From BIOSCI-REQUEST Tue Dec 2 17:55:44 1997 Return-Path: BIOSCI-REQUEST Received: (from daemon@localhost) by net.bio.net (8.6.12/8.6.6) id RAA01399; Tue, 2 Dec 1997 17:55:44 -0800 Received: from genome.biotech.washington.edu (genome.biotech.washington.edu [128.95.231.12]) by net.bio.net (8.6.12/8.6.6) with ESMTP id RAA01387; Tue, 2 Dec 1997 17:55:43 -0800 Received: (from eugene@localhost) by genome.biotech.washington.edu (8.8.5/8.8.5) id RAA08438 for rna@net.bio.net; Tue, 2 Dec 1997 17:55:15 -0800 Date: Tue, 2 Dec 1997 17:55:15 -0800 From: Eugene Kolker Message-Id: <199712030155.RAA08438@genome.biotech.washington.edu> To: rna@net.bio.net Subject: RECOMB98: Call for Posters CALL FOR RECOMB 98 POSTERS Please send a one-page abstract (about 200 words, plain justified text, formatted to fit European Standard A-4: 8.5X11 inch or 21.5X28 cm) of your Poster including title, author(s), affiliation and abstract-text to Martin Vingron DKFZ, Theoretische Bioinformatik (0815) INF 280 69120 Heidelberg Germany The actual poster space will be about 15 pages. A booklet with the accepted poster abstracts will be produced and available at the conference. Deadline for poster abstract submission: January 1, 1998 Notification of acceptance/rejection: January 16, 1998 From BIOSCI-REQUEST Fri Dec 5 09:11:35 1997 Return-Path: BIOSCI-REQUEST Received: (from daemon@localhost) by net.bio.net (8.6.12-r-beta/8.6.6) id JAA19141; Fri, 5 Dec 1997 09:11:35 -0800 Received: from ouray.cudenver.edu (root@ouray.cudenver.edu [132.194.10.9]) by net.bio.net (8.6.12-r-beta/8.6.6) with SMTP id JAA19137; Fri, 5 Dec 1997 09:11:33 -0800 Received: by ouray.cudenver.edu (5.65v4.0/DEC-OSF/1.2) id AA01662; Fri, 5 Dec 1997 10:12:49 -0700 Message-Id: <348833CF.32C9@ouray.cudenver.edu> Date: Fri, 05 Dec 1997 10:03:11 -0700 From: "I.C. Chang" Reply-To: ichang@ouray.cudenver.edu Organization: Jade, Inc X-Mailer: Mozilla 3.0Gold (Win95; I) Mime-Version: 1.0 To: rna@net.bio.net Subject: Marketing for RNA Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit Hi, there I am a MBA student working on a marketing strategy project for RNA. Technically, it is hard for me to understand biological research. but from the stand point of marketing, I would like to collect some data/information related marketing, such as product life cycle, pricing, or future of RNA. Does anyone knows where I can get these information. Please send me e-mail at ichang@ouray.cudenver.edu Thank you further for your help !! Jimmy Chang From BIOSCI-REQUEST Tue Dec 9 02:00:14 1997 Return-Path: BIOSCI-REQUEST Received: (from daemon@localhost) by net.bio.net (8.6.12-r-beta/8.6.6) id CAA10090; Tue, 9 Dec 1997 02:00:14 -0800 Received: (from biohelp@localhost) by net.bio.net (8.6.12-r-beta/8.6.6) id CAA10073; Tue, 9 Dec 1997 02:00:10 -0800 Date: Tue, 9 Dec 1997 02:00:10 -0800 From: BIOSCI Administrator Message-Id: <199712091000.CAA10073@net.bio.net> To: rna@net.bio.net Subject: BIOSCI/bionet miniFAQ & Fundraiser (LAST REVISION: 30-JUL-95) This BIOSCI "miniFAQ" is designed to answer the questions that come up the *most frequently*. The main BIOSCI FAQ (Frequently Asked Questions) is accessible on the World Wide Web at URL http://www.bio.net/. If you can not find an answer to your question in this or other documentation, the BIOSCI technical support staff answers e-mail queries sent to biosci-help@net.bio.net We can only answer questions about the use of the newsgroups and mailing lists. We unfortunately do not have the staff to do Internet information searches or answer scientific questions. Please post those to the appropriate BIOSCI/bionet newsgroups. Contents: -------- 0) BIOSCI NEEDS YOUR SUPPORT!! 1) Using the WWW to access the BIOSCI/bionet newsgroups. 2) What to do about "spams," i.e., junk mail, ads, etc. 3) Examples of subscribing and unsubscribing to the mailing lists. 4) The BIOSCI user address and research interest directory. 