.clark.net!204.215.84.101!news.fred.net!usenet From: sidorenk@mip.net Newsgroups: bionet.software Subject: Oligobase 1.1 is available Date: Mon, 11 Aug 1997 19:17:07 GMT Organization: FredNet - Frederick, Md. Lines: 14 Message-ID: <33ef63f2.14569460@news.fred.net> NNTP-Posting-Host: ppp-98.mip.net X-Trace: news.fred.net 871340701 402 120 205.252.194.102 X-Complaints-To: abuse@fred.net X-Newsreader: Forte Free Agent 1.11/16.235 Oligobase 1.1 is a shareware database program for Windows designed to organize and catalog oligonucleotides collection of a biological laboratory. It allows to store information about oligonucleotides, select subsets of available oligonucleotides according to user specified criteria, print out order forms, calculate molecular weight and melting temperature, manipulate with oligonucleotide sequences and return them back to the database. To download the program visit Oligobase homepage at http://lochnet.com/oligobase Oligobase Homepage From owner-software@net.bio.net Sun Aug 10 23:00:00 1997 Path: biosci!daresbury!uninett.no!news-feed.inet.tele.dk!news.maxwell.syr.edu!supernews.com!Supernews69!not-for-mail From: barbara@nospam.cybernw.com (Barbara ) Newsgroups: bionet.software,bit.databases.mssql-l,biz.comp.software,biz.comp.software.demos,bnr.software-eng,comp.graphics.animation,comp.graphics.api.inventor Subject: Shareware Registration Site Date: Sun, 10 Aug 1997 20:37:35 GMT Organization: All USENET -- http://www.Supernews.com Lines: 16 Message-ID: <33ed5e7c.127291575@news.cybernw.com> NNTP-Posting-Host: 25001@205.147.78.111 X-Newsreader: Forte Free Agent 1.11/32.235 Excellent Shareware Registration Site If you have created shareware programs or components you may want to visit this site: http://www.evergreen-networks.com/register . From owner-software@net.bio.net Mon Aug 11 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!europa.clark.net!128.230.129.106!news.maxwell.syr.edu!peer.news.nildram.co.uk!Aladdin!aladdin.net!ns2.aladdin.net!RMplc!rmplc.co.uk!yama.mcc.ac.uk!news.york.ac.uk!not-for-mail From: Alex Knight Newsgroups: bionet.software Subject: Re: Database of journal abbreviations? Date: Tue, 12 Aug 1997 16:40:44 -0700 Organization: University of York Lines: 42 Sender: aek4@york.ac.uk Message-ID: <33F0F47C.F930E8F8@york.ac.uk> References: Reply-To: aek4@york.ac.uk NNTP-Posting-Host: biolpc229.york.ac.uk Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 4.01 [en] (Win16; I) X-Priority: 3 (Normal) Martin J. Gallagher wrote: > > Hello, > > Does anyone know of a database that contains the correct journal > title > abbreviations? Hopefully, it would include relatively obscure journal > titles. Here are a few sources: The following URLs (the first a search engine, the second a text file) list all the journals in Medline and their abbreviations. http://www.ncbi.nlm.nih.gov/PubMed/jbrowser.html ftp://ncbi.nlm.nih.gov/pubmed/jrdbdump.txt.Z All journals referenced in Swissprot/ProSite: http://expasy.hcuge.ch/cgi-bin/jourlist?jourlist.txt You could also try: http://biochem.arach-net.com/beasley/journals.html http://mgd.cordley.orst.edu/useful_tools/abbrev.html These are just things I have found while trawling around on the net. The Medline list should find almost every biology related journal. Anyone know of any other sources? Alex -- Alex Knight (aek4@york.ac.uk) Biology Department University of York Heslington, York Y01 5DD +44 1904 434381 +44 1904 432829 +44 1904 432860 (FAX) Coiled coil prediction web