From owner-embldatabank@net.bio.net Sun Aug 01 23:00:00 1993 Path: biosci!agate!spool.mu.edu!bloom-beacon.mit.edu!xlink.net!fauern!news.dfn.de!news.uni-bielefeld.de!nowhere!hsunsrv!schneide From: schneide@wi-inf.uni-essen.de (Axel Schneider) Newsgroups: bionet.molbio.embldatabank Subject: Help wanted for THESIS in mobile computer communication Message-ID: Date: 2 Aug 93 13:31:38 GMT Sender: newsadm@uni-essen.de Reply-To: schneide@wi-inf.uni-essen.de Organization: Wirtschaftsinformatik Universitaet Essen Lines: 17 Nntp-Posting-Host: wi-inf.uni-essen.de I am seeking assistance for my university thesis, which will look at opportunities for using mobile computer communication to aid the environment. I would be grateful for any information supplied or suggestions for obtaining information, as books on this topic are scarce. I have outlined below the areas of interest for me, pertaining to this subject. 1) Any existing cases if computers helping to improve or monitor the environment. 2) Detailed and technical information on mobile computer communication. 3) The protection of privacy using mobile computer communication. 4) Any details of the USENIX Mobile and Location-Independant Computing Symposium to be held in August this year in Massachusetts, USA, and the eMail-Adress of USENIX in Berkeley, California. I hope your suggestions and information will make my thesis a success. I look forward to hearing from you all soon. Thanks in advance Axel Schneider PS: Please send eMail to: schneide@wi-inf.uni-essen.de From owner-embldatabank@net.bio.net Tue Aug 03 23:00:00 1993 Path: biosci!daresbury!zeta.bmc.uu.se!corax.udac.uu.se!sunic!uunet!haven.umd.edu!darwin.sura.net!news-feed-2.peachnet.edu!umn.edu!csus.edu!netcom.com!netcomsv!hotcity!nightowl From: nightowl@hotcity.COM (John Enterkin) Newsgroups: bionet.molbio.embldatabank Subject: DROP Message-ID: Date: 4 Aug 93 13:10:00 GMT Organization: Hot City NetWorking Lines: 1 Add, Drop, or Reset a Conference. From owner-embldatabank@net.bio.net Thu Aug 05 23:00:00 1993 Path: biosci!agate!usenet.ins.cwru.edu!news.ecn.bgu.edu!wupost!waikato!comp.vuw.ac.nz!canterbury.ac.nz!chmeds.ac.nz!twizon.chmeds.ac.nz!tdw From: tdw@chmeds.ac.nz Newsgroups: bionet.molbio.embldatabank Subject: Fibrinogen Message-ID: <1993Aug6.155222.293@chmeds.ac.nz> Date: 6 Aug 93 03:52:22 GMT Organization: Christchurch School of Medicine Lines: 4 Nntp-Posting-Host: twizon.chmeds.ac.nz A friend is looking for the X-ray crystalography structure of fibrinogen, and or fibrinogen parts. Any help much appreciated. tdw@twizon.chmeds.ac.nz From owner-embldatabank@net.bio.net Thu Aug 05 23:00:00 1993 Path: biosci!uwm.edu!math.ohio-state.edu!darwin.sura.net!newt.welch.jhu.edu!welchdev.welch.jhu.edu!danj From: danj@welchdev.welch.jhu.edu (Dan Jacobson) Newsgroups: bionet.molbio.embldatabank Subject: Re: Fibrinogen Message-ID: <1993Aug6.155032.24924@newt.welch.jhu.edu> Date: 6 Aug 93 15:50:32 GMT References: <1993Aug6.155222.293@chmeds.ac.nz> Sender: news@newt.welch.jhu.edu Organization: Johns Hopkins University Genome Data Base (GDB) Lines: 67 Nntp-Posting-Host: welchdev.welch.jhu.edu In article <1993Aug6.155222.293@chmeds.ac.nz> tdw@chmeds.ac.nz () writes: >A friend is looking for the X-ray crystalography structure of fibrinogen, and >or fibrinogen parts. Any help much