From owner-molmodel@hgmp.mrc.ac.uk Tue Feb 1 02:34:53 2000 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id 39A1F17A6A; Tue, 1 Feb 2000 02:34:51 +0000 (GMT) Received: from niobium.hgmp.mrc.ac.uk (niobium [193.62.192.41]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id CAA26059 for ; Tue, 1 Feb 2000 02:34:49 GMT Received: (from news@localhost) by niobium.hgmp.mrc.ac.uk (8.9.3+Sun/8.8.8) id CAA21302 for molmodel-list@hgmp.mrc.ac.uk; Tue, 1 Feb 2000 02:34:48 GMT X-Authentication-Warning: niobium.hgmp.mrc.ac.uk: news set sender to using -f From: atthew1@indiatimes.com X-Newsgroups: bionet.molec-model Subject: Only 14 Good Reps Needed ... Date: 1 Feb 2000 02:34:47 -0000 Organization: MRC Human Genome Mapping Project Resource Centre Lines: 13 Message-ID: <200002010232.FAA17149@trantor.ncom.ru> X-Trace: niobium.hgmp.mrc.ac.uk 949372488 21298 193.62.192.80 (1 Feb 2000 02:34:48 GMT) X-Complaints-To: news@net.bio.net X-Received: from trantor.ncom.ru (trantor-inet.ncom.nnov.su [194.58.55.129]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id CAA26026 for ; Tue, 1 Feb 2000 02:34:24 GMT X-Received: from nica-com.ncom.ru (nica-com.ncom.nnov.su [194.58.55.202]) by trantor.ncom.ru (8.8.7/8.8.7) with SMTP id FAA17149 for ; Tue, 1 Feb 2000 05:32:39 +0300 X-Received: from comp6 (98AABC47.ipt.aol.com [152.170.188.71]) by nica-com.ncom.ru; Tue, 01 Feb 2000 05:33:41 +0300 X-To: reps@hotmail.com To: molmodel@hgmp.mrc.ac.uk Sender: owner-molmodel@hgmp.mrc.ac.uk Precedence: bulk

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--- From owner-molmodel@hgmp.mrc.ac.uk Thu Feb 3 16:25:50 2000 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id E031017A7C; Thu, 3 Feb 2000 16:25:48 +0000 (GMT) Received: from niobium.hgmp.mrc.ac.uk (niobium [193.62.192.41]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id QAA04500 for ; Thu, 3 Feb 2000 16:25:42 GMT Received: (from news@localhost) by niobium.hgmp.mrc.ac.uk (8.9.3+Sun/8.8.8) id QAA24634 for molmodel-list@hgmp.mrc.ac.uk; Thu, 3 Feb 2000 16:25:41 GMT X-Authentication-Warning: niobium.hgmp.mrc.ac.uk: news set sender to using -f From: Shawn Strande X-Newsgroups: bionet.molec-model Subject: ISMB 2000: Final Call for Papers Date: Thu, 03 Feb 2000 08:22:50 -0800 Organization: San Diego SuperComputer Center at UCSD Lines: 88 Message-ID: <3899AB5A.C850FBD2@sdsc.edu> Mime-Version: 1.0 Content-Type: multipart/mixed; boundary="------------EA075B651FAEFCA90C115C94" X-Mailer: Mozilla 4.61 [en] (X11; U; SunOS 5.5.1 sun4u) X-Accept-Language: en To: molmodel@hgmp.mrc.ac.uk Sender: owner-molmodel@hgmp.mrc.ac.uk Precedence: bulk This is a multi-part message in MIME format. --------------EA075B651FAEFCA90C115C94 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit --------------EA075B651FAEFCA90C115C94 Content-Type: text/plain; charset=us-ascii; name="final" Content-Transfer-Encoding: 7bit Content-Disposition: inline; filename="final" FINAL CALL FOR PAPERS The Eighth International Conference on Intelligent Systems for Molecular Biology (ISMB 2000) August 19 - August 23, 2000 San Diego, California USA http://ismb2000.sdsc.edu Submission deadlines are rapidly approaching for papers, posters, and demonstrations for the upcoming Eighth International Conference on Intelligent Systems for Molecular Biology (ISMB 2000), August 19-23, 2000, UC San Diego, California USA. Essential information is given below, with additional details available at: http://ismb2000.sdsc.edu. We look forward to your participation to help make this a successful meeting. Sincerely, Phil Bourne & Michael Gribskov Program Chairs, ISMB 2000 ------------------------ Papers ------ Deadline for receipt: February 14, 2000 Papers should be a maximum of 12 pages, single-spaced, including title, abstract, figures, tables, and bibliography. The first page should give keywords, postal and electronic mailing addresses, telephone and fax numbers. Submit papers electronically to ismb2000@sdsc.edu in either postscript or pdf format. Papers will only be accepted electronically. Complete formatting details are available at: http://www.aaai.org/Publications/Author/authorinstructions.html PAPERS NOT CONFORMING TO THESE GUIDELINES WILL BE RETURNED WITHOUT REVIEW. Tutorials --------- Closed. Posters and Software Demonstrations ----------------------------------- Abstracts due: May 31, 2000 An abstract of your poster should be submitted by May 31, 2000, including title, author(s), affiliation(s), e-mail address(es), text, and references. Poster space will be approximately 145 cm (4 ft) high by 110 (3 ft) cm wide. If you represent an academic group and wish to demonstrate software, please notify the conference organizers by sending e-mail to ismb2000@sdsc.edu as soon as possible. Key Dates --------- Meeting: Tutorial presentations: Aug 19, 2000 Paper presentations: Aug 20-23, 2000 Paper Submissions: Papers must be