From owner-maize@hgmp.mrc.ac.uk Fri Jul 2 14:37:11 2004 Return-Path: X-Original-To: maize-outgoing Received: from localhost (localhost [127.0.0.1]) by mercury.hgmp.mrc.ac.uk (Postfix) with SMTP id 98DAA7D0DD for ; Fri, 2 Jul 2004 14:37:10 +0100 (BST) X-Original-To: maize-list@hgmp.mrc.ac.uk Received: from localhost (localhost [127.0.0.1]) by mercury.hgmp.mrc.ac.uk (Postfix) with ESMTP id 2BC967D136 for ; Fri, 2 Jul 2004 14:37:10 +0100 (BST) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 60001) id 365107D0DD; Fri, 2 Jul 2004 14:37:07 +0100 (BST) To: maize@net.bio.net Newsgroups: bionet.maize From: bryan.gibbondeletethis@comcast.net (Bryan Gibbon) Subject: Re: Translated EST database Date: 2 Jul 2004 06:51:38 +0100 Organization: - Message-ID: <010720042251240335%bryan.gibbondeletethis@comcast.net> References: Sender: owner-maize@hgmp.mrc.ac.uk Precedence: bulk I hope this reply is not too late. TIGR posts a fasta database of ORFs in their EST contig assemblies. It can be found on the dowload page for the maize gene index. For more flexibility you can also translate sequence databases using any number of programs (such as getorf in the EMBOSS sequence analysis suite). In article , Dawn Luthe wrote: > My lab is doing a proteomics project and we would like access to a > translated maize EST database. Is there one available? > From owner-maize@hgmp.mrc.ac.uk Fri Jul 2 17:35:12 2004 Return-Path: X-Original-To: maize-outgoing Received: from localhost (localhost [127.0.0.1]) by mercury.hgmp.mrc.ac.uk (Postfix) with SMTP id 174B07D136 for ; Fri, 2 Jul 2004 17:35:11 +0100 (BST) X-Original-To: maize-list@hgmp.mrc.ac.uk Received: from localhost (localhost [127.0.0.1]) by mercury.hgmp.mrc.ac.uk (Postfix) with ESMTP id 0DE3A7D0D9 for ; Fri, 2 Jul 2004 17:35:10 +0100 (BST) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 60001) id 7865F7D136; Fri, 2 Jul 2004 17:35:07 +0100 (BST) To: maize@net.bio.net Newsgroups: bionet.maize From: mrunning@danforthcenter.org (Mark Running) Subject: Danforth Center Fall Symposium Date: 2 Jul 2004 17:24:34 +0100 Organization: Donald Danforth Plant Science Center Message-ID: Sender: owner-maize@hgmp.mrc.ac.uk Precedence: bulk We are pleased to announce the Donald Danforth Plant Science Center's Sixth Annual Fall Symposium. The symposium will take place at the Danforth Center on September 24th and 25th. This year the symposium topic is Cellular Mechanisms of Plant Development. Registration and other information is available at http://www.danforthcenter.org/fall_symposium/FS2004.htm. The program is listed below. Friday, September 24, 2004 Opening Remarks Plenary Speakers Natasha Raikhel Distinguished Professor and Director, Center for Plant Cell Biology, University of California - Riverside "The power of chemcial genomics to discover proteins that mediate endomembrane trafficking in plants" Luis Herrera-Estrella Director, Unidad de Biotecnologia, CINVESTAV, Mexico Title to be announced Session I: Lipid Modifications Xuemin (Sam) Wang Professor, Department of Biochemistry, Kansas State University "Lipid signaling in plant stress tolerance and seed quality" Steve Moose Asst. Professor of Maize Functional Genomics/Genetics, Department of Crop Sciences, University of Illinois, Urbana-Champaign "Molecular Genetic Regulation of Leaf Identity and Vegetative Phase Change in Maize" Mark Running Assistant Member and Principal Investigator, Donald Danforth Plant Science Center "The role of prenylation in plant development" Dinner Poster viewing Saturday, September 25, 2004 Breakfast, Poster viewing Session II: Nonvascular Plants Ralph Quatrano Spencer T. Olin Professor and Chairman, Department of Biology Washington University "Comparative genomics and systems science: Approaches used in the moss (Physcomitrella) to study plant processes" Jody Banks Professor, Department of Botany and Plant Pathology, Purdue University "Exploring the genomes of seedfree plants" Susan Dutcher Professor, Department of Genetics, Washington University "Genetic and genomic analysis of microtubule organizing centers" Break Session III: Cell Wall Biogenesis Nick Carpita Professor, Department of Botany and Plant Pathology, Purdue University "Identification and characterization of cell-wall mutants in maize and Arabidopsis by infrared spectroscopies" Erik Nielsen Assistant Member and Principal Investigator, Donald Danforth Plant Science Center "Cooperation of a Rab GTPase, a lipid kinase, and a calcium sensor during polarized cell wall deposition in growing root hairs" Lunch Session IV: Photomorphogenesis Edgar Spalding Professor, Department of Botany, University of Wisconsin, Madison "Control of seedling growth and development by blue light" Mannie Liscum Associate Professor, Co-Director of Graduate Studies, Division of Biological Sciences, University of Missouri - Columbia "When gradients rule: Making cellular and molecular sense of plant phototropism" Michael Neff Assistant Professor, Department of Biology, Washington University "Activation tagged suppressors of phyB-4: From transcription factors to brassinosteroid modulators" Break Session V: Actin Dynamics and Cell Expansion Zhenbiao Yang Associate Professor, Center for Plant Cell Biology, Department of Botany and Plant Science, University of California - Riverside "Signaling to cell shape formation in Arabidopsis" Chris Staiger Professor of Biological Sciences and University Faculty Scholar, Purdue University "Signal-mediated destruction of the actin cytoskeleton in pollen" Steve Huber Professor, USDA-ARS Photosynthesis Research Unit, University of Illinois, Urbana - Champaign "14-3-3 Proteins and the Control of Plant Metabolism" Closing Remarks Dinner Mixer and Poster Viewing -- Mark P. Running, Ph.D. Assistant Member, Principal Investigator Donald Danforth Plant Science Center 975 N Warson Rd Saint Louis MO 63132 Phone(314) 587-1641 Cell(314)359-9344 Fax(314) 587-1741 mrunning@danforthcenter.org From owner-maize@hgmp.mrc.ac.uk Tue Jul 6 21:03:26 2004 Return-Path: X-Original-To: maize-outgoing Received: from localhost (localhost [127.0.0.1]) by mercury.hgmp.mrc.ac.uk (Postfix) with SMTP id 646AE7D10C for ; Tue, 6 Jul 2004 21:03:25 +0100 (BST) X-Original-To: maize-list@hgmp.mrc.ac.uk Received: from localhost (localhost [127.0.0.1]) by mercury.hgmp.mrc.ac.uk (Postfix) with ESMTP id 0B1EF7D11B for ; Tue, 6 Jul 2004 21:03:25 +0100 (BST) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 60001) id 209047D10C; Tue, 6 Jul 2004 21:03:23 +0100 (BST) To: maize@net.bio.net Newsgroups: bionet.maize From: jeff.fuhrmeister@pioneer.com ("Fuhrmeister, Jeff") Subject: Employment Opportunity: Sr. User Services Consultant at Date: 6 Jul 2004 15:41:43 +0100 Organization: Pioneer Hi-Bred International, Inc. Message-ID: <9308B0DE0C841A4483503D192E063F0743D772@jhms14.phibred.com> Sender: owner-maize@hgmp.mrc.ac.uk Precedence: bulk Pioneer Hi-Bred International, Inc. Employment Opportunity: Sr. User Services Consultant PHI/RA224/PL Number of Openings: 1 Position Classification: Full-Time Reports To: IM Manager, User Services Department: Information Management - Research IM Location: Johnston, Iowa Position Purpose: Provide technical training and support to clients who use DuPont and Pioneer proprietary research information management system and IT point solutions that support the daily operations of vector construction, greenhouse, transformation