appreciated. > >tdw@twizon.chmeds.ac.nz > Hmm, the only thing I could find is a compex with a few residues of fibrinogen - it's Pre-release from PDB: ----------------------------------------------------------------------- HEADER PRELIMINARY 27-APR-92 P1BBR COMPND BOVINE THROMBIN (E.C.3.4.21.5) COMPLEX WITH RESIDUES 7 - 16 COMPND 2 OF FIBRINOPEPTIDE-A ALPHA SOURCE BOVINE (BOS $TAURUS) BLOOD AUTHOR P.MARTIN,B.EDWARDS 1 1 REFERENCE 1 1 AUTH P.D.MARTIN,W.ROBERTSON,D.TURK,R.HUBER,W.BODE, 1 AUTH 2 B.F.P.EDWARDS 1 TITL THE STRUCTURE OF RESIDUES 7-16 OF THE A ALPHA-CHAIN 1 TITL 2 OF HUMAN FIBRINOGEN BOUND TO BOVINE THROMBIN AT 1 TITL 3 2.3-*ANGSTROMS RESOLUTION 1 REF J.BIOL.CHEM. V. 267 7911 1992 1 REFN ASTM JBCHA3 US ISSN 0021-9258 071 2 2 RESOLUTION. 2.3 ANGSTROMS. 3 3 REFINEMENT. 3 PROGRAM PROLSQ 3 AUTHORS KONNERT AND HENDRICKSON 3 R VALUE 0.167 3 RMSD BOND LENGTHS 0.020 ANGSTROMS 3 RMSD BOND ANGLES 3.3 DEGREES 4 5 THE SEQUENCE IS IN THE THROMBIN NUMBERING CONVENTION WITH 5 RESIDUE 1 AT THE POINT IT IS CLEAVED FROM PROTHROMBIN AND 5 ENDING WITH 308. FIBRINOPEPTIDE SEQUENCE NUMBERS ARE 309 5 TO 318 AND CORRESPOND TO RESIDUES 7 TO 16 OF FIBRINOGEN-A 5 ALPHA. THE N-TERMINUS OF THE FIBRINOPEPTIDE IS ACETYLATED. 5 6 THERE ARE THREE INDEPENDENT COMPLEXES IN THE ASYMMETRIC 6 UNIT. MOLECULE I IS EPSILON-THROMBIN (CHAIN BREAK BETWEEN 6 RESIDUES 199 AND 200), AND MOLECULES II AND III ARE 6 ALPHA-THROMBIN. FIBRINOPEPTIDE I HAS AN OCCUPANCY THAT 6 MAKES THE AVERAGE B OF ARG-318 ROUGHLY EQUAL TO THAT IN 6 FIBRINOPEPTIDES II AND III. THE DEPOSITORS DO NOT SEE ANY 6 DENSITY AT ALL FOR THROMBIN RESIDUES 1-13, AND POOR DENSITY 6 FOR THE N AND C TERMINI OF THE A CHAINS, THE C TERMINUS OF 6 THE B CHAINS, AND THE FIVE RESIDUES BORDERING 200 IN 6 MOLECULES II AND III. FTNOTE 1 FTNOTE 1 RESIDUES PRO T 72, PRO U 72, AND PRO V 72 ARE CIS PROLINES. ---------------------------------------------------------------------- If this will help you can retrieve the entire structure with gopher - write me a note if you've never heard of gopher, I'll send you some info to help get you started. Best of luck, Dan Jacobson danj@welchgate.welch.jhu.edu From owner-embldatabank@net.bio.net Mon Aug 09 23:00:00 1993 Path: biosci!daresbury!doc.ic.ac.uk!pipex!uunet!usc!hto-d.usc.edu!rkou From: rkou@hto-d.usc.edu (Roger H. Kou) Newsgroups: bionet.molbio.embldatabank Subject: genbank.ntb: where can I get it? Message-ID: Date: 10 Aug 93 20:47:02 GMT Sender: rkou@hto-d.usc.edu Distribution: bionet Organization: University of Southern California, Los Angeles, CA Lines: 13 NNTP-Posting-Host: hto-d.usc.edu hi, I am trying to get Steven Smith's GDE(Genetic Data Environment) going here in the dept. GDE needs this file call genbank.ntb, does anyone know where I can get it? thanks, -RK -- Roger Kou, Sysadm, Math Dept. (213)740-2409 University of Southern California, Los Angeles, California From owner-embldatabank@net.bio.net Mon Aug 09 23:00:00 1993 Path: biosci!daresbury!doc.ic.ac.uk!pipex!uunet!noc.near.net!das-news.harvard.edu!husc-news.harvard.edu!husc.harvard.edu!robison1 From: robison1@husc10.harvard.edu (Keith Robison) Newsgroups: bionet.molbio.embldatabank Subject: Re: genbank.ntb: where can I get it? Message-ID: Date: 10 Aug 93 22:14:49 GMT References: Distribution: bionet Lines: 22 Nntp-Posting-Host: husc10.harvard.edu rkou@hto-d.usc.edu (Roger H. Kou) writes: >hi, >I am trying to get Steven Smith's GDE(Genetic Data Environment) going here >in the dept. GDE needs this file call genbank.ntb, does anyone know where >I can get it? .ntb files are generated by the pressdb program in the BLAST suite. Generate a FASTA file called "genbank" with nucleotide sequences in it and then run "pressdb genbank". If the GDE distribution does not include pressdb then you can get the source from the BLAST distribution at ncbi.nlm.nih.gov via anonymous FTP. Keith Robison Harvard University Department of Cellular and Developmental Biology Department of Genetics / HHMI robison@biosun.harvard.edu From owner-embldatabank@net.bio.net Tue Aug 10 23:00:00 1993 Path: biosci!daresbury!doc.ic.ac.uk!dapsun.lif.icnet.uk!bison.lif.icnet.uk!alex From: alex@bison.lif.icnet.uk (Alex Whittaker - BIU) Newsgroups: bionet.molbio.embldatabank Subject: Authorin 3.0 problem Keywords: Authorin EMBL submission Message-ID: <24avqjINN11k@dapsun.lif.icnet.uk> Date: 11 Aug 93 14:30:43 GMT Organization: Imperial Cancer Research Fund Lines: 14 NNTP-Posting-Host: bison.lif.icnet.uk I'm sure I'm not the first to point this out, but there appears to be a bug in the v3.0 of Authorin. The program works well, but crashes at the end. I attribute this to the ncbi.cnf file, but have tried manipulating it to no avail. Alex Whittaker ______ \||/_ | | oo \ "All I know Biomedical Informatics Unit | | L_ is that I know Imperial Cancer Research Fund |______| \/ nothing" London ________ | [========] / alex@bison.biu.icnet.uk ---OOO- |ooooooo| From owner-embldatabank@net.bio.net Wed Aug 11 23:00:00 1993 Path: biosci!NET.BIO.NET!kristoff From: kristoff@NET.BIO.NET (David Kristofferson) Newsgroups: bionet.molbio.embldatabank Subject: IMPORTANT BIOSCI INFORMATION Message-ID: <9308120900.AA11049@net.bio.net> Date: 12 Aug 93 09:00:04 GMT Sender: kristoff@net.bio.net Distribution: bionet Lines: 243 Three important items follow: BIOSCI archive searching by e-mail, the BIOSCI FAQ, and the BIOSCI User Address Directory form. If you have not yet listed yourself in our e-mail address directory, please take a few minutes to complete and return the form below. If your address information has changed since you listed yourself, please send us an updated form. Sincerely, Dave Kristofferson BIOSCI/bionet Manager kristoff@net.bio.net **** SEARCHING BIOSCI ARCHIVES WITH WAISMAIL **** E-mail users can search the BIOSCI archives by using our waismail e-mail server. For instructions send the message help to waismail@net.bio.net. Leave the Subject: line blank. Other methods of searching the archives via WAIS and gopher are described in the BIOSCI FAQ. **** BIOSCI FREQUENTLY ASKED QUESTIONS (FAQ) SHEET **** 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 for anonymous FTP from net.bio.net [134.172.2.69] in pub/BIOSCI/biosci.FAQ. It may also be requested by sending e-mail to biosci@net.bio.net (use plain English for your request). The FAQ is also posted on the first of each month to the newsgroup BIONEWS/bionet.announce immediately following the posting of the BIOSCI information sheet. **** BIOSCI USER ADDRESS DIRECTORY **** Please take this opportunity to add your name and address information to the BIOSCI User Address Database if you have not