From Heather.Vincent from manchester.ac.uk Mon Aug 3 02:21:26 2009 From: Heather.Vincent from manchester.ac.uk (Heather Vincent) Date: Mon Aug 3 12:43:47 2009 Subject: [Bionews] Professional development in bioinformatics and systems biology Message-ID: <4A768FF6.3070408@manchester.ac.uk> Evidence of continuing professional development is increasingly important to scientists planning a career move, whether this is to be a promotion or a change in direction. However, work and family commitments can make it difficult for many people to take time away to gain the new skills that they need. Online courses can provide a solution. At the University of Manchester we have over 10 years experience in running interactive online courses specifically designed for biologists needing to update their skills while remaining in the workplace (http://octette.cs.man.ac.uk/bioinformatics/students/index.html). The courses are also very suitable for those interested home study, helping you to keep in touch with a research environment during a career break. The courses running next semester, starting in October 2009, include: Introduction to Bioinformatics Bioinformatics for Systems Biology Introduction to software development in Java Theory and Applications in Bioinformatics You will find further information, including fees and a link to the online application form, here : http://octette.cs.man.ac.uk/bioinformatics/index.html If you have any questions, or need advice on the module options, please contact Heather.Vincent@manchester.ac.uk From db60 from st-andrews.ac.uk Tue Aug 4 11:13:18 2009 From: db60 from st-andrews.ac.uk (Daniel Barker) Date: Tue Aug 4 11:43:29 2009 Subject: [Bionews] Conference, Comparative Genomics, University of St Andrews Message-ID: Dear bionet.announce, * * * * * * * * * * * * * * * Comparative Genomics One-day International Conference Date: 18th August 2009, 9:30 am Location: Bute Building, University of St Andrews, UK * * * * * * * * * * * * * * * This is a one day event - A day of exciting talks on comparative genomics from an array of international speakers. Thousands of genome sequences are now available, and the amount of data on genomes continues to increase. This presents enormous opportunities to make discoveries of biological and medical interest, but also requires new approaches. Confirmed speakers: o Prof MARK BLAXTER, University of Edinburgh. "Comparative Nematode Genomics". o Prof GEOFF BARTON, University of Dundee. "A tale of three small RNAs". o Prof DANNIE DURAND, Carnegie Mellon University. "The Evolution of Multidomain Families". o Prof NEIL HALL, University of Liverpool. "Fast forward Genetics using second generation sequencing". o Dr MATTHEW HEGARTY, Aberystwyth University. "Genomic mergers: the consequences of hybridisation and polyploidy in Senecio". o Prof IAN KORF, University of California Davis Genome Center. "Intron mediated enhancement". o Prof ALAN ARCHIBALD FRSE, Roslin Institute. "Comparative farm animal genomics - from synteny to synergy". o Dr ZEMIN NING, Wellcome Trust Sanger Institute. "Cancer genome assemblies and variation detection between normal and tumor human cells". o Prof ZIHENG YANG FRS, University College London. "Population genomics and human-chimpanzee speciation". o Prof ANDY WATERS, University of Glasgow, "Translation of Translation: Comparative genomics yields practical insights into sexual development in malaria parasites". More information can be found at http://www.sbforum.org/events.php?e_id=70 Registration details: Early registration is encouraged. Registration fees are GBP 40; students can register for a reduced fee of GBP 20. ** Please register on-line at: http://www.sbforum.org/eregister.php?e_id=70 The event is preceded by a conference dinner, at a subsidized price for conference delegates. Please book in advance. http://www.sbforum.org/events.php?e_id=76 The conference itself is followed by a networking buffet dinner, included in the registration fee. Poster submission: Delegates are welcome to submit an abstract on any aspect of comparative genomics. The poster abstract deadline has been extended to Thursday 13th August. * * * * * * * * * * * * * * * We look forward to seeing you on Tuesday 18th August. Best regards, Daniel -- Daniel Barker http://bio.st-andrews.ac.uk/staff/db60.htm The University of St Andrews is a charity registered in Scotland : No SC013532 From bmh from ruby.ils.unc.edu Mon Aug 10 13:52:41 2009 From: bmh from ruby.ils.unc.edu (Brad Hemminger) Date: Mon Aug 10 15:07:07 2009 Subject: [Bionews] New