From clements at nescent.org Fri Dec 3 19:56:11 2010 From: clements at nescent.org (Dave Clements) Date: Fri, 3 Dec 2010 16:56:11 -0800 Subject: [Open-bio-l] 2011 GMOD Spring Training, March 8-12 In-Reply-To: References: Message-ID: Applications are now being accepted for the 2011 GMOD Spring Training course, a five-day hands-on school aimed at teaching new GMOD administrators how to install, configure and integrate popular GMOD components. The course will be held March 8-12 at the US National Evolutionary Synthesis Center (NESCent) in Durham, North Carolina, as part of GMOD Americas 2011. Links: * http://gmod.org/wiki/2011_GMOD_Spring_Training * http://gmod.org/wiki/GMOD_Americas_2011 * http://www.nescent.org/ These components will be covered: * Apollo - genome annotation editor * Chado - biological database schema * Galaxy - workflow system * GBrowse - genome viewer * GBrowse_syn - synteny viewer * GFF3 - genome annotation file format and tools * InterMine - biological data mining system * JBrowse - next generation genome browser * MAKER - genome annotation pipeline * Tripal - web front end to Chado databases The deadline for applying is the end of Friday, January 7, 2011. Admission is competitive and is based on the strength of the application, especially the statement of interest. The 2010 school had over 60 applicants for the 25 slots. Any application received after deadline will be automatically placed on the waiting list. The course requires some knowledge of Linux as a prerequisite. The registration fee will be $265 (only $53 per day!). There will be a limited number of scholarships available. This may be the only GMOD School offered in 2011. If you are interested, you are strongly encouraged to apply by January 7. Thanks, Dave Clements -- http://gmod.org/wiki/GMOD_Americas_2011 http://gmod.org/wiki/GMOD_News http://gmod.org/wiki/Help_Desk_Feedback From kdahlquist at lmu.edu Tue Dec 21 14:49:24 2010 From: kdahlquist at lmu.edu (Kam Dahlquist) Date: Tue, 21 Dec 2010 11:49:24 -0800 Subject: [Open-bio-l] BOSC 2010 Proceedings articles have been published Message-ID: <96eaeb02-2560-4f43-a8a1-4b530c698b55@nona.lmumain.edu> Hi, On behalf of the BOSC 2010 Organizing Committee, I'm pleased to announce that the BOSC 2010 Proceedings has been published today on the BMC Bioinformatics web site at: http://www.biomedcentral.com/1471-2105/11?issue=S12 I would like to extend a special thanks to all of the authors and reviewers that helped make this possible. Happy Holidays, Kam Dahlquist Chair, BOSC 2010 Editor, BOSC 2010 Proceedings From denguehost at gmail.com Mon Dec 20 19:48:32 2010 From: denguehost at gmail.com (Chris Baker) Date: Tue, 21 Dec 2010 00:48:32 -0000 Subject: [Open-bio-l] Vacancy - Bioinformatics Scientist - Semantic Web Services Message-ID: RE: Computer Scientist (Bioinformatics) http://www.careerbeacon.com/search/en/0/1/62/-1/0/-1/-1/-1/-1/0/3/MB1012202838 UNB?s Computer Science & Applied Statistics, Saint John, invites applications for the position of Computer Scientist. A Bioinformatics Scientist will join the Pan-Canadian C-BRASS project: (Canadian Bioinformatics Resources as Semantic Services) participating as a conduit for Computer Scientists to wrap existing bioinformatics resources (databases or algorithms) as Semantic Web Services. Along with resource providers and C-BRASS Computer Scientists the Bioinformatics Scientist will be responsible for translating service requirements and modeling the inputs, outputs and implicit relations between bioinformatic entities into conceptual models scripted in OWL. The incumbent will be supervised by the C-BRASS scientists and may provide assistance to students. -- Christopher J. O. Baker Ph. D. Associate Professor Dept. Computer Science and Applied Statistics University of New Brunswick, Canada http://ca.linkedin.com/in/christopherjobaker