received by: Feb 14, 2000 Replies to authors by: Mar 20, 2000 Revised papers must be received by: Apr 10, 2000 Open Poster Submissions Abstracts must be received by: May 31, 2000 Tutorial Proposals Closed. Registration Begins: Apr. 15, 2000 Ends: June 15, 2000 --------------EA075B651FAEFCA90C115C94-- From owner-molmodel@hgmp.mrc.ac.uk Thu Feb 3 23:16:25 2000 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id 9BA6717A4E; Thu, 3 Feb 2000 23:16:24 +0000 (GMT) Received: from niobium.hgmp.mrc.ac.uk (niobium [193.62.192.41]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id XAA18842 for ; Thu, 3 Feb 2000 23:16:22 GMT Received: (from news@localhost) by niobium.hgmp.mrc.ac.uk (8.9.3+Sun/8.8.8) id XAA08389 for molmodel-list@hgmp.mrc.ac.uk; Thu, 3 Feb 2000 23:16:21 GMT X-Authentication-Warning: niobium.hgmp.mrc.ac.uk: news set sender to using -f From: maria2323@laoffices.com X-Newsgroups: bionet.molec-model Subject: TV De-scambler 4 under $17 Date: 3 Feb 2000 23:16:19 -0000 Organization: BIOSCI/MRC Human Genome Mapping Project Resource Centre Lines: 71 Message-ID: <200002021452.QAA93009@silias.as.huji.ac.il> X-Trace: niobium.hgmp.mrc.ac.uk 949619780 8386 193.62.192.80 (3 Feb 2000 23:16:20 GMT) X-Complaints-To: news@net.bio.net X-Received: from cc.huji.ac.il (cc.huji.ac.il [132.64.1.5]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id XAA18822 for ; Thu, 3 Feb 2000 23:16:17 GMT X-Received: from silias.as.huji.ac.il (silias.as.huji.ac.il [132.64.128.80]) by cc.huji.ac.il (8.9.3/8.9.3) with ESMTP id BAA17578; Fri, 4 Feb 2000 01:15:14 +0200 (GMT+0200) X-Received: from silias.as.huji.ac.il (max1-117.losangeles.corecomm.net [216.214.106.245]) by silias.as.huji.ac.il (980427.SGI.8.8.8/8.7.1) with SMTP id QAA93009; Wed, 2 Feb 2000 16:52:52 +0200 (IST) X-To: fghjgjkhjkhkhkjhjk@silias.as.huji.ac.il X-Reply-To: xxxxxxxxxxx@silias.as.huji.ac.il To: molmodel@hgmp.mrc.ac.uk Sender: owner-molmodel@hgmp.mrc.ac.uk Precedence: bulk CABLE TV DE-SCRAMBLER Build Your Own Cable De-scrambler for less than $17. There are only 7 Simple steps to follow, and all the parts (parts number list provided) can be easily found at your local electronics store. We Send You: ¨ E-Z To follow Assembly Instructions. ¨ E-Z To read Original Drawings. ¨ The Parts List. Frequently Asked Questions--CABLE TV DE-SCRAMBLER Q: Will the de-scrambler work on Fiber, TCI, Jarrod and Satellite systems? A: The answer is YES. Q: Do I need a converter box? A: This plan works with or without a converter box. Specific Instructions are included in the plan for each. Q: Can the de-scrambler be detected? A: No, the signal de-scrambles right at the box and does not Move back thorough the line. Q: Do I have to alter my existing cable system, television or VCR? A: The answer is no. Q: Does this work everywhere across the country? A: Yes, every where in the USA plus England, Brazil, and Other countries. Q: When I order, when will I get my stuff? A: We mail out all orders within 24 hours of receiving it. To get the instruction plans, the easy to follow diagram, and parts list. Just send $17, (Cash, Check or Money Order.) and you will receive your Cable De-scrambler Plans right away. You get the complete package all for just $17 (Shipping and Handling included) Send your orders to: SMA 1300 N. Cahuenga BLVD #292 Hollywood, CA 90028 PRINT YOUR: NAME______________________________________________ ADDRESS___________________________________________ CITY/STATE/ZIP____________________________________ PHONE NUMBER______________________________________ E-MAIL ADDRESS____________________________________ SMA is a member with the Better Business Bureau. Thank you for your interest. (DISCLAIMER pleases notes: This information is being provided for educational purposes only. The information itself is legal, while the usage of such information may be illegal. We do not advocate unauthorized use or theft of cable services. If in doubt check your local laws and act accordingly.) --- From owner-molmodel@hgmp.mrc.ac.uk Tue Feb 8 14:44:18 2000 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id 8A5A917BA3; Tue, 8 Feb 2000 14:44:14 +0000 (GMT) Received: from niobium.hgmp.mrc.ac.uk (niobium [193.62.192.41]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id OAA05187; Tue, 8 Feb 2000 14:44:01 GMT Received: (from news@localhost) by niobium.hgmp.mrc.ac.uk (8.9.3+Sun/8.8.8) id OAA06970; Tue, 8 Feb 2000 14:44:00 GMT X-Authentication-Warning: niobium.hgmp.mrc.ac.uk: news set sender to using -f From: Simon Hubbard X-Newsgroups: bionet.molec-model,bionet.jobs,bionet.jobs.offered,bionet.molbio.proteins,comp.jobs Subject: UK PhD Position in Bioinformatics at UMIST, Manchester Date: 8 Feb 2000 14:44:00 -0000 Organization: UMIST Lines: 36 Message-ID: <389FDB83.C13AB34@sjh.bi.umist.ac.uk> Reply-To: Simon.Hubbard@umist.ac.uk Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Trace: niobium.hgmp.mrc.ac.uk 950021040 6968 193.62.192.80 (8 Feb 2000 14:44:00 GMT) X-Complaints-To: news@net.bio.net X-Accept-Language: en X-Auth: PGPMoose V1.1 PGP bionet.jobs.offered iQCVAwUAOKArq6CIqsWvyF5FAQENiAP+If2v4kS4rhXHIgPKwSybmkofW3eIIpy+ Xinfx9JL+d3GkjchRPmHuTtlXRdmeQssN1Cwb5HuKidqYUl3xNSFbLa2P5LZ/6H3 lS6uR4jLzWPCinS7Kjm4JSiEG6x6utz5HoLW5QgPdgFTBr6yRkeSI8ITWwA45zwV qdWQhTXlYdQ= =KXb+ To: molmodel@hgmp.mrc.ac.uk, proteins@hgmp.mrc.ac.uk Sender: owner-molmodel@hgmp.mrc.ac.uk Precedence: bulk UK PhD Position in Bioinformatics at UMIST, Manchester NOVEL BIOINFORMATIC APPROACHES TO PROTEOME PROTEIN IDENTIFICATION A 3 year BBSRC/EPSRC studentship in Bioinformatics is available from October 2000 working in the group of Dr. Simon Hubbard at UMIST, Manchester. The project will entail developing and extending exisiting programs and tools for proteome protein identification from mass spectrometric data. Novel data sources will be evaluated, including non-denaturing digestions on proteins prior to analysis and the ability to "jump-species" will be investigated. Results will be exploited in a new range of software for proteome protein identification. These will then be tested using exemplary systems where mass spectrometric data is already being collected here at UMIST. Examples include studies on the Chicken muscle proteome (Beynon group) and the protein phosphorylation in developmental pathways in leukaemic cell lines (Whetton group). The ability of the tools to routinely identify likely protein matches will be assessed. For more details on the project, see http://sjh.bi.umist.ac.uk/~sjh or email Simon.Hubbard@umist.ac.uk Applicants should have a good first degree in a Science, which does not necessarily contain a biological component. Applications are particularly welcome from students with computational and/or physical backgrounds. BBSRC/EPSRC studentships are only open to UK/EU applicants. -- ____________________________________________________________________ Dr. Simon Hubbard TEL: +44 (0)161 200 8930 Lecturer FAX: +44 (0)161 236 0409 Department of Biomolecular Sciences mailto:sjh@sjh.bi.umist.ac.uk UMIST, PO Box 88, Manchester M60 1QD http://sjh.bi.umist.ac.uk/~sjh From owner-molmodel@hgmp.mrc.ac.uk Thu Feb 10 19:30:49 2000 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id 0F5A717A71; Thu, 10 Feb 2000 19:30:48 +0000 (GMT) Received: from niobium.hgmp.mrc.ac.uk (niobium [193.62.192.41]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id TAA17072 for ; Thu, 10 Feb 2000 19:30:47 GMT Received: (from news@localhost) by niobium.hgmp.mrc.ac.uk (8.9.3+Sun/8.8.8) id TAA03070 for molmodel-list@hgmp.mrc.ac.uk; Thu, 10 Feb 2000 19:30:46 GMT X-Authentication-Warning: niobium.hgmp.mrc.ac.uk: news set sender to using -f From: jschenkm@neuron.uchc.edu ("John B. Schenkman") X-Newsgroups: bionet.molec-model Subject: Postdoctoral Position Available Date: 10 Feb 2000 19:30:45 -0000 Organization: BIOSCI/MRC Human Genome Mapping Project Resource Centre Lines: 30 Message-ID: <3.0.3.32.20000210143406.009226b0@neuron.uchc.edu> Mime-Version: 1.0 Content-Type: text/plain; charset="us-ascii" X-Trace: niobium.hgmp.mrc.ac.uk 950211045 3068 193.62.192.80 (10 Feb 2000 19:30:45 GMT) X-Complaints-To: news@net.bio.net X-Received: from neuron.uchc.edu (neuron.uchc.edu [155.37.1.1]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id TAA17060 for ; Thu, 10 Feb 2000 19:30:43 GMT X-Received: from JSCHENKM95 ([155.37.16.57]) by neuron.uchc.edu with SMTP (Microsoft Exchange Internet Mail Service Version 5.5.2650.21) id 1PZAP9Z1; Thu, 10 Feb 2000 14:30:12 -0500 X-Sender: jschenkm@neuron.uchc.edu X-Mailer: QUALCOMM Windows Eudora Pro Version 3.0.3 (32) X-To: molmodel@hgmp.mrc.ac.uk To: molmodel@hgmp.mrc.ac.uk Sender: owner-molmodel@hgmp.mrc.ac.uk Precedence: bulk Postdoctoral Position at the University of Connecticut We are seeking a strongly motivated individual to aid in the investigation of the role of cytochrome P450 in tissue development. Successful candidate must have understanding of biochemistry, be familiar with protein purification, and enzyme assays. Other useful techniques include immunochemical analyses, GC/MS, and HPLC. The group has linked the disease Primary Congenital Glaucoma to defects in the enzyme Cytochrome P450 1B1. The planned study will attempt to discern the mechanism whereby defective CYP1B1 results in formation of a defective trabecular meshwork in the developing eye. Initial molecular modeling has revealed how structural defect influence properties of the enzyme. Send Curriculum vitae to: Dr. John B. Schenkman Department of Pharmacology University of Connecticut Health Center Farmington, CT 06030, USA or: jschenkm@neuron.uchc.edu *************************************************** Dr. John B. Schenkman, Professor Department of Pharmacology University of Connecticut Health Center 263 Farmington