MedWorm provides a medical RSS filtering service. Over 6000 RSS medical sources are combined and output via different filters. This feed contains the latest medical blog items that have been tagged with 'fuge'. Sat, 03 Sep 2011 02:48:40 +0100 http://www.medworm.com/index.php?rid=2469822&cid=t_104432_132_f&fid=35028&url=http%3A%2F%2Flurena.vox.com%2Flibrary%2Fpost%2Fyoure-missing-out-on-ontologies-and-museums-by-staying-here.html%3F_c%3Dfeed-rss Just another gentle reminder that I'm no longer blogging about science, ontologies, data integration, etc on Vox. I've moved back to The Mind Wobbles at Wordpress. If you're still here, and not there, then you're missing posts covering the latest... Read and post comments | Send to a friend (Source: Systems Biology & Bioinformatics) Systems Biology & Bioinformatics blogs http://www.medworm.com/rss/comments.php?id=2469822 Wed, 10 Jun 2009 10:09:50 +0100 2469822 http://www.medworm.com/index.php?rid=2424171&cid=t_104432_107_f&fid=36698&url=http%3A%2F%2Fminingdrugs.blogspot.com%2F2009%2F05%2Fpeer-recognition-and-building.html "Experts will want to contribute to coworkers who need them, who will hear them, who will respect them and who may even thank them. ... Rather than asking, How do we incentivise people to share their knowledge? It would be more useful to ask, How do we develop relationships across the globe that will set in motion more knowledge sharing?" [slightly generalized after Nancy Dixon]"Today there seems to be a new distribution model that is emerging. One that is based on people’s ability to publically syndicate and distribute messages — aka content — in an open manner. This has been a part of the internet since day one — yet now its emerging in a different form — it's not pages, it's streams, its social and so its syndication." [John Borthwick]Recently, there are many efforts ongoing... Mining Drug Space blogs http://www.medworm.com/rss/comments.php?id=2424171 Tue, 19 May 2009 19:16:00 +0100 2424171 http://www.medworm.com/index.php?rid=2040005&cid=t_104432_132_f&fid=35028&url=http%3A%2F%2Flurena.vox.com%2Flibrary%2Fpost%2Fsymba-demo-causes-pondering-how-should-a-bioinformatician-choose-their-output-formats.html%3F_c%3Dfeed-rss BBSRC Systems Biology Grantholder Workshop, University of Nottingham, 16 December 2008. SyMBA Demo. The lunch hour was also the demo hour. People came to visit me at the SyMBA demo desk for the whole hour, and we had some interesting conversation... Read and post comments | Send to a friend (Source: Systems Biology & Bioinformatics) Systems Biology & Bioinformatics blogs http://www.medworm.com/rss/comments.php?id=2040005 Tue, 16 Dec 2008 14:47:17 +0100 2040005 http://www.medworm.com/index.php?rid=2040008&cid=t_104432_132_f&fid=35028&url=http%3A%2F%2Flurena.vox.com%2Flibrary%2Fpost%2Fsysmo-db-and-carole-goble.html%3F_c%3Dfeed-rss BBSRC Systems Biology Grantholder Workshop, University of Nottingham, 16 December 2008. Systems Biology of Microorganisms. 11 projects from 91 institutes, whose aim is to record and describe the dynamic molecular processes occurring in microorgan... Read and post comments | Send to a friend (Source: Systems Biology & Bioinformatics) Systems Biology & Bioinformatics blogs http://www.medworm.com/rss/comments.php?id=2040008 Tue, 16 Dec 2008 12:00:37 +0100 2040008 http://www.medworm.com/index.php?rid=2033141&cid=t_104432_132_f&fid=35028&url=http%3A%2F%2Flurena.vox.com%2Flibrary%2Fpost%2Fadding-informative-metadata-to-bioinformatics-services.html%3F_c%3Dfeed-rss [This post has also been copied across to my researchblogging-friendly wordpress site (now completely defunct except for my research blogging efforts, as Vox doesn't play nicely with their aggregator software)]. Carole Goble and the other auth... Read and post comments | Send to a friend (Source: Systems Biology & Bioinformatics) Systems Biology & Bioinformatics blogs http://www.medworm.com/rss/comments.php?id=2033141 Fri, 12 Dec 2008 15:22:43 +0100 2033141 