page: http://www.york.ac.uk/depts/biol/web/coils/coilcoil.html http://www.wi.mit.edu/matsudaira/coilcoil.html From owner-software@net.bio.net Mon Aug 11 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!europa.clark.net!128.223.220.30!logbridge.uoregon.edu!enews.sgi.com!news.sgi.com!news.tamu.edu!not-for-mail From: "Scott Peterson" Newsgroups: bionet.software,bionet.molec-model Subject: Re: MSI/BIOSYM USENET group.. Date: Tue, 12 Aug 1997 09:02:13 -0500 Organization: Texas A&M University, College Station, Texas Lines: 19 Message-ID: <5spqd9$1kv$1@news.tamu.edu> References: <33E9FC02.2781@sfu.ca> NNTP-Posting-Host: jkelly4.chem.tamu.edu NNTP-Posting-Date: 12 Aug 1997 14:02:17 GMT X-Newsreader: Microsoft Outlook Express 4.71.0544.0 X-MimeOLE: Produced By Microsoft MimeOLE Engine V4.71.0544.0 Xref: biosci bionet.software:19314 bionet.molec-model:1735 Nick Glover wrote in article <33E9FC02.2781@sfu.ca>... >What interest in the community is there for a discussion group focused >on the use and application of the MSI/Biosym range of applications, i.e. >Discover/Homology/Quanta, etc. ? > >If there is sufficent response, perhaps steps could be taken to launch >such a group. > I would be interested in such a group. Scott Peterson Scripps Research Institute La Jolla, CA peterson@scripps.edu peterson@chemvx.tamu.edu From owner-software@net.bio.net Mon Aug 11 23:00:00 1997 Path: biosci!bloom-beacon.mit.edu!panix!howland.erols.net!europa.clark.net!204.215.84.101!news.fred.net!usenet From: sidorenk@mip.net Newsgroups: bionet.software Subject: Oligobase 1.1 - address correction Date: Tue, 12 Aug 1997 11:12:14 GMT Organization: FredNet - Frederick, Md. Lines: 4 Message-ID: <33f044ec.459502@news.fred.net> NNTP-Posting-Host: ppp-98.mip.net X-Trace: news.fred.net 871389831 3450 (None) 205.252.194.102 X-Complaints-To: abuse@fred.net X-Newsreader: Forte Free Agent 1.11/16.235 It should be http://lochfort.com/oligobase/ From owner-software@net.bio.net Mon Aug 11 23:00:00 1997 From: Bo Pontoppidan Newsgroups: bionet.software Subject: Re: intron - splice junctions Date: Fri, 08 Aug 1997 16:11:22 -0700 Organization: Uppsala Genetic Center Lines: 16 Message-ID: <33EBA79A.11FA@cellfo.slu.se> References: <870792844.10383@dejanews.com> Reply-To: bo.pontoppidan@cellfo.slu.se NNTP-Posting-Host: cfo-29.cellfo.slu.se Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01Gold (Win16; I) Path: biosci!agate!howland.erols.net!infeed1.internetmci.com!newsfeed.internetmci.com!news1.best.com!uninett.no!newsfeed.sunet.se!news99.sunet.se!news99.sunet.se!newsfeed.uu.se!populus.slu.se!newsmgr As far as I know NetPlantGene http://genome.cbs.dtu.dk/services/NetPGene/ is your best shot. It may be trained on arabidopsis sequences, but will probably do quite well on other plants. Bo -- Bo Pontoppidan Phone: (+46) 018 67 33 24 Uppsala Genetic Center Fax: (+46) 018 67 32 79 Dept. of Cell Research Home Phone: (+46) 018 69 28 38 Swedish University of Agricultural Sciences, Box 7055, S-750 07 Uppsala, Sweden E-mail: bo.pontoppidan@cellfo.slu.se From owner-software@net.bio.net Mon Aug 11 23:00:00 1997 Path: biosci!bloom-beacon.mit.edu!panix!howland.erols.net!news-ext.gatech.edu!gatech!nntp-xfer.ncsu.edu!not-for-mail From: Susan Hogarth Newsgroups: bionet.software Subject: Primer design Date: Tue, 12 Aug 1997 16:55:42 -0400 Organization: North Carolina State University Lines: 10 Message-ID: <33F0CDCE.5C5B@unity.ncsu.edu> NNTP-Posting-Host: sparc5b-2203gardnr.ppath.ncsu.edu Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0 (X11; I; SunOS 5.4 sun4m) I'm looking for software (free- or share-), dos/win95, UNIX, or WWW, which will take a (oligo)peptide sequence input and give back a primer sequence. -- Susan In a perfect world, all roads would be smooth black asphalt and all parking lots would be smooth white concrete. http://www4.ncsu.edu/unity/users/s/sjhogart/public/home.html From owner-software@net.bio.net Mon Aug 11 23:00:00 1997 Path: biosci!hina.hr!Pavle.Spoljaric From: Pavle.Spoljaric@hina.hr (Pavle Spoljaric) Newsgroups: bionet.software Subject: Up an runing ! Date: 12 Aug 1997 01:58:12 -0700 Organization: HINA Lines: 19 Sender: daemon@net.bio.net Distribution: world Message-ID: <33F01E21.D0751550@hina.hr> References: NNTP-Posting-Host: net.bio.net HI! PAVLE'S OFFICIAL HOME PAGE IS AGAIN UP AND RUNNING. WISIT US AT: http://www.hina.hr:8080/~spavle/index.html Sincerely, _________________________________________________________________ | / | | Pavle.Spoljaric@hina.hr / FAST_PAVLE | |_______________________________/ System engineer & Programmer | | | | MIRACLES REQUIRE TRUE COMMITMENT - | | | | THEY NEVER HAPPEN BY ACCIDENT ! | | ___________________________________________| | / | | C, C++, JAVA / http://www.hina.hr:8080/~spavle/index.html | |___________________/_____________________________________________| From owner-software@net.bio.net Tue Aug 12 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!europa.clark.net!205.252.116.205!howland.erols.net!infeed2.internetmci.com!newsfeed.internetmci.com!portc03.blue.aol.com!newstf02.news.aol.com!audrey02.news.aol.com!not-for-mail From: therobeys@aol.com (TheRobeys) Newsgroups: bionet.software Subject: zip conversion Date: 13 Aug 1997 01:11:26 GMT Lines: 5 Message-ID: <19970813011101.VAA20834@ladder02.news.aol.com> NNTP-Posting-Host: ladder02.news.aol.com X-Admin: news@aol.com Organization: AOL http://www.aol.com are there any utilities for converting zip files created by a newer version of pkzip to zip files created by an older version? If there, are where can i get them? e-mail me, or reply to this newsgroup. Thank You, Mob6 From owner-software@net.bio.net Tue Aug 12 23:00:00 1997 Path: biosci!pb.seflin.org!p040835b From: p040835b@pb.seflin.org (Marina Salzano) Newsgroups: bionet.software Subject: Music from 1970 to 1990's-all styles. Date: 12 Aug 1997 20:43:19 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 9 Sender: daemon@net.bio.net Distribution: world Message-ID: References: <33F01E21.D0751550@hina.hr> NNTP-Posting-Host: net.bio.net Anyone interested in records from this period-all styles. I have a 12" singles list and lp's list. I collect 12" singles. Willing to sell/trade for what I want. Marina Salzano p040835b@pb.seflin.org From owner-software@net.bio.net Tue Aug 12 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!europa.clark.net!205.252.116.205!howland.erols.net!infeed2.internetmci.com!newsfeed.internetmci.com!192.220.251.22!netnews.nwnet.net!news.u.washington.edu!saul2.u.washington.edu!pearton From: pearton@saul2.u.washington.edu (D. Pearton) Newsgroups: bionet.molbio.methds-reagnts,bionet.software Subject: Bipartite NLS prediction Date: 13 Aug 1997 19:10:03 GMT Organization: University of Washington Lines: 25 Message-ID: <5st0qb$fli@nntp3.u.washington.edu> NNTP-Posting-Host: saul2.u.washington.edu NNTP-Posting-User: pearton X-Newsreader: TIN [version 1.2 PL2] Xref: biosci bionet.molbio.methds-reagnts:60396 bionet.software:19327 Hi