already done so. Below is the address form that we would like each reader of the BIOSCI/bionet newsgroups to complete and return if you would like to be listed in our database. The database serves as a directory that enables biologists, who are currently using (or even just reading) the BIOSCI newsgroups, to look up e-mail addresses and other information about our users. The address database is reindexed nightly for WAIS and waismail access (waismail is our WAIS e-mail server, more below) and will also be available for access via other gopher sites if they wish to permit it. The raw unindexed data is available for FTP from net.bio.net and is atomized sufficiently to allow import into your local RDBMS should you so desire. Please carefully follow the instructions for completing the form below and return it to either of the following two addresses (whichever is more convenient for you). Thanks in advance for taking the time to complete and return the form. Addresses for returning forms Location Network ----------------------------- -------- ------- biovote@net.bio.net U.S.A. Internet/BITNET biovote@daresbury.ac.uk U.K. JANET MAKING SURE THAT YOUR INFORMATION IS CURRENT This notice will be mailed bimonthly to each newsgroup. You should check our WAIS source or waismail e-mail server from time-to-time to see if your address information is still up-to-date. Send the message help to waismail@net.bio.net for instructions on using waismail. Leave the Subject: line in your message blank. Using Gopher to complete the form --------------------------------- If you don't want to use a text editor, you can also use Dan Jacobson's gopher site to fill out the address database form as follows. Otherwise skip this section on gopher and proceed to the instructions for filling out the form below. > To add yourself to the database just point your > gopher client at merlot.welch.jhu.edu and select the following: > > --> 15. Searching For Biologists/ > > --> 9. E-mail Addresses of Biosci-Bionet Users/ > > --> 1. Add (or Correct) Your Address to the BIOSCI User Address > Data.. > > > And fill out the form. or Rob Harper's gopher site in Europe as follows: > Europeans can point their gopher client at gopher.csc.fi and add their > information to the database. All entries will be mailed directly to > Dave for incorporation in a wais source. > > The path to the questionare is as follows. > > ---> 10. Finnish EMBnet BioBox/ > > ---> 8. FAQ Files/ > > FAQ Files > > 1. EMBnet: Information. > 2. EMBnet: Internet resources guide. > 3. A Biologist's Guide to Internet Resources/ > 4. All FAQs (Frequently Asked Questions) Searches and Archives/ > --->5. Bionauts Address Database (questionaire) IMPORTANT INSTRUCTIONS - PLEASE READ CAREFULLY Please enter all responses after the : on each line, leaving one (1) blank space after the : (i.e., before the start of your text). Please do NOT extend your responses past the end of each line (80 characters) or alter any of the field identifiers such as "first name: ". Several lines are provided at the end of the form for comments, but, please adhere to the line length restriction. On the date: line, please enter the date in the DD-MM-YY format, e.g., 05-05-93 for 5 May 1993. This line will tell others when the information was last updated. Please be sure