0) BIOSCI NEEDS YOUR SUPPORT!! ------------------------------ BIOSCI's government funding has been expended, and we are now operating solely from advertising revenue that we have raised from our Web site at http://www.bio.net/. We need just a few minutes of your time to help us serve you. You can do two important things which will take very little time for you individually and will immensely help us continue to help you. First, please use our WWW system at http://www.bio.net/ to access the archives. You can post or reply to messages via your Web browser as described in item #1 below. Your usage helps attract sponsors. If you contact any of our sponsors, please be sure to thank them for supporting BIOSCI. It is critical for them to get this feedback if they are to continue their sponsorship for the long term. Second, if you work for a company or organization that provides products or services of interest to the biology community, please pass this message on to your marketing or marketing communications department or other appropriate group. Please ask them to help support BIOSCI by sponsoring our Web site and explain the uses and benefits of the system to the biology community. If they are interested, they can then contact us for further information at our tech support address, biosci-help@net.bio.net. 1) Using the WWW to access the BIOSCI/bionet newsgroups. -------------------------------------------------------- As of 10 December 1995, all BIOSCI/bionet full newsgroups are accessible through the World Wide Web (WWW) at URL http://www.bio.net. One can read and reply publicly or privately to both recent postings and archived messages through one's Web browser if it is configured properly to send e-mail. Each newsgroup is equipped with its own WAIS index. The main BIOSCI home page also has access to the BIO-JOURNALS Table of Contents database WAIS index and the BIOSCI user address database described in another item further below. 2) What to do about "spams," i.e., junk mail, ads, etc. ------------------------------------------------------- BIOSCI is a set of parallel USENET newsgroups (the "bionet" groups), mailing lists, and a hypermail archive at URL http://www.bio.net/. The same postings are distributed on all media (except for a small number of mailing-list-only groups at net.bio.net). Unfortunately it is becoming a despicable practice on the Internet (by a few people out to make a fast buck) to do automated mass postings to thousands of newsgroups and mailing lists. These attempts to grab free advertising are refered to as "spams" in the usual, somewhat boneheaded, net terminology. USENET is more susceptible to this practice, and many spams originate on the USENET groups and then are passed on to the mailing lists. However, spammers also get lists of mailing addresses and hit these too, so neither medium is immune. What should you do personally if you get junk mail? --------------------------------------------------- Just delete it and move on without reading it further. Filing a protest is becoming increasingly useless because spammers are often disguising the addresses where the messages are sent from. Unless you really understand Internet mail systems, your attempt at protest by sending replies to the message will often end up being sent to the address of an innocent person that the spammer is victimizing. What can BIOSCI/bionet do to protect its newsgroups? ---------------------------------------------------- The only solution currently available is to moderate the newsgroup. If this newsgroup is already moderated, then you are in good shape. Moderation protects the USENET distribution from about 95% of the spams that are being sent to date and protects the mailing lists completely. Moderation means, however, that someone has to take the time to review each message before it goes out. We have set up software here that simply allows the moderator to forward to an address at net.bio.net messages that (s)he wishes to have distributed. This takes no more time than that needed to read the message