all, I'd like to test a few sequences for the presence of a bipartite Nuclear Loclaisation sequence. Unfortunately the two pages on the web that used to do this (http://www.bio.cam.ac.uk/~cyk10/ and http://cy-mac.welc.cam.ac.uk) are no longer running, it appears. Could anyone point me to a resource that would do this? I'm not particularly interested in other types of NLS. A good reference would also be appreciated. Thanks, -- Dave Pearton pearton@u.washington.edu +++++++++++++++++++++++++++++++++++++++++++++++++++++++++ Down he sank in a chair-ran his hands through his hair- + And chanted in mimsiest tones + Words whose utter inanity proved his insanity, + While he rattled a couple of bones. + + "The Hunting of the Snark" Lewis Carroll + +++++++++++++++++++++++++++++++++++++++++++++++++++++++++ From owner-software@net.bio.net Tue Aug 12 23:00:00 1997 Path: biosci!daresbury!uninett.no!Norway.EU.net!EU.net!howland.erols.net!newsfeed.nacamar.de!news-kar1.dfn.de!news-stu1.dfn.de!news-mue1.dfn.de!news-nue1.dfn.de!uni-erlangen.de!lrz-muenchen.de!not-for-mail From: Rainer Gratias Newsgroups: bionet.software,bionet.molec-model Subject: Re: MSI/BIOSYM USENET group.. Date: Wed, 13 Aug 1997 12:46:25 +0200 Organization: TU Muenchen Lines: 42 Distribution: world Message-ID: <33F19081.4D9FED77@artus.org.chemie.tu-muenchen.de> References: <33E9FC02.2781@sfu.ca> NNTP-Posting-Host: artus.org.chemie.tu-muenchen.de Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 4.02 [en] (X11; I; IRIX 6.2 IP22) Xref: biosci bionet.software:19322 bionet.molec-model:1739 Nick Glover wrote: > What interest in the community is there for a discussion group focused > on the use and application of the MSI/Biosym range of applications, i.e. > Discover/Homology/Quanta, etc. ? > > If there is sufficent response, perhaps steps could be taken to launch > such a group. > > ---------- > > Nick Glover > Department of Chemistry > Simon Fraser University > 8888 University Drive > Burnaby, BC > V5A 1S6 > Canada I think it would be a good idea to launch such group. Also there is a very good list of FAQ's on the MSI homepage and the response centre makes a good job, I suppose the user community has also a lot of good hints. Bye, Rainer Gratias. ********************************************************************** Technische Universitaet Muenchen Institut fuer Organische Chemie und Biochemie Lehrstuhl fuer Organische Chemie II Rainer Gratias Lichtenbergstr. 4 D-85747 Garching Tel : ++49 +89 289-13324 FAX : ++49 +89 289-13210 e-mail: rg@artus.org.chemie.tu-muenchen.de ********************************************************************** From owner-software@net.bio.net Tue Aug 12 23:00:00 1997 Path: biosci!agate!newsfeed.kornet.nm.kr!news.maxwell.syr.edu!infeed2.internetmci.com!newsfeed.internetmci.com!nntp.info.ucla.edu!ihnp4.ucsd.edu!news1.ucsd.edu!not-for-mail From: rcaspi@popmail.ucsd.edu (Ron Caspi) Newsgroups: bionet.software Subject: Re: Oligobase 1.1 is available Date: Wed, 13 Aug 1997 00:45:05 GMT Organization: UCSD Lines: 20 Message-ID: <33f10370.952676231@news.ucsd.edu> References: <33ef63f2.14569460@news.fred.net> Reply-To: rcaspi@ucsd.edu NNTP-Posting-Host: helinski-203-156.ucsd.edu Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Newsreader: Forte Agent 1.5/32.451 http://lochnet.com/oligobase does not work... sidorenk@mip.net wrote: : :Oligobase 1.1 is a shareware database program for Windows designed to :organize and catalog oligonucleotides collection of a