Release of Survey of Informatics Programs in the US Message-ID: We have compiled an updated listing of academic programs in informatics in the US. This is the 6th revision (compiled in November/December 2008). It includes programs in bioinformatics, dental informatics, health informatics, medical and biomedical informatics, nursing informatics, pharmacy informatics, chemoinformatics. We maintain this survey information and try to keep it as accurate as possible. We welcome your sending information about programs we do not have listed, or corrections to existing listing. The survey is freely available on the web at http://ils.unc.edu/informatics_programs/ It contains summary presentations (html) and detailed listings (Excel) of each program. Sincerely, Brad Hemminger Bradley Hemminger Ph.D. Associate Professor School of Information and Library Science 206A Manning Hall University of North Carolina Chapel Hill, North Carolina 27599-3360 (919) 966-2998 (919) 962-8071 (fax) bmh@ils.unc.edu Joint Appointment in the Carolina Center for Genome Sciences http://genomics.unc.edu Adjunct Associate Professor, Dept of Radiology, School of Medicine Bioinformatics at School of Information and Library Science http://ils.unc.edu/bioinfo Digital Libraries at UNC-CH http://ils.unc.edu/cradle From sticher from bioc.uzh.ch Fri Aug 14 09:33:33 2009 From: sticher from bioc.uzh.ch (Patrick Sticher) Date: Fri Aug 14 10:49:12 2009 Subject: [Bionews] Practical Course in Biomolecular Modelling Message-ID: <4A8575BD.1080006@bioc.uzh.ch> Dear colleagues, please be informed that online applications are accepted for the following course: 8TH NCCR PRACTICAL COURSE IN BIOMOLECULAR MODELLING January 10 - 15, 2010 Kandersteg, Switzerland http://www.structuralbiology.uzh.ch/course2010.asp Course topics include Simulation techniques, force-field development, conformational search, computation of free energy and entropy, treatment of electrostatic forces, simulation of folding, comparison of simulation with experiment This course is primarily directed to PhD students and postdocs from experimental structural biology groups wishing to learn more on biomolecular modelling. The course format will include morning lectures and late-afternoon/early evening tutorials, and provide ample opportunities for discussions with experts and fellow participants. Participants will be invited to bring own problems for tutorials and/or discussion. The course will be organized as a winter retreat in the Swiss Alps offering a stimulating learning atmosphere with the afternoons available for informal participation in discussions, reading and self-study or recreational activities in the area. Interested candidates are encouraged to apply online on http://www.structuralbiology.uzh.ch/course2010_application.asp. Application deadline will be October 16, 2010. We will be able to accept 20 participants to this course. Best regards, Patrick Sticher -- _________________________________ Visit the NCCR on the Internet www.structuralbiology.uzh.ch Dr. Patrick Sticher Moser NCCR Scientific Officer Institute of Biochemistry University of Z?rich Winterthurerstrasse 190 CH - 8057 Z?rich Phone +41 / (0)44 / 635 54 84 Fax +41 / (0)44 / 635 59 08 Mail sticher@bioc.uzh.ch From Rob.Reedijk from douglasconnect.com Sun Aug 16 15:48:45 2009 From: Rob.Reedijk from douglasconnect.com (Robby) Date: Sun Aug 16 21:07:57 2009 Subject: [Bionews] InnovationWell 2009 Meeting; Philadelphia Oct 09: Program available Message-ID: <451d87aa-86e3-4e29-9bdb-9a52d60ab6e0@r33g2000vbp.googlegroups.com> The InnovationWell program will cover discussion of topics on Collaboration in Discovery and Development, Translational Bioinformatics, Systems Biology, Biomarkers, Blood-Brain Barrier Modeling and Predictive Toxicology. More detailed program below. This annual community of practice meeting is taking place for the fifth time and brings together a unique combination of pharmaceutical and healthcare industry experts, principal investigators and researchers from the academic and government sectors, and leaders from innovative enterprises. The smaller and more intimate meeting format pursued has fostered the type of collaboration not always found at large conferences. Innovation in Life Science & Healthcare R&D InnovationWell 2009 InterAction Meeting October 13-16, 2009 Bryn Mawr College, Bryn Mawr, Philadelphia, USA Conference program available: http://innovationwell.com/comty_conferencesprog09 Format: Seminars, Roundtables, Presentations, Panel Q&As, Discussions, Break-out