to include the 0's for single digit days or months, e.g., 05-05-93, not 5-5-93. Note that the "e-mail network: " line below is for specifying, e.g., "Internet," "BITNET," "EARN," "JANET," or whatever other network that your computer may be on. If you are uncertain about any field, please feel free to leave it blank, but please DO NOT DELETE the field identifier from the form! In the first field below, "New information or Update ...", please enter "N" if this is the first time that you have registered in the directory or "U" if you are correcting a listing that you sent to us previously. The comment: lines may be used for anything that you like but PLEASE DO NOT DELETE THEM FROM THE FORM OR ALTER THEM. One suggested use is to list the names of the newsgroups in which you participate. Please use the MAILING LIST name (see below - the latest version of the list can be requested from biosci@net.bio.net) instead of the USENET name even if you don't participate by e-mail. WAIS might get confused by the periods in the USENET names. This allows one to retrieve via WAIS or waismail the list of participants in a particular group. For example: comment: ARABIDOPSIS PLANT-BIOLOGY BIONEWS On the comment: lines use these names below ---- NOT the USENET names below MAILING LIST NAME USENET Newsgroup Name ----------------- --------------------- ACEDB-SOFT bionet.software.acedb AGEING bionet.molbio.ageing AGROFORESTRY bionet.agroforestry ARABIDOPSIS bionet.genome.arabidopsis 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 BIO-SOFTWARE bionet.software CHROMOSOMES bionet.genome.chromosomes COMPUTATIONAL-BIOLOGY bionet.biology.computational DROSOPHILA bionet.drosophila EMBL-DATABANK bionet.molbio.embldatabank EMPLOYMENT bionet.jobs GDB bionet.molbio.gdb GENBANK-BB bionet.molbio.genbank GENETIC-LINKAGE bionet.molbio.gene-linkage HIV-MOLECULAR-BIOLOGY bionet.molbio.hiv HUMAN-GENOME-PROGRAM bionet.molbio.genome-program IMMUNOLOGY bionet.immunology INFO-GCG bionet.software.gcg JOURNAL-NOTES bionet.journals.note METHODS-AND-REAGENTS bionet.molbio.methds-reagnts MOLECULAR-EVOLUTION bionet.molbio.evolution NEUROSCIENCE bionet.neuroscience N2-FIXATION bionet.biology.n2-fixation PHOTOSYNTHESIS bionet.photosynthesis PLANT-BIOLOGY bionet.plants POPULATION-BIOLOGY bionet.population-bio PROTEIN-ANALYSIS bionet.molbio.proteins PROTEIN-CRYSTALLOGRAPHY bionet.xtallography RAPD bionet.molbio.rapd SCIENCE-RESOURCES bionet.sci-resources TROPICAL-BIOLOGY bionet.biology.tropical VIROLOGY bionet.virology WOMEN-IN-BIOLOGY bionet.women-in-bio YEAST bionet.molbio.yeast Listing newsgroups on the comment: line is optional, of course. Thanks again for your cooperation! --------------- please cut here and return portion below --------------- New information or Update to old record (enter N or U): date (DD-MM-YY): first name: middle initial: family name: job title: e-mail address: e-mail network: phone number: FAX number: institution: address1: address2: address3: city: state/province: country: postal code: research interest: research interest: comment: comment: comment: comment: comment: From owner-embldatabank@net.bio.net Fri Aug 13 23:00:00 1993 Path: biosci!UTKVX.UTCC.UTK.EDU!PETHE From: PETHE@UTKVX.UTCC.UTK.EDU Newsgroups: bionet.molbio.embldatabank Subject: request to subscribe me to this network