and pass it on, say about 1 min. per message. Most newsgroups currently have a discussion leader who is responsible for their newsgroup. The discussions leaders and their e-mail addresses are listed in the BIOSCI Information Sheet which is available on the Web at http://www.bio.net/. If a newsgroup is being hit with too many junk postings, please contact the discussion leader for that group and see if there is interest in moderating the group. Please do not assume that by simply posting a complaint to the newsgroup itself, anyone on the BIOSCI staff will act on your complaint. With close to 100 newsgroups to run, the BIOSCI staff has to rely on the discussion leaders of each newsgroup to report problems directly to us at biosci-help@net.bio.net. We will moderate any of our newsgroups if the discussion leader tells us that the readership of the group wishes to do so and if a moderator is willing to do the work. For most BIOSCI/bionet groups, this entails only a few minutes of work each day. Moderating a newsgroup will resolve probably 95% of the junk postings on the USENET distribution. Unfortunately there are easy ways for determined spammers to override the moderation mechanism on USENET, but we can protect our e-mail subscribers from unwanted postings if the newsgroup is moderated. You can also access our newsgroups over the WWW at URL http://www.bio.net. While this Web interface will not stop spammers from trying to post to the groups, this will give you yet another way, besides using USENET news, to keep the junk out of your personal mail files. For those of you with local USENET news systems, the Web interface will also give you faster access to new newsgroups and recent postings. 3) Examples of subscribing and unsubscribing to the mailing lists. ------------------------------------------------------------------ PLEASE NOTE: The BIOSCI management does NOT act on subscription/unsubscription requests that are posted improperly to the newsgroups and mailing lists. People who do this only bother everyone on the lists to no avail. Please be sure to follow the proper procedures below. Gory details are in the BIOSCI Information sheets on the Web at http://www.bio.net. Below we give an example utilizing the METHODS-AND-REAGENTS list at both of our two BIOSCI sites: Users in the Americas and Pacific Rim countries who use the BIOSCI ------------------------------------------------------------------ node at computer net.bio.net: ---------------------------- A) Determine the "listname" which is the <=8 character mail address ^^^^^^^^^^^^^ for the group. These can be found in the BIOSCI Info. Sheet. For the METHODS-AND-REAGENTS group the mailing address is methods@net.bio.net. The listname is the portion of the address to the left of the @ sign, i.e., "methods". The listname is used with the "subscribe" and "unsubscribe" commands illustrated below. B) Mail all commands in the body of a mail message addressed to biosci-server@net.bio.net. Do NOT send commands to the newsgroup posting addresses! Leave the Subject: line blank, any text on it will be ignored. C) In the body of your message put one or more of the following commands with an "end" command on the last line, e.g., subscribe methods unsubscribe methods end Do NOT put your e-mail address or other text on these lines. The server only allows you to cancel your subscription if the address on your mail header matches the address on our mailing list. Please ask for help at biosci-help@net.bio.net if your address has changed, e.g., if you know you are on the list but the server tells you that you are not a member. Users in Europe, Africa, and Central Asia who use the BIOSCI node at -------------------------------------------------------------------- computer daresbury.ac.uk (also known as dl.ac.uk): ------------------------------------------------- To subscribe and unsubscribe to/from the BIOSCI lists, you need to specify the full USENET newsgroup name with "bionet-news." prepended. The