Ave. Farmington, CT 06030 tel: (860) 679-3694 FAX (860) 679-2473 email: jschenkm@neuron.uchc.edu My WebPage:http://p450.uchc.edu *************************************************** --- From owner-molmodel@hgmp.mrc.ac.uk Fri Feb 11 01:06:48 2000 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id 9465A17A73; Fri, 11 Feb 2000 01:06:47 +0000 (GMT) Received: from niobium.hgmp.mrc.ac.uk (niobium [193.62.192.41]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id BAA18386; Fri, 11 Feb 2000 01:06:45 GMT Received: (from news@localhost) by niobium.hgmp.mrc.ac.uk (8.9.3+Sun/8.8.8) id BAA15766; Fri, 11 Feb 2000 01:06:44 GMT X-Authentication-Warning: niobium.hgmp.mrc.ac.uk: news set sender to using -f From: szia@hanga.enzim.hu (Andras Szilagyi) X-Newsgroups: bionet.molec-model,bionet.software Subject: E-mail address of Anthony Nicholls? Date: 11 Feb 2000 01:06:46 GMT Organization: IIF Lines: 14 Message-ID: X-Newsreader: slrn (0.9.4.3 UNIX) To: bio-software@hgmp.mrc.ac.uk, molmodel@hgmp.mrc.ac.uk Sender: owner-molmodel@hgmp.mrc.ac.uk Precedence: bulk Hi, does anybody know the current e-mail address of Anthony Nicholls, the author of GRASP? GRASP is a software for coloring protein surfaces by some properties, most often the electrostatic potential. Anthony Nicholls used to be in Barry Honig's lab at Columbia University but he is apparently not there any longer. If you know his current e-mail address then please e-mail me. Andras Szilagyi, PhD (szia@enzim.hu) Institute of Enzymology, Hungarian Academy of Sciences Karolina ut 29., H-1113 Budapest, HUNGARY Fax: +36 1 466 5465, phone: +36 1 466 5633 From owner-molmodel@hgmp.mrc.ac.uk Sat Feb 12 00:47:15 2000 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id 0919D17A74; Sat, 12 Feb 2000 00:47:14 +0000 (GMT) Received: from niobium.hgmp.mrc.ac.uk (niobium [193.62.192.41]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id AAA25749 for ; Sat, 12 Feb 2000 00:47:13 GMT Received: (from news@localhost) by niobium.hgmp.mrc.ac.uk (8.9.3+Sun/8.8.8) id AAA11629 for molmodel-list@hgmp.mrc.ac.uk; Sat, 12 Feb 2000 00:47:11 GMT X-Authentication-Warning: niobium.hgmp.mrc.ac.uk: news set sender to using -f From: "Andrew C.R. Martin" X-Newsgroups: bionet.molec-model,comp.ai Subject: CFP: AI in Bioinformatics Symposium Followup-To: poster Date: 12 Feb 2000 11:45:46 +1100 Organization: Reading University Lines: 68 Message-ID: <882afq$qsu$1@mulga.cs.mu.OZ.AU> X-No-Markup: yes X-Date: 11 Feb 2000 23:27:23 -0000 X-Mod: ? To: molmodel@hgmp.mrc.ac.uk Sender: owner-molmodel@hgmp.mrc.ac.uk Precedence: bulk ****************************************************** SYMPOSIUM ON ARTIFICIAL INTELLIGENCE IN BIOINFORMATICS ****************************************************** This symposium will take place as part of: Time for AI and Society 2000 Convention of the Society for the Study of Artificial Intelligence and the Simulation of Behaviour (AISB-00) University of Birmingham England Convention: 17th-20th April 2000 Symposium: 19th-20th April 2000 This symposium intends to draw together those who are applying artificial intelligence techniques to bioinformatics related issues. Participants are keenly sought from both a lifesciences background and a computer sciences background. The symposium will hope to make a significant contribution to the computer scientists' appreciation of the bioinformatics-related opportunities for the techniques, and the life scientists' appreciation of the potential of artificial intelligence methods. The provisional list of speakers includes: Robert Burbidge (UCL) Thomas Dandekar (EMBL) David Gilbert (City) Kevin Humphreys (Sheffield) Richard M. Jackson (UCL) Steffen Moeller (EBI) Martin Reese (Berkeley) Marcel Turcotte (ICRF) !!! Poster presentations are welcome !!! More information is available on the symposium is available from: http://www.rdg.ac.uk/~sas99acm/aisb00/ or on the convention as a whole: http://www.cs.bham.ac.uk/~mgl/aisb/ Registration information: http://www.cs.bham.ac.uk/~mgl/aisb/registration/ You may also contact the symposium organisers directly: Andrew C.R. Martin (Animal & Microbial Sciences, University of Reading) a.c.r.martin@reading.ac.uk David W. Corne (Computer Science, University of Reading) d.w.corne@reading.ac.uk -- Dr. Andrew C.R. Martin EMail: a.c.r.martin@reading.ac.uk (work) Lecturer in Bioinformatics andrew@stagleys.demon.co.uk (home) University of Reading Tel.: +44 (0)118 987 5123x7022 Fax: +44 (0)118 931 0180 [ comp.ai is moderated. To submit, just post and be patient, or if ] [ that fails mail your article to , and ] [ ask your news administrator to fix the problems with your system. ] From owner-molmodel@hgmp.mrc.ac.uk Sat Feb 12 13:28:44 2000 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id 07EA617B9B; Sat, 12 Feb 2000 13:28:43 +0000 (GMT) Received: from niobium.hgmp.mrc.ac.uk (niobium [193.62.192.41]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id NAA06404 for ; Sat, 12 Feb 2000 13:28:40 GMT Received: (from news@localhost) by niobium.hgmp.mrc.ac.uk (8.9.3+Sun/8.8.8) id NAA20533 for molmodel-list@hgmp.mrc.ac.uk; Sat, 12 Feb 2000 13:28:39 GMT X-Authentication-Warning: niobium.hgmp.mrc.ac.uk: news set sender to using -f From: duo47@kurasc.kyoto-u.ac.jp (dan) X-Newsgroups: bionet.molec-model Subject: Private Offshore Club Pays You by the Minute! 