From clements at nescent.org Sat Dec 4 00:56:11 2010 From: clements at nescent.org (Dave Clements) Date: Fri, 3 Dec 2010 16:56:11 -0800 Subject: [Open-bio-l] 2011 GMOD Spring Training, March 8-12 In-Reply-To: References: Message-ID: Applications are now being accepted for the 2011 GMOD Spring Training course, a five-day hands-on school aimed at teaching new GMOD administrators how to install, configure and integrate popular GMOD components. The course will be held March 8-12 at the US National Evolutionary Synthesis Center (NESCent) in Durham, North Carolina, as part of GMOD Americas 2011. Links: * http://gmod.org/wiki/2011_GMOD_Spring_Training * http://gmod.org/wiki/GMOD_Americas_2011 * http://www.nescent.org/ These components will be covered: * Apollo - genome annotation editor * Chado - biological database schema * Galaxy - workflow system * GBrowse - genome viewer * GBrowse_syn - synteny viewer * GFF3 - genome annotation file format and tools * InterMine - biological data mining system * JBrowse - next generation genome browser * MAKER - genome annotation pipeline * Tripal - web front end to Chado databases The deadline for applying is the end of Friday, January 7, 2011. Admission is competitive and is based on the strength of the application, especially the statement of interest. The 2010 school had over 60 applicants for the 25 slots. Any application received after deadline will be automatically placed on the waiting list. The course requires some knowledge of Linux as a prerequisite. The registration fee will be $265 (only $53 per day!). There will be a limited number of scholarships available. This may be the only GMOD School offered in 2011. If you are interested, you are strongly encouraged to apply by January 7. Thanks, Dave Clements -- http://gmod.org/wiki/GMOD_Americas_2011 http://gmod.org/wiki/GMOD_News http://gmod.org/wiki/Help_Desk_Feedback From kdahlquist at lmu.edu Tue Dec 21 19:49:24 2010 From: kdahlquist at lmu.edu (Kam Dahlquist) Date: Tue, 21 Dec 2010 11:49:24 -0800 Subject: [Open-bio-l] BOSC 2010 Proceedings articles have been published Message-ID: <96eaeb02-2560-4f43-a8a1-4b530c698b55@nona.lmumain.edu> Hi, On behalf of the BOSC 2010 Organizing Committee, I'm pleased to announce that the BOSC 2010 Proceedings has been published today on the BMC Bioinformatics web site at: http://www.biomedcentral.com/1471-2105/11?issue=S12 I would like to extend a special thanks to all of the authors and reviewers that helped make this possible. Happy Holidays, Kam Dahlquist Chair, BOSC 2010 Editor, BOSC 2010 Proceedings From denguehost at gmail.com Tue Dec 21 00:48:32 2010 From: denguehost at gmail.com (Chris Baker) Date: Tue, 21 Dec 2010 00:48:32 -0000 Subject: [Open-bio-l] Vacancy - Bioinformatics Scientist - Semantic Web Services Message-ID: RE: Computer Scientist (Bioinformatics) http://www.careerbeacon.com/search/en/0/1/62/-1/0/-1/-1/-1/-1/0/3/MB1012202838 UNB?s Computer Science & Applied Statistics, Saint John, invites applications for the position of Computer Scientist. A Bioinformatics Scientist will join the Pan-Canadian C-BRASS project: (Canadian Bioinformatics Resources as Semantic Services) participating as a conduit for Computer Scientists to wrap existing bioinformatics resources (databases or algorithms) as Semantic Web Services. Along with resource providers and C-BRASS Computer Scientists the Bioinformatics Scientist will be responsible for translating service requirements and modeling the inputs, outputs and implicit relations between bioinformatic entities into conceptual models scripted in OWL. The incumbent will be supervised by the C-BRASS scientists and may provide assistance to students. -- Christopher J. O. Baker Ph. D. Associate Professor Dept. Computer Science and Applied Statistics University of New Brunswick, Canada http://ca.linkedin.com/in/christopherjobaker