biological :laboratory. It allows to store information about oligonucleotides, :select subsets of available oligonucleotides according to user :specified criteria, print out order forms, calculate molecular weight :and melting temperature, manipulate with oligonucleotide sequences and :return them back to the database. : :To download the program visit Oligobase homepage at :http://lochnet.com/oligobase :Oligobase Homepage : From owner-software@net.bio.net Tue Aug 12 23:00:00 1997 Path: biosci!news.Stanford.EDU!su-news-hub1.bbnplanet.com!news.bbnplanet.com!newsfeed.direct.ca!infeed1.internetmci.com!newsfeed.internetmci.com!199.1.48.12!newsfeed.usit.net!news.usit.net!not-for-mail From: tdruen@usit.net (Todd Druen) Newsgroups: bionet.software Subject: Rookie High School Ecology Teacher Needs Help!!! Date: Wed, 13 Aug 1997 21:04:03 GMT Organization: United States Internet, Inc. Lines: 13 Message-ID: <33f4212c.16680285@news.usit.net> NNTP-Posting-Host: 205.241.222.21 Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Newsreader: Forte Agent .99g/32.339 I am looking for info in my content area. I teach 5 sections of Junior level Ecology. I know that the materials are out there but I do not know the procedure in obtaining them. I have heard that companies and corporations have videos that they loan out or give to teachers for use in their classroom, I just do not know how to get them. I am looking for any ideas, pamphlets, brochures, transparencies, or videos. I would appreciate any help that you can offer. Thank you. Todd Druen tdruen@usit.net From owner-software@net.bio.net Wed Aug 13 23:00:00 1997 Path: biosci!daresbury!is.bbsrc.ac.uk!news From: Nathalie Castells-Brooke Newsgroups: bionet.software Subject: Re: Primer design Date: Thu, 14 Aug 1997 09:28:45 +0100 Organization: IACR Rothamsted Lines: 26 Message-ID: <33F2C1BD.1DED@res.bbsrc.ac.uk> References: <33F0CDCE.5C5B@unity.ncsu.edu> <33F1FB55.245@psl.nmsu.edu> Reply-To: nathalie.castells@bbsrc.ac.uk NNTP-Posting-Host: pc1025.res.bbsrc.ac.uk Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0Gold (Win95; I) Donald D. Bustamante wrote: > > Susan Hogarth wrote: > > > > I'm looking for software (free- or share-), dos/win95, UNIX, or WWW, > > which will take a (oligo)peptide sequence input and give back a primer > > sequence. SNIP ... > > Visit our site at > > http://www.nbif.org/software.html for a list of software > The actual URL is http://www.nbif.org/software/software.html cheers... -- Dr Nathalie Castells-Brooke I hear and I forget Bioinformatic Department I see and I remember IACR Rothamsted I do and I understand Harpenden, Herts, AL5 2JQ Confucius From owner-software@net.bio.net Wed Aug 13 23:00:00 1997 Path: biosci!kyowa.co.jp!snakagawa From: snakagawa@kyowa.co.jp ("Satoshi Nakagawa") Newsgroups: bionet.software Subject: FastAlert Date: 13 Aug 1997 22:24:46 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 12 Sender: daemon@net.bio.net Distribution: world Message-ID: <9708140526.AA03208@mail.kyowa.co.jp> NNTP-Posting-Host: net.bio.net FastAlert CABIOS, vol12, 129-133 (1996) ----------------------------------------- SATOSHI NAKAGAWA, Ph.D. snakagawa@kyowa.co.jp KYOWA HAKKO KOGYO CO., LTD. Tokyo Research Labs. 3-6-6 Asahimachi Machidashi Tokyo Japan TEL: 81-427-25-2555 FAX: 81-427-26-8330 ----------------------------------------- From owner-software@net.bio.net Wed Aug 13 23:00:00 1997 Path: biosci!bloom-beacon.mit.edu!howland.erols.net!psinntp!pubxfer.news.psi.net!cmate From: cmate@hotmail.com Newsgroups: biz.comp.software.demos,comp.publish.cdrom.software,ott.business.ads,comp.software,alt.business,chinese.comp.software,biz.comp.telebit,torfree.fccs.news.business,pa.smallbusiness,bionet.software,us.sc.charleston.business Subject: Business Software Solutions - http://www.eesco.com/ Date: Thu, 14 Aug 1997 09:13:46 -0500 Organization: PSINet Lines: 9 Message-ID: NNTP-Posting-Host: 38.244.114.101 Mime-Version: 1.0 Content-Type: text/plain; charset=ISO-8859-1 Content-Transfer-Encoding: 8bit X-Newsreader: Yet Another NewsWatcher 2.4.0 http://www.eesco.com/ http://www.eesco.com/ http://www.eesco.com/ Business software for Macintosh and Windows! http://www.eesco.com/ http://www.eesco.com/ http://www.eesco.com/ From owner-software@net.bio.net Wed Aug 13 23:00:00 1997 Path: biosci!agate!overload.lbl.gov!marlin.ucsf.edu!logbridge.uoregon.edu!su-news-hub1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!baron.netcom.net.uk!netcom.net.uk!server3.netnews.ja.net!willow.cc.kcl.ac.uk!mail3.kcl.ac.uk!zjda0375 From: ANDREA MORIONDO Newsgroups: bionet.software Subject: Hidden Markov Model Software Date: Thu, 14 Aug 1997 13:11:59 +0100 Organization: King's College London Lines: 9 Message-ID: NNTP-Posting-Host: mail3.kcl.ac.uk Mime-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII Hello, Does anyone know of an analisys software mainly for single-channel that is based on hidden Markov model? Thanks, Andrea Moriondo Physiology Group King's College London From owner-software@net.bio.net Wed Aug 13 23:00:00 1997 Path: biosci!agate!usenet.INS.CWRU.Edu!vncnews!HSNX.wco.com!newsfeed.dacom.co.kr!news.maxwell.syr.edu!infeed2.internetmci.com!newsfeed.internetmci.com!130.132.143.65!news.ycc.yale.edu!not-for-mail From: Paul DiBello Newsgroups: bionet.software Subject: Alignment Similarity Date: Thu, 14 Aug 1997 17:26:12 -0500 Organization: Yale University Lines: 8 Message-ID: <33F385E3.ED828DBB@yale.edu> Reply-To: Paul.DiBello@yale.edu NNTP-Posting-Host: 130.132.227.243 Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii; x-mac-type="54455854"; x-mac-creator="4D4F5353" Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 4.01 (Macintosh; I; PPC) X-Priority: 3 (Normal) Hi, I am looking for some way to construct a matrix of similarity between protein sequences in a multiple alignment. I would like to express the similarity as percent identical residues. Is there any software out there that will do this? Thanks. -Paul From owner-software@net.bio.net Wed Aug 13 23:00:00 1997 Path: biosci!news.Stanford.EDU!su-news-hub1.bbnplanet.com!news.bbnplanet.com!newsfeed.direct.ca!infeed1.internetmci.com!newsfeed.internetmci.com!164.67.42.145!nntp.info.ucla.edu!ihnp4.ucsd.edu!news1.ucsd.edu!not-for-mail From: "Joseph J. Strout" Newsgroups: bionet.software Subject: [ANN] MacVol 1.3 (free volume renderer) Date: Thu, 14 Aug 1997 09:32:27 -0800 Organization: UCSD Lines: 32 Message-ID: <33F34129.5014@ucsd.edu> Reply-To: jstrout@ucsd.edu NNTP-Posting-Host: mmills.extern.ucsd.edu Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01 (Macintosh; I; PPC) I am pleased to announce the release of MacVol v1.3, a freeware volume-rending application for MacOS. MacVol takes a three-dimensional data set (as might be generated by microscopy, MRI, simulation, etc.) and generates a view of this data from any angle, with complete control over lighting, material properties, and so on. It is fully Applescriptable, and includes two sample scripts for generating