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Send an email to techrun78@internetdrive.com ------------------------------------------------------- 91085223661741105737 S=i92 From owner-molmodel@hgmp.mrc.ac.uk Wed Feb 16 18:09:10 2000 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id 8303E17A77; Wed, 16 Feb 2000 18:08:57 +0000 (GMT) Received: from niobium.hgmp.mrc.ac.uk (niobium [193.62.192.41]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id SAA23477 for ; Wed, 16 Feb 2000 18:08:53 GMT Received: (from news@localhost) by niobium.hgmp.mrc.ac.uk (8.9.3+Sun/8.8.8) id SAA09863 for molmodel-list@hgmp.mrc.ac.uk; Wed, 16 Feb 2000 18:08:52 GMT X-Authentication-Warning: niobium.hgmp.mrc.ac.uk: news set sender to using -f From: "Tatsuya Akutsu" X-Newsgroups: bionet.molec-model Subject: RECOMB 2000: preliminary program and updates Date: Mon, 14 Feb 2000 11:14:55 +0900 Organization: Human Genome Center, Inst. of Medical Science, Univ. of Tokyo, Japan. Lines: 280 Message-ID: <887o33$mo4$1@gray.ims.u-tokyo.ac.jp> Mime-Version: 1.0 Content-Type: text/plain; charset="iso-2022-jp" Content-Transfer-Encoding: 7bit X-Priority: 3 X-MSMail-Priority: Normal X-Newsreader: Microsoft Outlook Express 5.00.2314.1300 X-MimeOLE: Produced By Microsoft MimeOLE V5.00.2314.1300 To: molmodel@hgmp.mrc.ac.uk Sender: owner-molmodel@hgmp.mrc.ac.uk Precedence: bulk Dear colleague: Enclosed is the preliminary program of RECOMB 2000. We are looking forward to an exciting program, including nine keynote presentations by distinguished scientists, 36 contributed talks selected by the Program Committee, and 120 accepted posters. Please note: the early registration deadline is February 20, 2000. The deadline for hotel reservation is March 1, 2000. The list of accepted posters, as well as resigration and hotel information, is available at http://recomb2000.ims.u-tokyo.ac.jp. Further updates will be posted on the website. See you in Tokyo, Ron Shamir RECOMB 2000 Program Chair ---------------------------------------------------------------- FOURTH ANNUAL INTERNATIONAL CONFERENCE ON COMPUTATIONAL MOLECULAR BIOLOGY (RECOMB 2000) April 8-11, 2000 Tokyo, Japan Organized by Human Genome Center, Institute of Medical Science, University of Tokyo Sponsored by ACM (Association for Computing Machinery) - SIGACT with support from Agilent Laboratories Compugen IBM Corporation International Society for Computational Biology SmithKline Beecham US National Science Foundation US Department of Energy http://recomb2000.ims.u-tokyo.ac.jp Preliminary Program ------------------- Friday April 7 *************** 16-19 Welcome and Registration 18:00 Reception Saturday April 8 **************** 9:00 opening remarks Ron Shamir, RECOMB 2000 Program Chair Satoru Miyano, RECOMB 2000 Organizing Committee Chair Thomas Lengauer, RECOMB 2001 Program Chair 9:15-10:15 The Stanislaw Ulam Computational Biology Address. Minoru Kanehisa : Sequence Comparison to Graph Comparison-A New Generation of Algorithms for Network Analysis of Interacting Molecules 10:20-10:45 S. Batzoglou, L. Pachter, J. P. Mesirov, B. Berger, E. S. Lander: Comparative Analysis of Mouse and Human DNA and Applications to Exon Prediction 10:45-11:10 P. Pevzner, V. Dancik, C. L. Tang: Mutation-Tolerant Protein Identification by Mass-Spectrometry 11:10-11:40 break 11:40-12:05 N. Friedman, M. Linial, I. Nachman, D. Pe'er: Using Bayesian Networks to Analyze Expression Data 12:05-12:30 A. Ben-Dor, L. Bruhn, N. Friedman, I. Nachman, M. Schummer, Z. Yakhini: Tissue classification with gene expression profiles 12:30-12:55 D. K. Slonim, P. Tamayo, J. P. Mesirov, T. R. Golub, E. S. Lander: Class prediction and discovery using gene expression data 12:55-14:15 lunch (poster setup period) 14:15-15:15 Keynote Lecture: Hans Lehrach A Data-Analysis Pipeline for Large-Scale Gene Expression Analysis 15:20-15:45 C. Bailey-Kellogg, A. Widge, J. J. Kelley, M. J. Berardi, J. H. Bushweller, B. R. Donald: The NOESY Jigsaw: automated protein secondary structure and main-chain assignment from sparse, unassigned NMR data 15:45-16:10 J. M. Sorenson, T. Head-Gordon: Matching simulation and experiment: a new simplified model for simulating protein folding 16:10-16:40 break 16:40-17:40 Keynote Lecture: Svante Paabo DNA Sequence Variation among Humans and Apes 17:45-18:10 A. Zien, R. Zimmer, T. Lengauer: A simple iterative approach to parameter optimization 18:20-20:00 