USENET newsgroup names are listed in the BIOSCI Information sheet on the Web at http://www.bio.net/. For the METHODS-AND-REAGENTS list the USENET newsgroup name is bionet.molbio.methds-reagnts, thus the appropriate commands are sub bionet-news.bionet.molbio.methds-reagnts unsub bionet-news.bionet.molbio.methds-reagnts These commands are included in a message addressed to mxt@dl.ac.uk, NOT to the newsgroup mailing addresses. As usual, include the text in the body of the message as text on the Subject: line is ignored. To unsubscribe from all the lists at the UK node, use unsub bionet-news Please note that if the address in the list is different than 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. 4) The BIOSCI user address and research interest directory. ----------------------------------------------------------- Please take this opportunity to add your name, address, and research interest information to the BIOSCI User Address Database if you have not already done so. You can fill out the address form directly through our Web page at URL http://www.bio.net/adrform.html. The address database is reindexed nightly for WWW access (the URL is http://www.bio.net/). If you are not directly on the Internet but can reach it by e-mail, please use our waismail server to access the user directory. waismail use is described above. You can also request a user address form by e-mail from biosci-help@net.bio.net. Please check your database entry from time-to-time to see if your address information is still up-to-date. Because of our limited personnel resources, we ask that you resubmit a *complete* form to revise your entry; we only replace complete entries and do not have resources to edit old forms. From BIOSCI-REQUEST Fri Dec 12 10:27:12 1997 Return-Path: BIOSCI-REQUEST Received: (from daemon@localhost) by net.bio.net (8.6.12-r-beta/8.6.6) id KAA06625; Fri, 12 Dec 1997 10:27:12 -0800 Received: from genome.biotech.washington.edu (genome.biotech.washington.edu [128.95.231.12]) by net.bio.net (8.6.12-r-beta/8.6.6) with ESMTP id KAA06622; Fri, 12 Dec 1997 10:27:11 -0800 Received: (from eugene@localhost) by genome.biotech.washington.edu (8.8.5/8.8.5) id KAA04514 for rna@net.bio.net; Fri, 12 Dec 1997 10:26:38 -0800 Date: Fri, 12 Dec 1997 10:26:38 -0800 From: Eugene Kolker Message-Id: <199712121826.KAA04514@genome.biotech.washington.edu> To: rna@net.bio.net Subject: Recomb98: list of accepted papers The following 38 papers were selected by the RECOMB98 Program Committee for presentations among 123 submissions. For more details please visit our web site: http://www.mssm.edu/biomath/recomb98.html PAPER 001 P. Agarwal, V. Bafna Detecting non-adjoining correlations within signals in DNA. PAPER 002 A. Ben-Dor, B. Chor, D. Graur, R. Ophir, D. Pelleg >From four-taxon trees to phylogenies: The case of mammalian evolution. PAPER 003 G. Benson An Algorithm for Finding Tandem Repeats of Unspecified Pattern. PAPER 004 B. Berger, T. Leighton Protein Folding in the Hydrophobic-Hydrophilic (HP) Model is NP-Complete. PAPER 005 M. Bonet, M. Steel, T. Warnow, S. Yooseph Better Methods for Solving Parsimony and Compatiblity. PAPER 006 C. C. Chen, J. P. Singh, R. B. Altman The Hierarchical Organization of Molecular Structure Computations. PAPER 007 P. Crescenzi, D. Goldman, C. Papadimitriou, A. Piccolboni, M. Yannakakis On the Complexity of Protein Folding. PAPER 008 D. Fasulo, T. Jiang, R. M. Karp, N. Sharma Constructing Maps Using the Span and Inclusion Relations. PAPER 009 A. V. Finkelstein, A. Ya. Badretdinov How Fast a Protein Chain Can Fold to Its Most Stable Structure? PAPER 010 R. M. Fye, C. J. Benham A Formally Exact Method to Numerically Analyze Local Denaturation in Superhelical DNA PAPER 011 I. Gelfand, A. Kister, C. Kulikowski, O. Stoyanov Algorithmic Determination of Core Positions in the VL and VH Domains of Immunoglobulin Molecules PAPER 012 R. A. Goldstein, J. M. Koshi, D. P. Mindell Beyond mutation matrices: Physical-Chemistry