http://www.medworm.com/index.php?rid=2021456&cid=t_104432_132_f&fid=35028&url=http%3A%2F%2Flurena.vox.com%2Flibrary%2Fpost%2Fpre-workshop-post-on-the-fuge-isa-tab-workshop-8-9-december.html%3F_c%3Dfeed-rss Tomorrow is the first day of a two-day workshop set up to continue the integration process between the ISA-TAB format and the FuGE standard. (Well, technically, it starts tonight with a workshop dinner, where I'll get to catch up with the people i... Read and post comments | Send to a friend (Source: Systems Biology & Bioinformatics) Systems Biology & Bioinformatics blogs http://www.medworm.com/rss/comments.php?id=2021456 Sun, 07 Dec 2008 15:28:56 +0100 2021456 http://www.medworm.com/index.php?rid=1754689&cid=t_104432_132_f&fid=35028&url=http%3A%2F%2Flurena.vox.com%2Flibrary%2Fpost%2Fsynergistic-standards-for-omics-data-an-overview.html%3F_c%3Dfeed-rss Susanna-Assunta Sansone / Philippe Rocca-Serra Afternoon Session, 2 September (11th MGED Meeting, 1-4 September, 2008) Standards are a means to an end: they are meant to provide an unambiguous representation, description, and communication of dat... Read and post comments | Send to a friend (Source: Systems Biology & Bioinformatics) Systems Biology & Bioinformatics blogs http://www.medworm.com/rss/comments.php?id=1754689 Tue, 02 Sep 2008 12:51:42 +0100 1754689 http://www.medworm.com/index.php?rid=1754691&cid=t_104432_132_f&fid=35028&url=http%3A%2F%2Flurena.vox.com%2Flibrary%2Fpost%2Fintroduction-and-update-on-mged-standards.html%3F_c%3Dfeed-rss Chris Stoeckert Afternoon Session, 2 September (11th MGED Meeting, 1-4 September, 2008) How do we tie together the various "silos" of communities and data? There is a real ecosystem of biomedical standards. Not just MGED, but also PSI, MSI, OBO, ... Read and post comments | Send to a friend (Source: Systems Biology & Bioinformatics) Systems Biology & Bioinformatics blogs http://www.medworm.com/rss/comments.php?id=1754691 Tue, 02 Sep 2008 12:20:25 +0100 1754691 http://www.medworm.com/index.php?rid=1409644&cid=t_104432_132_f&fid=35016&url=http%3A%2F%2Fpeanutbutter.wordpress.com%2F2008%2F04%2F30%2Fopen-ed-gel-electrophoresis-data%2F Several months ago - about 3, I made a public commitment to make the data I have generated during my Phd open and available online. Well I have not ignored this and in the interim I have been investigating various ways I can do this. Not only do I want to make it available but I want to structure it in a standard form, namely the gelML format. In addition, I was involved in developing it the specification and therefore, I have somewhat an obligation to use it. As it is an XML transfer format I needed to be make changes and revision it, like developing code, so in that sense recording the data on a wiki or blog would not be appropriate. For this reason I have chosen to create a google code project for gel electrophoresis data and do everything in subversion. You can browse the subversion re... peanutbutter blogs http://www.medworm.com/rss/comments.php?id=1409644 Wed, 30 Apr 2008 09:36:17 +0100 1409644 http://www.medworm.com/index.php?rid=1344102&cid=t_104432_132_f&fid=35016&url=http%3A%2F%2Fpeanutbutter.wordpress.com%2F2008%2F04%2F02%2Fthe-first-mibbi-workshop-day-1%2F MIBBI is a registry of scientific experiment reporting guidelines with the idea to foster a foundry of best practice to further develop and encourage modular development and re-use of reporting guidelines. The first workshop is being held at the EBI on the 2nd - 3rd April 2008 and is a relatively closed workshop to those developers and guidelines that are registered on the site. The schedule for day one is a whistle stop tour consisting of 5 min talks (adjusting for an academics interpretation of what 5 minutes means) for all the guidelines that exist, their scope and the people behind them. Due to this I am not going to comment on individual talks. I presented two talks during the day. One on CARMEN and the development of the MINI: Electrophysiology reporting guidelines, and one, standing... peanutbutter blogs http://www.medworm.com/rss/comments.php?id=1344102 