business meeting Sunday April 9 ************** 9:00-10:00 Keynote Lecture: Eric Davidson Computational Analyses of Developmental cis-Regulatory Control Systems 10:05-10:30 T. Akutsu, S. Miyano, S. Kuhara : Algorithms for Identifying Boolean Networks and Related Biological Networks Based on Matrix Multiplication and Fingerprint Function 10:30-10:55 M. Tomita, K. Hashimoto, K. Takahashi, Y. Matsuzaki, R. Matsushima, K. Yugi, F. Miyoshi, H. Nakano, Y. Saito, S. Shimizu, Y. Nakayama : The E-CELL project: towards integrative simulation of cellular processes 10:55-11:25 break 11:25-11:50 A. Liwo, J. Pillardy, C. Czaplewski, J. Lee, D. R. Ripoll, M. Groth, S. Rodziewicz-Motowidlo, R. Kazmierkiewicz, R. J. Wawak, S. Oldziej, H. A. Scheraga : UNRES -- a united-residue force field for energy-based prediction of protein structure - origin and significance of multibody terms 11:50-12:15 Y. Z. Ohkubo, G. M. Crippen : Determining Contact Energy Function for Continuous State Models of Globular Protein Conformations 12:15-15:00 poster session and lunch 15:00-16:00 Keynote Lecture: Takashi Gojobori Evolutionary Features of Genomes as Disclosed by Comparative Analysis of Complete Genome Sequences 16:05-16:30 B. Chor, M. D. Hendy, B. R. Holland, D. Penny : Multiple Maxima of Likelihood in Phylogenetic Trees: An Analytic Approach 16:30-16:55 R. Desper, M. Vingron : Tree Fitting: an Algebraic Approach Using Profile Distances 16:55-17:25 break 17:25-17:50 D. Sankoff, D. Bryant, M. Deneault, B. F. Lang, G. Burger : Early Eukaryote Evolution Based on Mitochondrial Gene Order Breakpoints 17:50-18:15 K. Chen, D. Durand, M. Farach-Colton : Notung: Dating gene duplications using gene family trees 18:30-21:30 banquet and Distinguished Biology Lecture: Walter Gilbert Introns and Modules in Ancient Conserved Genes Monday April 10 *************** 9:00-10:00 Distinguished New Technologies Lecture: Leroy Hood Computing Life and Global Technologies 10:05-10:30 A. Ben-Dor, R. M. Karp, B. Schwikowski, Z. Yakhini : Universal DNA tag systems: a combinatorial design scheme 10:30-10:55 F. P. Preparata, E. Upfal : Sequencing-by-hybridization at the information-theory bound: an optimal algorithm 10:55-11:25 break 11:25-11:50 R. B. Lyngso, C. N. S. Pederson : Pseudonknots in RNA Secondary Structures 11:50-12:15 Y. Xu, D. Xu, O. H. Crawford, J. R. Einstein, E. Serpersu : Protein Structure Determination using Protein Threading and Sparse NMR Data 12:15-12:40 E. Althaus, O. Kohlbacher, H. P. Lenhof, P. Mueller : A combinatorial approach to protein docking with flexible side-chains 12:40-14:00 lunch 14:00-15:00 Keynote Lecture: Yusuke Nakamura Human Genome Analysis and Medicine in the 21st Century 15:05-15:30 R. Bundschuh : An Analytic Approach to Significance Assessment in Local Sequence Alignment with Gaps 15:30-15:55 T. Akutsu, H. Arimura, S. Shimozono On Approximation Algorithms for Local Multiple Alignment 15:55-16:25 break 16:25-16:50 M. Kann, R. A. Goldstein : Optimizing for Success: A New Score Function For Distantly Related Protein Sequence Comparison 16:50-17:15 S. A. Teichmann, C. Chothia, G. M. Church, J. Park : PDB-ISL: an intermediate sequence library for fast assignment of protein structures to sequences 17:15-17:40 J. R. Bienkowska, L. Yu, S. Zarakhovich, R. G. Rogers, T. F. Smith : Comprehensive statistical method for protein fold recognition 17:40-19:40 poster session Tuesday April 11 **************** 9:00-10:00 Keynote Lecture: Yvonne Martin Molecular Diversity: Strategies and Concerns 10:05-10:30 S. Heber, J. Stoye, J. Hoheisel, M. Vingron : Contig Selection in Physical Mapping 10:30-10:55 J. Kececioglu, S. Shete, J. Arnold : Reconstructing distances in physical maps of chromosomes with nonoverlapping probes 10:55-11:25 break 11:25-11:50 L. Marsan, M.-F. Sagot : Extracting structured motifs using a suffix tree - Algorithms and application to promoter consensus identification 11:50-12:15 X. Chen, S. Kwong, M. Li : A Compression Algorithm for DNA Sequences and Its Applications in Genome Comparison 12:15-12:40 R. Hart, A. K. Royyuru, G. Stolovitzky, A. Califano : Systematic and Automated Discovery of Patterns in PROSITE Families 12:40-14:00 lunch 14:00-14:25 M. Linial, E. Portugaly : Probabilities for having a new fold on the basis of a map of all protein sequences 14:25-14:50 G. Yona, M. Levitt : A unified sequence-structure classification of protein sequences: combining sequence and structure in a map of the protein space 14:50-15:15 A. Apostolico, G. Bejerano : Optimal Amnesic Probabilistic Automata or How to Learn and Classify Proteins in Linear Time and Space 15:15-15:45 break 15:45-16:35 S. Batzoglou, B. Berger, J. P. Mesirov, E. S. Lander : Sequencing a Genome by Walking with Clone-end Sequences: A Mathematical Analysis 16:10-16:35 M. T. Hallett, J. Lagergren : New Algorithms for the Duplication-Loss Model 16:35 End