based evolutionary models. PAPER 013 W. N. Grundy Family-based Homology Detection via Pairwise Sequence Comparison. PAPER 014 I. Holmes, R. Durbin Dynamic Programmimg Alignment Accuracy. PAPER 015 T. Hwa, M. Lassig Optimal Detection of Sequence Similarity by Local Alignment. PAPER 016 R. M. Karp, R.Shamir Algorithms for Optical Mapping. PAPER 017 P. E. Kearney Ordinal Beats Additive. PAPER 018 E. Koonin, R. Tatusov, M.Y. Galperin, M.N. Rozanov Genome analysis using clusters of orthologous groups (COGs). PAPER 019 J. K. Lee, V. Dancik, M. S. Waterman Estimation for restriction sites observed by optical mapping using reversible-jump markov chain monte carlo. PAPER 020 H. Lenhof, K. Reinert, M. Vingron A Polyhedral Approach to RNA Sequence Structure Alignment. PAPER 021 A. M. Lesk Assessment of Ab Initio Protein Structure Prediction. PAPER 022 R. Liu, T. W. Blackwell, D. J. States A structure based similarity measure for nucleic acid sequence comparison. PAPER 023 B. Ma, M. Li, L. Zhang On Reconstructing Species Trees From Gene Trees In Term of Duplications PAPER 024 L. Parida, B. Mishra Partitioning K Clones: Hardness Results and a Practical Solution to the K-Popultaions Problem. PAPER 025 D. G. Politte, D. R. Maffitt, D. J. States Estimaiton of Allele Frequencies From Color-Multiplexed Electropherograms. PAPER 026 M. Regnier A Unified Approach to Word Statistics PAPER 027 B. A. Reva, A. V. Finkelstein, J. Skolnick A self-consistent field optimization approach to build energetically and geometrically correct lattice models of proteins. PAPER 028 I. Rigoutsos, A. Floratos Motif Discovery in Biological Sequences Without Alignment or Enumeration. PAPER 029 E. Rocke, M. Tompa An Algorithm for Finding Novel Gapped Motifs in DNA sequences. PAPER 030 M. Sagot, E. W. Myers Identifying satellites in nucleic acid sequences. PAPER 031 D. Sankoff, M. Blanchette Multiple genome rearrangement. PAPER 032 F. Sun Modeling DNA shuffling. PAPER 033 S. R. Sunyaev, I. V. Rodchenkov Analysis of the Position Dependent Amino Acid Probabilities and its Application to the Search for Remote Homologues. PAPER 034 A. Vologodskii Maxwell demon and topology simplification by type II topoisomerases. PAPER 035 W. L.Walker, D. S. Goodsell, E. M.Landaw The Theoretical Limits of DNA sequence discrimination of Polyamides. PAPER 036 T. D. Wu, S. C. Schmidler, T. Hastie, D. L. Brutlag Regression Analysis of Multiple Protein Structures PAPER 037 Y. Xu, D. Xu, E. C. Uberbacher A New Method for modeling and solving the protein fold recognition problem. PAPER 038 Z. Zhang, P. Berman, W. Miller Alignments Without Low-Scoring Regions. If you do NOT want to be in our mailing list, please reply with Subject line "Recomb98: remove". Sorry, if you get this mail twice. From BIOSCI-REQUEST Tue Dec 23 12:37:06 1997 Return-Path: BIOSCI-REQUEST Received: (from daemon@localhost) by net.bio.net (8.6.12-r-beta/8.6.6) id MAA11913; Tue, 23 Dec 1997 12:37:06 -0800 Received: from genome.biotech.washington.edu (genome.biotech.washington.edu [128.95.231.12]) by net.bio.net (8.6.12-r-beta/8.6.6) with ESMTP id MAA11910; Tue, 23 Dec 1997 12:37:05 -0800 Received: (from eugene@localhost) by genome.biotech.washington.edu (8.8.5/8.8.5) id MAA08423 for rna@net.bio.net; Tue, 23 Dec 1997 12:36:29 -0800 Date: Tue, 23 Dec 1997 12:36:29 -0800 From: Eugene Kolker Message-Id: <199712232036.MAA08423@genome.biotech.washington.edu> To: rna@net.bio.net Subject: HNY Dear Colleagues, I wish you a great, bright, peaceful, successful, & productive New Year! May this year be blessed with joy. MERRY CHRISTMAS! MERRY CHRISTMAS! MERRY CHRISTMAS! HAPPY CHANUKKAH! HAPPY CHANUKKAH! HAPPY CHANUKKAH! __ ____ ____ || || //|| || || || || \\ // N N EEEE W W YY YY EEEE AAAA RRRR ||==|| // || || || || || \==/ NN N E W W YYYY E A A R R ||==|| //==|| ||==/ ||==/ || N N N EEEE W W W YY EEEE AAAA RRRR || || // || || || || N NN E W W W YY E A A R R || ||// || || || || N N EEEE WWWWW YY EEEE A A R RR Sincerely Eugene