Workshops, Web-supported. Evening Poster sessions, networking, social activities. This meeting will take place concurrently with the eCheminfo 2009 Meeting. http://echeminfo.com/comty_conferencesprog09 Call for Abstracts: If you wish to submit a poster abstract for the meeting which will be placed on the program, please send to Barry Hardy (barry.hardy –(at)- douglasconnect.com) for review. Attractive poster prizes will be awarded for best posters at the meeting (subject to peer review). A special peer-reviewed issue of Future Medicinal Chemistry with a focus on collaboration in discovery and development is being published from the meeting. Accepted poster and presentation abstracts are eligible for consideration. Please contact Barry Hardy if interested in submitting a paper for review. Pre-Conference Workshop, October 12 Forum on Collaboration in Discovery and Development To register for the meeting right now, please visit: http://InnovationWell-BM09.eventsbot.com To download a pdf of the program including the registration form: http://barryhardy.blogs.com/files/innovationwell-bm09-90812.pdf InnovationWell 2009 Program Summary MONDAY, OCTOBER 12 Forum on Collaboration in Discovery and Development, Co-chaired by Peter Gates (Johnson & Johnson PR&D) and Barry Hardy (Douglas Connect). Speakers include Barry Hardy (Douglas Connect), Shree Nath (Pointcross), Alex Simson (Johnson & Johnson), Chris Waller (Pfizer), Michael Liebman (Strategic Medicine), Jeff Spitzner (Rescentris), and Bob O’Hara (ResultWorks). TUESDAY, OCTOBER 13 Translational Bioinformatics: Bridging Bioinformatics and Biomedical Informatics in Translational Medicine, Chaired by Jake Chen (Indiana University). Speakers include Jessica Tenenbaum (Duke Translational Medicine Institute, Duke University), Steve Naylor (Predictive Physiology and Medicine, Inc.), Javed Mostafa (University of North Carolina), Jay Zhang (Myriad Genetics), Maricel Kann (University of Maryland), Iya Khalil (Gene Network Sciences), Hai Hu (Windber Research Institute), Jake Chen (Indiana University – Purdue University), and Susan Stephens (Johnson & Johnson). WEDNESDAY, OCTOBER 14 Systems Biology and Biomarkers, Chaired by Darius Dziuda (Central Connecticut State University). Speakers include Anamika Sarkar (Novartis), Darius Dziuda (Central Connecticut State University), Frank Tobin (Tobin Consulting LLC), Andreas Matern (Thomson Reuters Healthcare and Science), and Usha Reddy (Merck). Modeling of the Blood–Brain Barrier in Drug Discovery and Development, Chaired by Roméo Cecchelli (Université d'Artois, France). Speakers include Stefan Lundquist (AstraZeneca), Reinhard Gabathuler (AngioChem), Maxime Culot (University of Lille), Damir Janigro (Cleveland Clinic), Marie-Pierre Dehouck (University of Lille), Pierre- Olivier Couraud (Institut Cochin), and Anna Seelig (University of Basel). THURSDAY, OCTOBER 15 Predictive Toxicology: Combining in vitro and in silico Techniques in Predictive Toxicology Applications, Co-chaired by Richard Judson (US EPA) and Vladimir Poroikov (Institute of Biomedical Chemistry of Russian Academy of Medical Sciences). Speakers include Richard Judson (US EPA), Ellen Berg (BioSeek), Jonathan Dordick (Rensselaer Polytechnic Institute), Barry Hardy (Douglas Connect), Sanji Bhal (ACD/ Labs), Christodoulos Floudas (Princeton University), Robert Fraczkiewicz (Simulations Plus), Kyoung Tai No (Yonsei University), and Stephen Bryant (NIH). FRIDAY, OCTOBER 15 Predictive Toxicology: Combining in vitro and in silico Techniques in Predictive Toxicology Applications, Co-chaired by Richard Judson (US EPA) and Vladimir Poroikov (Institute of Biomedical Chemistry of Russian Academy of Medical Sciences). Speakers include Vladimir Poroikov (Institute of Biomedical Chemistry of Russian Academy of Medical Sciences), Fangping Mu (Los Alamos National Laboratory), Katya Tsaioun (Apredica), Grace Patlewicz (DuPont), Michael Pelekis (Simulations Plus), and Anil Aswani (University of California at Berkeley). Contact: Program: Dr. Barry Hardy, InnovationWell Community of Practice, Douglas Connect. Tel: +41 61 851 0170. email: innovationwell -[at]- douglasconnect.com Blog: http://barryhardy.blogs.com/ Registration Enquiries: Nicki Douglas, Douglas Connect, Baermeggenweg 14, 4314 Zeiningen, Switzerland. Tel: +41 61 851 0461. innovationwell - [at]- douglasconnect.com From conf from topaz.gatech.edu Wed Aug 26 13:38:13 2009 From: conf from topaz.gatech.edu (Georgia Tech Conference Announcement) Date: Wed Aug 26 13:46:16 2009 Subject: [Bionews] 