of Conference 17:00 sightseeing tour: boat ride and dinner (optional) From owner-molmodel@hgmp.mrc.ac.uk Mon Feb 21 22:32:51 2000 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id 13B7517A81; Mon, 21 Feb 2000 22:32:50 +0000 (GMT) Received: from niobium.hgmp.mrc.ac.uk (niobium [193.62.192.41]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id WAA25318 for ; Mon, 21 Feb 2000 22:32:48 GMT Received: (from news@localhost) by niobium.hgmp.mrc.ac.uk (8.9.3+Sun/8.8.8) id WAA01309 for molmodel-list@hgmp.mrc.ac.uk; Mon, 21 Feb 2000 22:32:47 GMT X-Authentication-Warning: niobium.hgmp.mrc.ac.uk: news set sender to using -f From: financialfreedom@ananzi.co.za X-Newsgroups: bionet.molec-model Subject: Work Smarter Not Harder Date: 21 Feb 2000 22:32:46 -0000 Organization: BIOSCI/MRC Human Genome Mapping Project Resource Centre Lines: 46 Message-ID: <200002212343.AAA02045@bdbibl.de> Mime-Version: 1.0 Content-Type: multipart/mixed; boundary="----=_NextPart_000_0D72_00003445.00005F21" X-Trace: niobium.hgmp.mrc.ac.uk 951172367 1307 193.62.192.80 (21 Feb 2000 22:32:47 GMT) X-Complaints-To: news@net.bio.net X-Received: from bdbibl.de (root@bdbibl.de [194.95.152.105] (may be forged)) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id WAA25195 for ; Mon, 21 Feb 2000 22:32:44 GMT X-Received: from john (ABD92BCA.ipt.aol.com [171.217.43.202]) by bdbibl.de (8.8.8/8.8.8) with SMTP id AAA02045; Tue, 22 Feb 2000 00:43:15 +0100 X-Priority: 3 X-MSMail-Priority: Normal To: molmodel@hgmp.mrc.ac.uk Sender: owner-molmodel@hgmp.mrc.ac.uk Precedence: bulk ------=_NextPart_000_0D72_00003445.00005F21 Content-Type: text/html; LOOKING FOR GEMS!

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--- From owner-molmodel@hgmp.mrc.ac.uk Wed Feb 23 08:32:59 2000 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id 94B8D17A9B; Wed, 23 Feb 2000 08:32:58 +0000 (GMT) Received: from niobium.hgmp.mrc.ac.uk (niobium [193.62.192.41]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id IAA26562; Wed, 23 Feb 2000 08:32:57 GMT Received: (from news@localhost) by niobium.hgmp.mrc.ac.uk (8.9.3+Sun/8.8.8) id IAA04337; Wed, 23 Feb 2000 08:32:55 GMT X-Authentication-Warning: niobium.hgmp.mrc.ac.uk: news set sender to using -f From: "Gabor E. Tusnady" X-Newsgroups: bionet.info-theory,bionet.molec-model,bionet.software Subject: HMMTOP Update and source code Date: Wed, 23 Feb 2000 09:32:50 +0100 Organization: IIF Lines: 23 Message-ID: Mime-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII To: bio-info@hgmp.mrc.ac.uk, bio-software@hgmp.mrc.ac.uk, molmodel@hgmp.mrc.ac.uk Sender: owner-molmodel@hgmp.mrc.ac.uk Precedence: bulk Dear Colleague, I'm pleased to announce that the HMMTOP server has been updated. HMMTOP is a transmembrane helices and topology prediction software, which is available at the www site: http://www.enzim.hu/hmmtop The C source code of the software is now freely available. Please visit the http://www.enzim.hu/hmmtop/doc/license.html for more information. If you have any question or problem, feel free to e-mail me (tusi@enzim.hu). Gabor E. Tusnady, PhD | e-mail: tusi@enzim.hu Institute of Enzymology, BRC | www: http://www.enzim.hu/~tusi Hungarian Academy of Sciences | tel: (36-1) 466-6533/158 H-1113 Budapest Karolina ut 29, HUNGARY | fax: (36-1) 466-5465 From owner-molmodel@hgmp.mrc.ac.uk Wed Feb 23 19:25:23 2000 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id 9744C17BD0; Wed, 23 Feb 2000 19:25:22 +0000 (GMT) Received: from niobium.hgmp.mrc.ac.uk (niobium [193.62.192.41]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id TAA02673 for ; Wed, 23 Feb 2000 19:25:20 GMT Received: (from news@localhost) by niobium.hgmp.mrc.ac.uk (8.9.3+Sun/8.8.8) id TAA12681 for molmodel-list@hgmp.mrc.ac.uk; Wed, 23 Feb 2000 19:25:19 GMT X-Authentication-Warning: niobium.hgmp.mrc.ac.uk: news set sender to using -f From: parntzen@mail.icav.up.pt ("Pim Arntzen") X-Newsgroups: bionet.molec-model Subject: Taxonomist needs advice Date: 23 Feb 2000 19:25:18 -0000 Organization: BIOSCI/MRC Human Genome Mapping Project Resource Centre Lines: 32 Message-ID: Mime-Version: 1.0 Content-Type: text/plain; charset="us-ascii" Content-Transfer-Encoding: 8bit X-Trace: niobium.hgmp.mrc.ac.uk 951333919 12679 193.62.192.80 (23 Feb 2000 19:25:19 GMT) X-Complaints-To: news@net.bio.net X-Received: from mail.icav.up.pt (www.ceca.up.pt [193.137.39.12]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id TAA02654 for ; Wed, 23 Feb 2000 19:25:15 GMT X-Received: by mail.icav.up.pt from localhost (router,SLMail V3.2); Wed, 23 Feb 2000 19:17:22 +0000 X-Received: from [193.137.39.232] [193.137.39.232] by mail.icav.up.pt [193.137.39.2] (SLmail 3.2.3108) with ESMTP id 41D2FB77E39B11D3B9800060085DC2A3 for ; Wed, 23 Feb 2000 19:17:22 0000 X-To: molmodel@hgmp.mrc.ac.uk X-SLUIDL: B9650CFD-E87911D3-B9800060-085DC2A3 X-MIME-Autoconverted: from quoted-printable to 