Message-ID: <01H1QTN0C56E8ZFHDA@utkvx.utk.edu> Date: 14 Aug 93 22:13:02 GMT Sender: daemon@net.bio.net Distribution: bionet Lines: 7 Dear Sir This is to request you to please subscribe me to the EMBL bata bank network. This is my e-mail address Pethe@utkvx.utk.edu Thanking you Vaiju Pethe From owner-embldatabank@net.bio.net Sun Aug 15 23:00:00 1993 Path: biosci!agate!howland.reston.ans.net!math.ohio-state.edu!usc!hto-d.usc.edu!rkou From: rkou@hto-d.usc.edu (Roger H. Kou) Newsgroups: bionet.molbio.embldatabank Subject: where can I get gborg.seq? Message-ID: Date: 16 Aug 93 21:54:51 GMT Sender: rkou@hto-d.usc.edu Distribution: bionet Organization: University of Southern California, Los Angeles, CA Lines: 13 NNTP-Posting-Host: hto-d.usc.edu hi, I went to ncbi.nlm.nih.gov already and didn't see the file. any idea? thanks! -RK -- Roger Kou, Sysadm, Math Dept. (213)740-2409 University of Southern California, Los Angeles, California From owner-embldatabank@net.bio.net Mon Aug 16 23:00:00 1993 Path: biosci!bcm!cs.utexas.edu!uunet!noc.near.net!das-news.harvard.edu!husc-news.harvard.edu!husc.harvard.edu!robison1 From: robison1@husc10.harvard.edu (Keith Robison) Newsgroups: bionet.molbio.embldatabank Subject: Re: where can I get gborg.seq? Message-ID: Date: 17 Aug 93 03:17:23 GMT References: Distribution: bionet Lines: 15 Nntp-Posting-Host: husc10.harvard.edu It's gone -- NCBI decided several releases back to do away with the Organelle division of GenBank. Organelle entries can now be found in the same division as the organism in which they reside, with the source species prefixed with the organelle name: SOURCE Chloroplast Homo sapiens Keith Robison Harvard University Department of Cellular and Developmental Biology Department of Genetics / HHMI robison@biosun.harvard.edu From owner-embldatabank@net.bio.net Mon Aug 16 23:00:00 1993 Path: biosci!bcm!cs.utexas.edu!uunet!noc.near.net!howland.reston.ans.net!vixen.cso.uiuc.edu!usenet.ucs.indiana.edu!woodchuck.bio.indiana.edu!jlogsdon From: jlogsdon@bio.indiana.edu (John Logsdon) Newsgroups: bionet.molbio.embldatabank Subject: Re: where can I get gborg.seq? Message-ID: Date: 17 Aug 93 16:54:32 GMT References: Sender: news@usenet.ucs.indiana.edu (USENET News System) Organization: Department of Biology / Indiana University Lines: 20 X-Xxmessage-Id: X-Xxdate: Tue, 17 Aug 93 07:03:49 GMT Nntp-Posting-Host: woodchuck.bio.indiana.edu X-Useragent: Nuntius v1.1.1d24 In article Keith Robison, robison1@husc10.harvard.edu writes: > SOURCE Chloroplast Homo sapiens ^^^^^^^^^^^^^^^^^ WOW! From which entry did that come? Could be a _very_ interesting sequence. :-} John ___________________________________________________________ John Logsdon Department of Biology Indiana University Bloomington, IN 47405 (812) 855-2549 (812) 855-6705 fax jlogsdon@bio.indiana.edu ____________________________________________________________ From owner-embldatabank@net.bio.net Sun Aug 22 23:00:00 1993 Path: biosci!agate!howland.reston.ans.net!newsserver.jvnc.net!newsserver.cshl.org!newsserver.cshl.org!not-for-mail From: oconnorb@phage.cshl.org ( CSHL) Newsgroups: bionet.molbio.embldatabank Subject: where can we ftp embl from? Summary: information wanted on where to ftp embl from Keywords: ftp, EMBL Message-ID: <25aek8INNk6e@phage.cshl.org> Date: 23 Aug 93 