and discovery research labs. Promote user self-sufficiency, effectiveness, and productivity through the use of information technology. Duties/Responsibilities: Provide technical support and training for laboratory personnel in vector construction, greenhouse, transformation and discovery research labs; provide day-to-day IT support to the lab researchers. Provide project leadership on business requirements analysis; coordinate testing and implementation of Research Information Management projects. Educational Qualifications Desired: Masters degree in molecular biological sciences or Bachelors degree with 3-4 years work experience. Course work related to Information Technology or Computer Science desired. Experience with relational database design, query and support, and writing macros is required. Competencies and Experience Desired: Past experience with vector construction, transformation, genomics and outstanding computer skills desired. Aptitude to identify and resolve problems. Strong communication and coaching skills. Exceptional documentation, training and support skills. Ability to maintain technical skills for a continual and rapidly changing computing environment. Ability to work independently and coordinate with others in a team effort. There are two ways to submit a resume for this position: You must reference the job code PHI/RA224/PL in your cover letter or the subject line of your email. Pioneer employees must apply through PHIweb. Send your resume and cover letter in an email message (Attachments should be in Word, WordPerfect, Lotus, or ASCII format.) to: apply@pioneerjobs.com Mail your scannable resume and cover letter to the following address: Resume Processing Center Pioneer Hi-Bred International, Inc. 400 Locust Street, Suite 700 P.O. Box 14454 Des Moines, IA 50306-3454 Pioneer Hi-Bred International, Inc. is an Equal Employment Opportunity employer. Before applying for this position, please consult your local immigration office if the position is outside your country. Resumes will be accepted until the position is filled. For general inquiries regarding employment, contact jobs@pioneer.com or call the Pioneer Hi-Bred Employment Job Line number at 515-270-4000 or 1-800-247-6803 ext. 4000. This communication is for use by the intended recipient and contains information that may be privileged, confidential or copyrighted under applicable law. If you are not the intended recipient, you are hereby formally notified that any use, copying or distribution of this e-mail, in whole or in part, is strictly prohibited. Please notify the sender by return e-mail and delete this e-mail from your system. Unless explicitly and conspicuously designated as "E-Contract Intended", this e-mail does not constitute a contract offer, a contract amendment, or an acceptance of a contract offer. This e-mail does not constitute a consent to the use of sender's contact information for direct marketing purposes or for transfers of data to third parties. Francais Deutsch Italiano Espanol Portugues Japanese Chinese Korean http://www.DuPont.com/corp/email_disclaimer.html From owner-maize@hgmp.mrc.ac.uk Fri Jul 9 02:56:30 2004 Return-Path: X-Original-To: maize-outgoing Received: from localhost (localhost [127.0.0.1]) by mercury.hgmp.mrc.ac.uk (Postfix) with SMTP id C8CA37D0CA for ; Fri, 9 Jul 2004 02:56:29 +0100 (BST) X-Original-To: maize-list@hgmp.mrc.ac.uk Received: from localhost (localhost [127.0.0.1]) by mercury.hgmp.mrc.ac.uk (Postfix) with ESMTP id 5E6267D103 for ; Fri, 9 Jul 2004 02:56:29 +0100 (BST) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 60001) id 7AB9B7D0CA; Fri, 9 Jul 2004 02:56:28 +0100 (BST) To: maize@net.bio.net Newsgroups: bionet.maize From: nguyenhenry@missouri.edu ("Nguyen, Henry T.") Subject: Post-doc position in Functional Genomics, University of Date: 9 Jul 2004 00:35:57 +0100 Organization: University of Missouri-Columbia Message-Id: <20040709015628.7AB9B7D0CA@mercury.hgmp.mrc.ac.uk> Sender: owner-maize@hgmp.mrc.ac.uk Precedence: bulk Post-doctoral Research Associate in Functional Genomics A post-doc position is available with a focus on characterization of the transcriptome and gene networks in plant roots under drought stress. The successful candidate must have substantial experience in oligo microarray and gene chip technologies, microarray data analysis, and high-throughput quantitative PCR methods. The position is available immediately or as soon as the suitable candidate is identified. Salary will be competitive. Please send a letter of application, resume, and list of three references to: Dr. Henry Nguyen, Plant Sciences Unit, 1-87 Agriculture Building, University of Missouri, Columbia, MO 65211. Tel. (573) 882 - 5494. E-mail: nguyenhenry@missouri.edu. From owner-maize@hgmp.mrc.ac.uk Tue Jul 13 18:43:04 2004 Return-Path: X-Original-To: maize-outgoing Received: from localhost (localhost [127.0.0.1]) by mercury.hgmp.mrc.ac.uk (Postfix) with SMTP id B91097D106 for ; Tue, 13 Jul 2004 18:43:03 +0100 (BST) X-Original-To: maize-list@hgmp.mrc.ac.uk Received: from localhost (localhost [127.0.0.1]) by mercury.hgmp.mrc.ac.uk (Postfix) with ESMTP id 478C97D153 for ; Tue, 13 Jul 2004 18:43:03 +0100 (BST) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 60001) id DD7657D106; Tue, 13 Jul 2004 18:43:01 +0100 (BST) To: maize@net.bio.net Newsgroups: bionet.maize From: ivaylo.hristov@abv.bg (Axel Foley) Subject: Problem running TGICL Date: 13 Jul 2004 15:53:41 +0100 Organization: http://groups.google.com Message-ID: <85a8a1dd.0407130653.7acaab0a@posting.google.com> Sender: owner-maize@hgmp.mrc.ac.uk Precedence: bulk I am having a problem running TGICL on multiple computers. And I will really appreciate any help. So this is the situation : I have 3 linux machines running Fedora core 1. One of them I use for server. The others are clusters. On the server I created folder /tgicl And I installed the TGICL in it. I shared this /tgicl folder with nfs, on every of the other two computers I mounted the folder that is on the server on the same point in the file system (/tgicl) I started TGICL (tgicl all_fasta.seq -c nodes), where nodes is the following file: 10.0.52.100 /tgicl/ 10.0.52.101 /tgicl/ It seems that everything is working just fine in the beginning and on all computers is started prcess “mgblas” that is producing files : all_fasta_1.seq_@1_v0.1.tab.Z all_fasta_1.seq_@1001_v0.2.tab.Z all_fasta_1.seq_@2001_v0.3.tab.Z all_fasta_1.seq_@3001_v0.4.tab.Z all_fasta_1.seq_@4001_v0.5.tab.Z when all the work of “mgblast” is done it seems that there is a problem with combining the files in the “all_fasta_1.seq_clusters” The error I get from TGICL is “Error: cluster file 'all_fasta_1.seq_clusters' is missing or empty.” The file is there but is absolutely empty. Can you help me. Thanks: Ivaylo Hristov From owner-maize@hgmp.mrc.ac.uk Fri Jul 23 18:20:01 2004 Return-Path: X-Original-To: maize-outgoing Received: from localhost (localhost [127.0.0.1]) by mercury.hgmp.mrc.ac.uk (Postfix) with SMTP id 254A37D0E1 for ; Fri, 23 Jul 2004 18:20:01 +0100 (BST) X-Original-To: maize-list@hgmp.mrc.ac.uk Received: from localhost (localhost [127.0.0.1]) by mercury.hgmp.mrc.ac.uk (Postfix) with ESMTP id A068C7D14C for ; Fri, 23 Jul 2004 18:20:00 +0100 (BST) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 60001) id 700B67D0EF; Fri, 23 Jul 2004 18:19:58 +0100 (BST) To: maize@net.bio.net Newsgroups: bionet.maize From: katica@acoma.Stanford.EDU (Katica Ilic) Subject: First release of the Plant Structure Ontology Date: 23 Jul 2004 07:20:08 +0100 Organization: Plant Ontology Consortium Message-ID: Sender: owner-maize@hgmp.mrc.ac.uk Precedence: bulk First release of the Plant Structure Ontology We are very pleased to announce the first release of the Plant Structure Ontology - a set of controlled vocabulary terms describing the anatomy and morphology of a 'generic' flowering plant. This ontology is the first step in our effort to integrate species-specific vocabulary terms into unified flowering-plant ontologies to describe structure and developmental stages of rice, maize, Arabidopsis and other angiosperms. We hope that the Plant Ontology will become a useful tool for efficient description of gene expression patterns and phenotypes in model plants and agronomically important crop species. Our goal is to actively involve plant researchers, breeders, and systematists in development and application of plant vocabularies. Should you wish to become more involved with the project (and you are very much encouraged to do so!), our contact information is available at the POC web site (http://www.plantontology.org). Best regards, Plant Ontology Consortium E-mail: po@plantontology.org -------------------------------------------------------------------------- Katica Ilic katica@acoma.stanford.edu The Arabidopsis Information Resource Tel: (650) 325-1521 ext. 253 Carnegie Institution of Washington FAX: (650) 325-6857 Department of Plant Biology URL: http://arabidopsis.org/ 260 Panama St. Stanford, CA 94305 U.S.A. -------------------------------------------------------------------------- From owner-maize@hgmp.mrc.ac.uk Sun Jul 25 22:01:45 2004 Return-Path: X-Original-To: maize-outgoing Received: from localhost (localhost [127.0.0.1]) by mercury.hgmp.mrc.ac.uk (Postfix) with SMTP id 4F83E7D0C4 for ; Sun, 25 Jul 2004 22:01:45 +0100 (BST) X-Original-To: maize-list@hgmp.mrc.ac.uk Received: from localhost (localhost [127.0.0.1]) by mercury.hgmp.mrc.ac.uk (Postfix) with ESMTP id DF76F7D0EB for ; Sun, 25 Jul 2004 22:01:44 +0100 (BST) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 60001) id 7FC2A7D0C4; Sun, 25 Jul 2004 22:01:43 +0100 (BST) To: maize@net.bio.net Newsgroups: bionet.maize From: nguyenhenry@missouri.edu ("Nguyen, Henry T.") Subject: Graduate Research Assistantship in Maize Root Genomics Date: 25 Jul 2004 00:49:08 +0100 Organization: University of Missouri Message-ID: <9D3EEF15D954B14CA96120A90F5E508F9C2BDD@UM-EMAIL06.um.umsystem.edu> Sender: owner-maize@hgmp.mrc.ac.uk Precedence: bulk Graduate research assistantship - Root Functional Genomics A research assistantship is available to support graduate studies toward a Ph.D. degree at the University of Missouri-Columbia. Research will be focused on characterization of gene expression profiles in the roots of an ABA-deficient maize mutant, vp14, under drought conditions. This research is supported by a grant from the National Science Foundation. The project is a collaboration between the laboratories of Prof. Robert Sharp (SharpR@missouri.edu) and Prof. Henry Nguyen. Interested students should submit a statement of professional goal and research interest, a resume which includes contact information for three references, GRE/TOEFL scores, and college transcripts to: Dr. Henry T. Nguyen, MSMC Endowed Professor of Genetics and Biotechnology, Department of Agronomy, Plant Sciences Unit, 1-87 Agriculture Building, University of Missouri, Columbia, MO 65211. Tel: (573) 882-5494. E-mail: nguyenhenry@missouri.edu. University of Missouri is an equal opportunity/ADA institution.