stereo pairs and rotation series. MacVol's primary advantage over other rendering programs is speed; on our data, it is typically 10-50 times faster than commercial rendering software costing hundreds of dollars. Speed is important because to get the best view of your data, you often go through many iterations of angle, lighting, etc. Version 1.3 of MacVol adds an important feature: you can now scale your dataset in the Z dimension. In previous versions of MacVol, the voxels had to be the same width, height, and depth. But many scientific datasets -- e.g., those taken by confocal microscopy -- have a Z-spacing much greater than the X and Y pixel size. Such datasets can now be properly rendered by MacVol. MacVol is based on VolPack, a public-domain rendering library originally written for Unix. MacVol requires a PowerPC, MacOS 7.1 or higher, and large amounts of memory (depending on the size of the dataset). Software and documentation are available on the World Wide Web at: http://www-acs.ucsd.edu/~jstrout/macvol/ If you have any questions, please feel free to contact me. Regards, Joe Strout From owner-software@net.bio.net Wed Aug 13 23:00:00 1997 Path: biosci!fcs280s.ncifcrf.gov!cpk-news-feed4.bbnplanet.com!cpk-news-feed1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!cam-news-hub1.bbnplanet.com!news.bbnplanet.com!prodigy.com!nntp.earthlink.net!usenet From: "Betsy L. Alberty" Newsgroups: bionet.software Subject: Re: Rookie High School Ecology Teacher Needs Help!!! Date: Thu, 14 Aug 1997 15:50:30 -0700 Organization: ALSBYTE Biotechnology Products Lines: 24 Message-ID: <33F38BB6.18C5@earthlink.net> References: <33f4212c.16680285@news.usit.net> Reply-To: alsbyte1@earthlink.net NNTP-Posting-Host: 1cust66.max28.san-francisco2.ca.ms.uu.net Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0 (Win16; I) Todd Druen wrote: > > I am looking for info in my content area. I teach 5 sections of > Junior level Ecology. I know that the materials are out there but I > do not know the procedure in obtaining them. I have heard that > companies and corporations have videos that they loan out or give to > teachers for use in their classroom, I just do not know how to get > them. I am looking for any ideas, pamphlets, brochures, > transparencies, or videos. I would appreciate any help that you can > offer. > > Thank you. > > Todd Druen > tdruen@usit.net Hi Todd, Try Carolina Biological Supply 800-334-5551 or www.carolina.com I also have my offices near an interactive media group that does a number of educational scientific video/CDROM material. If you need further info beyond Carolina, send me an email at alsbyte1@earthlink.net. Good luck! From owner-software@net.bio.net Wed Aug 13 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!news.sgi.com!news.corp.sgi.com!enews.sgi.com!newshub1.home.com!news.home.com!newsfeed.direct.ca!news.he.net!news.dra.com!laplaza.org!sloth.swcp.com!fugu!lynx.unm.edu!bubba.NMSU.Edu!usenet From: "Donald D. Bustamante" Newsgroups: bionet.software Subject: Re: Primer design Date: Wed, 13 Aug 1997 11:22:13 -0700 Organization: National Biotechnology Information Facility Lines: 27 Message-ID: <33F1FB55.245@psl.nmsu.edu> References: <33F0CDCE.5C5B@unity.ncsu.edu> NNTP-Posting-Host: nbif01.nmsu.edu Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01Gold (WinNT; I) Susan Hogarth wrote: > > I'm looking for software (free- or share-), dos/win95, UNIX, or WWW, > which will take a (oligo)peptide sequence input and give ba