12:53:28 GMT Organization: Cold Spring Harbor Lab Lines: 6 NNTP-Posting-Host: phage.cshl.org I had obtained EMBL updates via ftp from AMBER.MGH.HARVARD.EDU. They no longer support this. Is there any place I can ftp to to get updates (the XXEMBL.DATZ files)? Thanks! Beth O'Connor email: oconnorb@cshl.org From owner-embldatabank@net.bio.net Sun Aug 22 23:00:00 1993 Path: biosci!lhc!ray!dab From: dab@ray.nlm.nih.gov (Dennis Benson) Newsgroups: bionet.molbio.embldatabank Subject: Re: where can we ftp embl from? Message-ID: <1993Aug23.163305.15482@nlm.nih.gov> Date: 23 Aug 93 16:33:05 GMT References: <25aek8INNk6e@phage.cshl.org> Sender: news@nlm.nih.gov Organization: National Library of Medicine Lines: 20 X-Newsreader: Tin 1.1 PL4 oconnorb@phage.cshl.org ( CSHL) writes: : I had obtained EMBL updates via ftp from AMBER.MGH.HARVARD.EDU. : They no longer support this. Is there any place I can ftp to : to get updates (the XXEMBL.DATZ files)? : Thanks! : Beth O'Connor : email: oconnorb@cshl.org : Beth -- NCBI posts daily EMBL updates on its anonymous FTP server; we post a single daily file that includes all new as well as revised EMBL entries (so it is probably not identical to the XXEMBL.DATZ files you were previously using). The machine name is 'ncbi.nlm.nih.gov' and the directory is: repository/embl-newdata Regards, Dennis Benson NCBI From owner-embldatabank@net.bio.net Mon Aug 23 23:00:00 1993 Path: biosci!agate!howland.reston.ans.net!europa.eng.gtefsd.com!uunet!pipex!sunic!corax.udac.uu.se!zeta.bmc.uu.se!daresbury!bioftp.unibas.ch!comp.bioz.unibas.ch!doelz From: doelz@comp.bioz.unibas.ch (Reinhard Doelz) Newsgroups: bionet.molbio.embldatabank Subject: Re: where can we ftp embl from? Keywords: ftp, EMBL Message-ID: <1993Aug24.093147.16690@comp.bioz.unibas.ch> Date: 24 Aug 93 09:31:47 GMT References: <25aek8INNk6e@phage.cshl.org> Sender: usenet@comp.bioz.unibas.ch (NEWS transaction account) Reply-To: doelz@urz.unibas.ch Organization: EMBnet Switzerland [BASEL] Lines: 71 Nntp-Posting-Host: biox.embnet.unibas.ch In article <25aek8INNk6e@phage.cshl.org>, oconnorb@phage.cshl.org ( CSHL) writes: |> I had obtained EMBL updates via ftp from AMBER.MGH.HARVARD.EDU. |> They no longer support this. Is there any place I can ftp to |> to get updates (the XXEMBL.DATZ files)? Colleagues, the EMBL data library updates are distributed via 'nursing' in the European Molecular Biology Network (EMBnet). Any national node manager (adresses and details on various GOPHERs and archives, as well as appended below) will be happy to help you in the European country of interest. EMBnet further maintains an own EMBnet NEWS hierarchy, which transports the data as well. NDT (Peter Gad, Sweden), MIPS RPC (K.Heumann, MIPS) and HASSLE(Reinhard Doelz, Basel) are projects which deal with enhanced performance mechanisms to update databases. The AMBER ftp archive, as maintained by Mike Cherry, was mirroring my FTP site in Basel. However, as we were put severely under pressure from our network provider to reduce bandwidth usage, we had to drop the mirror. My FTP site in Basel is no longer accessible, but for the Swiss part of EMBnet we have a directory in nic.switch.ch (mirror/embnet-ch) which holds data sets for Swiss researchers. The archive is updated weekly. EMBL maintatins an archive on ftp.embl-heidelberg.de