From owner-bio-matrix@net.bio.net Thu Feb 04 22:00:00 1993 Path: biosci!UH.EDU!Davison From: Davison@UH.EDU (Dan Davison) Newsgroups: bionet.molbio.bio-matrix Subject: Re: The Biomatrix: what it is Message-ID: <199302050404.AA07792@Menudo.UH.EDU> Date: 5 Feb 93 04:04:00 GMT References: <9302011855.AA23887@net.bio.net> Sender: daemon@net.bio.net Distribution: bionet Lines: 19 Richard M. Romanowski said: > What is the Xanadu project? Not "the", "a". It's a pipe dream, as in Coleridge's Kubla Kahn > Is there a specific twist to information theory just with biology? Not really, not more than any other speciality. Tom, comments? dan -- dr. dan davison/dept. of biochemical and biophysical sciences/univ. of Houston/4800 Calhoun/Houston,TX 77204-5934/davison@uh.edu/DAVISON@UHOU -----RIP Isaac Asimov 1920-1992 I'll miss him -------------------- Disclaimer: As always, I speak only for myself, and, usually, only to myself. From owner-bio-matrix@net.bio.net Thu Feb 04 22:00:00 1993 Path: biosci!agate!usenet.ins.cwru.edu!magnus.acs.ohio-state.edu!cis.ohio-state.edu!medulla.cis.ohio-state.edu!jj From: jj@medulla.cis.ohio-state.edu (John Josephson) Newsgroups: bionet.molbio.bio-matrix Subject: Re: The Biomatrix: what it is Message-ID: Date: 5 Feb 93 16:36:21 GMT References: <199302050404.AA07792@Menudo.UH.EDU> Sender: jj@cis.ohio-state.edu Distribution: bionet Organization: Ohio State Computer Science Lines: 9 NNTP-Posting-Host: medulla.cis.ohio-state.edu In-reply-to: Davison@UH.EDU's message of 5 Feb 93 04:04:00 GMT There is a THE Xanadu project, the brainchild of Ted Nelson (I pretty sure) the original creater of hypertext, and the author of Computer Lib (probably out of print by now). The project aims at a worldwide hypertextual information infrastructure to support a new kind of publishing, communications, etc. Ted was an early, creative visionary of interactive graphical interfaces, long before the Apple Macintosh. .. john From owner-bio-matrix@net.bio.net Fri Feb 05 22:00:00 1993 Path: biosci!daresbury!doc.ic.ac.uk!agate!usenet.ins.cwru.edu!howland.reston.ans.net!bogus.sura.net!darwin.sura.net!fconvx.ncifcrf.gov!fcs260c2!toms From: toms@fcs260c2.ncifcrf.gov (Tom Schneider) Newsgroups: bionet.molbio.bio-matrix Subject: Re: The Biomatrix: what it is Message-ID: Date: 6 Feb 93 04:44:29 GMT References: <9302011855.AA23887@net.bio.net> <199302050404.AA07792@Menudo.UH.EDU> Sender: usenet@ncifcrf.gov (C News) Distribution: bionet Organization: Frederick Cancer Research and Development Center Lines: 19 Nntp-Posting-Host: fcs260c2.ncifcrf.gov In article <199302050404.AA07792@Menudo.UH.EDU> Davison@UH.EDU (Dan Davison) writes: >> Is there a specific twist to information theory just with biology? > >Not really, not more than any other speciality. Tom, comments? (toms eyes come back into focus as he emerges from mooland...) Well, I am now of the opinion that Shannon was really a biologist! Information theory does not make sense except in the context of communication between or within living things. The entropy concept is separate, but Shannon was really working with "uncertainty". Information is the decrease of uncertainty of a system, and only has consequences if that system is alive. That is, it doesn't matter if the Shannon spheres intersect if the system is dead, but matters greatly (in an evolutionary sense) if it is alive. I hope that helps - it won't make any sense if you haven't read Shannon and my papers! Tom From owner-bio-matrix@net.bio.net Sun Feb 07 22:00:00 1993 Path: biosci!NET.BIO.NET!kristoff From: kristoff@NET.BIO.NET (David Kristofferson) Newsgroups: bionet.molbio.bio-matrix Subject: BIOSCI/bionet Frequently Asked Questions Message-ID: <9302081000.AA05838@net.bio.net> Date: 8 Feb 93 10:00:02 GMT Sender: kristoff@net.bio.net Distribution: bionet Lines: 16 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. Sincerely, Dave Kristofferson BIOSCI/bionet Manager kristoff@net.bio.net From owner-bio-matrix@net.bio.net Sat Feb 13 22:00:00 1993 Path: biosci!FCRFV2.NCIFCRF.GOV!GUNNELL From: GUNNELL@FCRFV2.NCIFCRF.GOV (Mark A. Gunnell) Newsgroups: bionet.molbio.bio-matrix Subject: GenPept Release 75.0 available via anonymous ftp Message-ID: <930213233755.20209151@FCRFV2.NCIFCRF.GOV> Date: 14 Feb 93 04:37:55 GMT Sender: daemon@net.bio.net Distribution: bionet Lines: 65 Subject: GenPept Release 75.0 flat file format available via anonymous ftp From: fconvx.ncifcrf.gov Directory: pub/genpept Files: gprel75.txt.Z, gpdat75.seq.Z Rel. Date: 13-February-1993 This is to announce the availability release 75.0 of the GenPept(R) (GenBank Gene Products) Database. GenPept is provided in a format similar to that formerly distributed by GenBank(R) under the administration of Intelligenetics Inc. The last official full release of GenPept was in June, 1992 (Release 72.0), with incremental releases made available via ftp from ncbi.nlm.nih.gov. NCBI also continues to provide a GenPept datafile pre- formatted for use with the Pearson & Lipman Fasta program. This GenPept release IS _NOT_ AN OFFICIAL RELEASE FROM THE NCBI-GENBANK, but