Wed, 02 Apr 2008 13:36:39 +0100 1344102 http://www.medworm.com/index.php?rid=1331299&cid=t_104432_132_f&fid=35016&url=http%3A%2F%2Fpeanutbutter.wordpress.com%2F2008%2F03%2F27%2Fa-data-model-for-life-science-experiments-fuge%2F This post may be one in a series of responses to Cameron’s post on “Proposing a data model for Open Notebooks“. When I originally read this post I commented on the fact that a data model for experiments actually exists and that he may get some mileage out of it rather than starting from scratch and re-creating the wheel. Several discussions have followed on from this original post and Neil has picked up on it as well, with sentiments that I agree with. I think a large part of this discussion confuses and conflates 3 issues which I believe to be separate; the representation of experiments - the data model the presentation or level of abstraction to the user (probably some what dependent on 3.) the implementation of the data model With these three issues in mind, to start... peanutbutter blogs http://www.medworm.com/rss/comments.php?id=1331299 Thu, 27 Mar 2008 13:55:50 +0100 1331299 http://www.medworm.com/index.php?rid=1096159&cid=t_104432_132_f&fid=35028&url=http%3A%2F%2Flurena.vox.com%2Flibrary%2Fpost%2Ffuge-users-workshop-13-14-december-2007.html%3F_c%3Dfeed-rss The two-day FuGE Users' workshop was organized by Norman Paton and held at the University of Manchester. It was great fun, and if you just want the short summary of my time there, then just know that there was loads of enthusiasm for FuGE as well... Read and post comments | Send to a friend (Source: Systems Biology & Bioinformatics) Systems Biology & Bioinformatics blogs http://www.medworm.com/rss/comments.php?id=1096159 Fri, 14 Dec 2007 18:51:36 +0100 1096159 http://www.medworm.com/index.php?rid=1088708&cid=t_104432_132_f&fid=35028&url=http%3A%2F%2Flurena.vox.com%2Flibrary%2Fpost%2F1st-rsbi-workshop-6-8-december-2007.html%3F_c%3Dfeed-rss Last week I attended the first RSBI (Reporting Structure for Biological Investigations) Workshop, carrying with me a multitude of hats. RSBI is a working group committed to the progression of standardization in multi-omics investigations. The purp... Read and post comments | Send to a friend (Source: Systems Biology & Bioinformatics) Systems Biology & Bioinformatics blogs http://www.medworm.com/rss/comments.php?id=1088708 Wed, 12 Dec 2007 11:44:46 +0100 1088708 http://www.medworm.com/index.php?rid=534979&cid=t_104432_132_f&fid=35028&url=http%3A%2F%2Flurena.vox.com%2Flibrary%2Fpost%2F6a00d09e508d74be2b00d4142c8c416a47.html You can see my post on day 3 here:  http://lurena.vox.com/library/post/3rd-obi-workshop-day-3.html And on day 4 here: http://lurena.vox.com/library/post/3rd-obi-workshop-day-4.html  (Source: Systems Biology & Bioinformatics) Systems Biology & Bioinformatics blogs http://www.medworm.com/rss/comments.php?id=534979 Tue, 10 Apr 2007 14:56:28 +0100 534979 http://www.medworm.com/index.php?rid=485533&cid=t_104432_132_f&fid=35028&url=http%3A%2F%2Flurena.vox.com%2Flibrary%2Fpost%2Fbeta-release-cisban-data-portal-and-integrator.html The Centre for Integrated Systems Biology of Ageing and Nutrition has developed a Data Portal and Integrator (CISBAN DPI) based on Milestone 3 of the Functional Genomics Experiment (FuGE) Object Model (FuGE-OM), and which archives, stores, and retrieves raw high-throughput data. We are pleased to announce that the CISBAN Data Portal and Integrator is now available in a public sandbox version. Please note that this release is still at an early beta stage, and any data you may upload to the server may be deleted at any time. You will need a logon to access this database, which you may request from the helpdesk. This is a low-level of security that will only serve to prevent anonymous load on the database and to keep your sandbox area separate from others. For more inform... Systems Biology & Bioinformatics blogs http://www.medworm.com/rss/comments.php?id=485533 Fri, 16 Mar 2007 16:40:12 +0100 485533