7th Georgia Tech - ORNL Conference on Bioinformatics Message-ID: <20090826183813.53C7034A373@topaz.gatech.edu> -------------------------------------------- CALL FOR PAPERS Dear Colleagues The 7th Georgia Tech - ORNL Conference on Bioinformatics - In silico Biology: Genome Biology and Bioinformatics will be held in Atlanta, Georgia, November 12-14, 2009 http://www2.isye.gatech.edu/binf2009/ Georgia Tech continues the tradition of organizing bi-annual International Conference on Bioinformatics, bringing together leading researchers in genomics, bioinformatics and genome biology to present recent advances in the field and to discuss open problems. Important Dates Deadline for early registration: October 15, 2009 Deadline for poster abstract subsmission: October 1, 2009 Notification of acceptance of abstracts: October 11, 2009 We invite papers submissions in the following areas * genomics; * transcriptomics; * proteomics; * reconstruction and modeling of gene networks; * evolutionary biology; SPEAKERS Margaret O. Dayhoff lecture David Lipman , NCBI/NIH, Bethesda, MD, USA Plenary Speakers: Vineet Bafna, University of California at San Diego, USA Gill Bejerano, Stanford University, Stanford, CA, USA Jeffrey Bennetzen, University of Georgia, Athens, GA, USA Mark Borodovsky, Georgia Tech and Emory University, Atlanta, GA, USA Nick Grishin, University of Texas, Dallas, TX, USA Curtis Huttenhower, Harvard University, Boston, MA, USA King Jordan, Georgia Tech, Atlanta, GA, USA Igor Jouline (Zhulin), University of Tennessee - ORNL, Oak Ridge, TN, USA Eugene Koonin, NCBI/NIH, Bethesda, MD, USA Nikos Kyrpides, DOE Joint Genome Institute, Walnut Creek, CA, USA Boris Lenhard, University of Bergen, Norway Jian Ma, University of Illinois at Urbana Champaign, Urbana, IL, USA Yael Mandel-Gutfreund, Technion, Israel Insitute of Technology, Haifa, Israel Joanna Masel, University of Arizona, Tucson, AZ, USA Andrey Mironov, Moscow State University, Russia Andrei Osterman, Burnham Institute for Medical Research, La Jolla, CA USA Karen Nelson, J. Craig Venter Institute, Rockville, MD, USA Natasa Przulj, University of California at Irvine, CA, USA John Reinitz, State Uiversity of New York at Stony Brook, NY, USA Pierre Rouze, Gent University, Gent, Belgium CONFERENCE CHAIRS Mark Borodovsky, Georgia Tech and Emory University Eva K. Lee, Georgia Tech and Emory University PROGRAM COMMITTEE Nicholas Bergman, Georgia Tech Dmitrij Frishman, Munich Polytechnic University, Germany Andrey Gorin, Oak Ridge National Laboratory Andrzej M. Kierzek, University of Surrey, UK. Eileen Kraemer, University of Georgia Jun Liu, Harvard University Andrey Rzhetsky, University of Chicago Andre Rogatko, Samuel Oschin Comprehensive Cancer Institute Gary Stormo, Washington University Ying Xu, University of Georgia and Oak Ridge National Laboratory Soojin Yi, Georgia Tech Igor Zhulin, Oak Ridge National Laboratory and University of Tennessee ADMINISTRATION Harry Sharp, Georgia Tech CONFERENCE LOCATION The Georgia Tech Ferst Center for the Arts. The Georgia Tech campus is located in Midtown Atlanta near the center of the 1996 Olympic development, close to the Fox Theatre and Margaret Mitchell house. From gws from ncifcrf.gov Fri Aug 28 10:00:29 2009 From: gws from ncifcrf.gov (Gary Smythers) Date: Fri Aug 28 13:07:15 2009 Subject: [Bionews] Announcement: GenPept 173.0 available Message-ID: <20090828150030.023DEA4001@bio1.ncifcrf.gov> This is to announce the availability of release 173.0 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. This GenPept release IS _NOT_ AN OFFICIAL RELEASE FROM THE NCBI-GENBANK, but an attempt to provide a data file format compatible with existing software products. This data format is suitable as an input data file for the GCG program genbanktogcg -genpept. Compatibility with other software has not been tested. Site: ftp.ncifcrf.gov Directory: pub/genpept Files: gprel.txt.gz, gpdat.seq.gz, gpdat.fasta.gz Directory: pub/genpept/divisions Files: 1 file for each GenBank file Directory: pub/genpept/updates (daily, cumulative) Files: gpseq_updates.dat.gz Rel. Date: 27-Aug-2009 If you have questions or comments concerning this data, or you experience any difficulty in downloading the data via ftp, please contact: Gary Smythers smytherg@mail.nih.gov 301-846-5778 ================================================================ GenPept (R) and GenBank (R) are registered trademarks of the U.S. Department of Health and Human Services for the GenBank Gene Products and the GenBank Genetic Sequence Data Banks.