an attempt to provide a data file compatible with other existing software products. This flat file format is shown below: ------------------------------------------------------------------------------- LOCUS ABCAARAA_1 DEFINITION A.aceti acetic acid resistance protein (aarA) gene, complete cds. Acetic acid resistance protein; (aarA). DATE 15-SEP-1990 ACCESSION M34830 ORGANISM Acetobacter aceti Prokaryotae; Gracilicutes; Scotobacteria; Aerobic rods and cocci; Azotobacteraceae. COMMENT Nucleic Acid Features translated to generate this entry: CDS 185..1495 /note="acetic acid resistance protein; (aarA)" /codon_start=1 WEIGHT 48196.10 LENGTH 436 ORIGIN Translated using phase 1 1 MSASQKEGKL STATISVDGK SAEMPVLSGT LGPDVIDIRK LPAQLGVFTF DPGYGETAAC 61 NSKITFIDGD KGVLLHRGYP IAQLDENASY EEVIYLLLNG ELPNKVQYDT FTNTLTNHTL 121 LHEQIRNFFN GFRRDAHPMA ILCGTVGALS AFYPDANDIA IPANRDLAAM RLIAKIPTIA 181 AWAYKYTQGE AFIYPRNDLN YAENFLSMMF ARMSEPYKVN PVLARAMNRI LILHADHEQN 241 ASTSTVRLAG STGANPFACI AAGIAALWGP AHGGANEAVL KMLARIGKKE NIPAFIAQVK 301 DKNSGVKLMG FGHRVYKNFD PRAKIMQQTC HEVLTELGIK DDPLLDLAVE LEKIALSDDY 361 FVQRKLYPNV DFYSGIILKA MGIPTSMFTV LFAVARTTGW VSQWKEMIEE PGQRISRPRQ 421 LYIGAPQRDY VPLAKR // ------------------------------------------------------------------------------- Sample entry from GenPept flat file. This format of the data is suitable as an input data file for the GCG program GenBankToGCG/GENPEPT. Compatibility with other software has not been tested. If you have questions or comments concerning this data file, please contact: ------------------------------------------------------------------------------- Mark A. Gunnell | Internet: gunnell@ncifcrf.gov Sci. Applications Analyst | Bitnet: gunnell%ncifcrf.gov@cunyvm.bitnet Biomedical Supercomputer Center | Phone: (301) 846-5779 PRI/DynCorp | NCI-FCRDC | PO Box B, Bldg 430 | Frederick, MD 21702-1201 USA | =============================================================================== GenPept (R) is a registered trademark of the U.S. Department of Health and Human Services for the GenBank Gene Products Data Bank. GenBank (R) is a registered trademark of the U.S. Department of Health and Human Services for the Genetic Sequence Data Bank. From owner-bio-matrix@net.bio.net Sun Feb 21 22:00:00 1993 Path: biosci!WELCHGATE.WELCH.JHU.EDU!kab From: kab@WELCHGATE.WELCH.JHU.EDU (Kerryn Brandt) Newsgroups: bionet.molbio.bio-matrix Subject: Position announcement: Database Training Instructor Message-ID: Date: 22 Feb 93 16:19:21 GMT Sender: daemon@net.bio.net Distribution: bionet Lines: 68 ************************* * POSITION ANNOUNCEMENT * ************************* Database Training Instructor Applied Research Laboratory William H. Welch Medical Library The Johns Hopkins University This position in the Lab's User Services Group has responsibility for developing, modifying, and delivering an expanding program of training and outreach activities for the Lab's databases (including the Genome Data Base and Online Mendelian Inheritance in Man) and for related databases produced by other organizations. GDB and OMIM, supported by the Department of Energy and the National Institutes of Health, are central repositories for human gene mapping and genetic disease data. This is a Research Associate (non tenure-track faculty) position. Duties +Teach courses and present demonstrations in the Lab training facility as well as at similar facilities at other universities and research centers both nationally and internationally +Develop and evaluate training activities, both classroom and non-classroom-based, to reflect changes in the databases and the needs of the user community +Contribute to the design and updating of courses and other training materials appropriate to a diverse and distributed scientific community including students, senior faculty, industrial researchers, clinicians, and information specialists +Present demonstrations at exhibit booths and offer workshops at scientific meetings +Provide feedback and input to the Lab's Product Development and Data Management Groups +Provide support to the user community as part of the GDB User Support team Requirements Graduate degree in the life sciences or related field; M.L.S. or M.A./M.S. in information systems; 3-5 years experience with and through knowledge of biological/medical databases, including the provision of product services/training/demonstrations to the user community. Excellent teaching and communication skills. Ability to work with other professional staff, both in the Lab and at other institutions. Strong commitment to user service. Willingness to travel up to 20 percent. Training in molecular biology/genetics and experience with sequence analysis software is highly desirable. Salary is negotiable and competitive. Send (via US mail, email or fax) letter of application, resume/CV, and salary requirements to: Manager of User Services Applied Research Laboratory William H. Welch Medical Library The Johns Hopkins University 2024 E. Monument St. Baltimore, MD 21205-2100 FAX: (410)-614-0434 Internet: ksg@library.welch.jhu.edu