which holds the incremental updates as well. The only place in the US I know of which updates an FTP archive is the NCBI, look in the corresponding directories to find the update files from EMBL. The HASSLE protocol was released recently. HASSLETOOLS including the incremental update access will be released shortly. Regards Reinhard Doelz EMBnet Switzerland List of e-Mail addresses of Node Managers in EMBnet follows: grabner@embdec.bcc.univie.ac.at rherzog@ulb.ac.be hum@biobase.aau.dk harper@convex.csc.fi dessen@coli.polytechnique.fr claude@genethon.fr datalib@EMBL-Heidelberg.de dok419@genius.embnet.dkfz-heidelberg.de mewes@ehpmic.mips.biochem.mpg.de savakis@myia.imbb.forth.gr Isestern@weizmann.weizmann.ac.il attimonelli@mvx36.csata.it pongor@genes.icgeb.trieste.it rodrigol@biomed.uio.no Lpezzi@cnbvx3.cnb.uam.es gad@perrier.embnet.se doran@embl-heidelberg.de noordik@caos.kun.nl frysavy@crc.ac.uk bleasby@daresbury.ac.uk remenyi@abc.hu -- +----------------------------------+-------------------------------------+ | Dr. Reinhard Doelz | RFC doelz@urz.unibas.ch | | Biocomputing | DECNET 20579::48130::doelz | |Biozentrum der Universitaet | X25 022846211142036::doelz | | Klingelbergstrasse 70 | FAX x41 61 261- 6760 or 267- 2078 | CH 4056 Basel | TEL x41 61 267- 2076 or 2247 | +------------- bioftp.unibas.ch is the SWISS EMBnet node ----------------+ ftp mirror at nic.switch.ch ----------------------------------------- From owner-embldatabank@net.bio.net Mon Aug 23 23:00:00 1993 Path: biosci!agate!doc.ic.ac.uk!pipex!sunic!uts!biobase!pamaga From: pamaga@biobase.aau.dk (Paulo Magalhaes) Newsgroups: bionet.molbio.embldatabank Subject: 18S & 28S rDNA sequences Message-ID: Date: 24 Aug 93 16:33:57 GMT Organization: The Danish BioBase Lines: 24 Hi, I have been trying to get the sequences for human 18S and 28S rDNA. After hours on gcg's stringsearch, using as many possible variations as I could think of, I drew a blank. Any help will be appreciated. Many thanks, Paulo -- ********************************************************************** * Paulo Magalhaes | email: pamaga@biobase.aau.dk * * Section of Clinical Genetics | fax: +45 / 31 39 65 43 * * Rigshospitalet | voice: +45 / 35 45 45 92 * * Copenhagen | * * Denmark | snail-mail: C'mon, this is the 90s! * ********************************************************************** -- ********************************************************************** * Paulo Magalhaes | email: pamaga@biobase.aau.dk * * Section of Clinical Genetics | fax: +45 / 31 39 65 43 * * Rigshospitalet | voice: +45 / 35 45 45 92 * From owner-embldatabank@net.bio.net Thu Aug 26 23:00:00 1993 Path: biosci!uwm.edu!cs.utexas.edu!uunet!pipex!sunic!corax.udac.uu.se!zeta.bmc.uu.se!daresbury!daresbury!news From: lukas.pellar@img.cas.cz Newsgroups: bionet.molbio.embldatabank Subject: RNA structure Message-ID: <1993Aug27.162822.8923@gserv1.dl.ac.uk> Date: 27 Aug 93 16:57:44 GMT Sender: list-admin@daresbury.ac.uk Distribution: bionet Lines: 29 Content-Type: text Precedence: first-class Original-To: embl-db@uk.ac.daresbury X-Mailer: ELM [version 2.4 PL20] Content-Length: 262 > I need some program for the RNA secondary structure calculation, working on the IBM RS/ 6000 system. Please, can you send me the information about such programs? Lukas Pellar > >