8bit by hgmp.mrc.ac.uk id TAA02660 To: molmodel@hgmp.mrc.ac.uk Sender: owner-molmodel@hgmp.mrc.ac.uk Precedence: bulk # Some European urodeles have up to 10% of their genomes composed of a single class of satellite DNA. The satellite is a 32/33 bp sized, tandemly repeated fragment and is supposedly non-functional. DNA-sequence analysis shows four types of satellites (1, 2, 3 and 4). Their repeat sequence is distinctly non-random as 1414 etc. and 2323 etc. Other combinations (ie. 12, 13, 24 and 34) appear absent or rare. Phylogenetic analysis at the level of the satellite shows that the types are ordered in an (unrooted) network as 1-2-3-4. Phylogenetic analysis at the species level indicates that the 14 character state is derived and the 23 character state is ancestral. Both the 14 and 23 'supertypes' are old (estimated age 2-5 and ca. 10 million years, respectively). One particular feature that existing supertypes have in common is a combined size of 65 bp, with some further non-random association of nucleotide character states at nine positions (out of 29 - ignoring the HaeIII restriction site used to generate the fragments). I am searching for a mechanistic explanation for the existence of the 14 and 23 supertypes as might be suggested from conserved sequence information. I would appreciate receiving suggestions how to approach this problem. As a classical taxonomist I am unfamiliar with (the software in) this field. Pim Arntzen ### J. W. (Pim) Arntzen Universidade do Porto Unidade de Genetica Animal e Conservacao Campus Agrario de Vairao Rua de Monte, Crasto, Vairao 4480 Vila do Conde Portugal ### --- From owner-molmodel@hgmp.mrc.ac.uk Thu Feb 24 18:46:59 2000 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id 2084117A63; Thu, 24 Feb 2000 18:46:58 +0000 (GMT) Received: from niobium.hgmp.mrc.ac.uk (niobium [193.62.192.41]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id SAA03440 for ; Thu, 24 Feb 2000 18:46:57 GMT Received: (from news@localhost) by niobium.hgmp.mrc.ac.uk (8.9.3+Sun/8.8.8) id SAA08010 for molmodel-list@hgmp.mrc.ac.uk; Thu, 24 Feb 2000 18:46:56 GMT X-Authentication-Warning: niobium.hgmp.mrc.ac.uk: news set sender to using -f From: zhou@tammy.harvard.edu (Yaoqi Zhou) X-Newsgroups: bionet.molec-model Subject: Postdoc positions: Theoretical/Computational Biophysics, SUNY Buffalo Date: 24 Feb 2000 18:46:55 -0000 Organization: BIOSCI/MRC Human Genome Mapping Project Resource Centre Lines: 25 Message-ID: <38B5820D.167E@tammy.harvard.edu> Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Trace: niobium.hgmp.mrc.ac.uk 951418016 8008 193.62.192.80 (24 Feb 2000 18:46:56 GMT) X-Complaints-To: news@net.bio.net X-Received: from karplus0.harvard.edu (tammy.harvard.edu [128.103.92.198]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id SAA03433 for ; Thu, 24 Feb 2000 18:46:53 GMT X-Received: from mink.harvard.edu (mink [128.103.92.193]) by karplus0.harvard.edu (8.9.3/8.9.3) with ESMTP id NAA26536 for ; Thu, 24 Feb 2000 13:47:36 -0500 (EST) X-Received: from mink.harvard.edu (localhost [127.0.0.1]) by mink.harvard.edu (8.9.3/8.9.3) with SMTP id OAA17664 for ; Thu, 24 Feb 2000 14:10:05 -0500 (EST) X-Mailer: Mozilla 3.01 (X11; I; OSF1 V4.0 alpha) X-To: molmodel@hgmp.mrc.ac.uk To: molmodel@hgmp.mrc.ac.uk Sender: owner-molmodel@hgmp.mrc.ac.uk Precedence: bulk Postdoctoral positions are available after July 1, 2000 at Center for Single Molecular Biophysics of Department of Physiology and Biophysics of SUNY Buffalo to conduct theoretical and computational research in biophysics. Qualified candidates should have a PhD in Chemistry, Physics, or related field. Experience with theoretical/computational biophysics, statistical mechanics, and/or computer simulations is a plus but not necessary. However, strong mathematical and some programming skills are essential. The main area of our interest is protein folding and protein binding using statistical mechanics theories and simulation methods (please visit http://yuri.harvard.edu/~zhou for details). Our laboratory will be equipped with 64-processor PC clusters and some SGI/Dec alpha workstations. The university Center for Computational Research also has 128-processor Origin 2000, 28-processor SP2, and a cluster of 64 Sun Ultra 5 workstations. Please send your CV with cover letter, and the names, addresses, and phone numbers of two referees familiar with your work. Email to zhou@tammy.harvard.edu with plain text file or postscript file is preferred. Regular mail should send to Dr. Yaoqi Zhou, Department of Chemistry and Chemical Biology, Harvard University, 12 Oxford St. #232, Cambridge, MA 02138, or Department of Physiology and Biophysics, 124 Sherman Hall, University at Buffalo, State University of New York Buffalo, New York 14214 after July 1, 2000. State University of New York is an Equal Opportunity/Affirmative Action Employer. ---