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 'bioblogs'. Sat, 03 Sep 2011 02:28:23 +0100 http://www.medworm.com/index.php?rid=2296209&cid=t_104228_132_f&fid=35006&url=http%3A%2F%2Fnsaunders.wordpress.com%2F2009%2F03%2F24%2Feveryone%2F …is the new community blog from PLoS ONE. They write: This blog is for authors who have published with us and for users who haven’t and it contains something for everyone. You’ll need a WordPress.com account to contribute; it’s a quick, unobtrusive sign-up and why not start a blog there too, if you haven’t already done so. Bora writes: and spread the word, outside of just twitter and friendfeed Posted in bioblogs, blogroll, publications (Source: What You're Doing Is Rather Desperate) What You're Doing Is Rather Desperate blogs http://www.medworm.com/rss/comments.php?id=2296209 Thu, 26 Mar 2009 21:59:10 +0100 2296209 http://www.medworm.com/index.php?rid=1759820&cid=t_104228_132_f&fid=35006&url=http%3A%2F%2Fnsaunders.wordpress.com%2F2008%2F09%2F04%2Fblogroll%2F Couple of new blogs in my Google Reader that you may want to investigate: Bioinformatics on Rails Few posts, updated infrequently - going to follow for a while and see where it goes. Bench Press “We’re four science and tech geeks who decided that the world needs yet another science blog.” A good recent post on electronic lab notebooks. (Source: What You're Doing Is Rather Desperate) What You're Doing Is Rather Desperate blogs http://www.medworm.com/rss/comments.php?id=1759820 Thu, 04 Sep 2008 06:14:44 +0100 1759820 http://www.medworm.com/index.php?rid=1750047&cid=t_104228_132_f&fid=35006&url=http%3A%2F%2Fnsaunders.wordpress.com%2F2008%2F09%2F02%2Fsnippets-4%2F Bioinformatics career survey - data released Read the blog post, join the FriendFeed discussion, edit the wiki page. Don’t like the analyses? Download the data, do your own. A new job for everyone’s favourite French bioinformatician - congratulations Pierre (Source: What You're Doing Is Rather Desperate) What You're Doing Is Rather Desperate blogs http://www.medworm.com/rss/comments.php?id=1750047 Tue, 02 Sep 2008 02:47:20 +0100 1750047 http://www.medworm.com/index.php?rid=1358514&cid=t_104228_132_f&fid=35006&url=http%3A%2F%2Fnsaunders.wordpress.com%2F2008%2F04%2F09%2Fbioblogs-20%2F is up, over at Pedro’s place. Lots of interesting material from the bioinformatics blogosphere this month, so go and have a read. As I suspected, now that Pedro is a bright young US postdoc (no doubt working 18 hour days), his time commitments have pushed Bio::Blogs down the priority list. If anyone can help out, or suggest alternatives to the current system of monthly compilation by one person, do get in touch with him at his blog. I wonder if we can use some of the aggregated content at places like FriendFeed or the Nodalpoint news aggregator as an easier way to generate monthly summaries of activity? (Source: What You're Doing Is Rather Desperate) What You're Doing Is Rather Desperate blogs http://www.medworm.com/rss/comments.php?id=1358514 Wed, 09 Apr 2008 01:20:41 +0100 1358514 http://www.medworm.com/index.php?rid=2512433&cid=t_104228_132_f&fid=35013&url=http%3A%2F%2Ffeedproxy.google.com%2F%7Er%2Fpedrobeltrao%2F%7E3%2FTtEhtHbsSyI%2Fbioblogs20-very-late-edition.html I said I would organize the 20th edition of Bio::Blogs here on the 1st of April but April fools and my current work load did not allow me to get Bio::Blogs up on time. There were a couple of interesting discussions and blog posts in March worth noting. For example, Neil mentioned a post by Jennifer Rohn started that initiated what could be one of the longest threads in Nature Network :"In which I utterly fail to conceptualize". It started off as small anti-Excel rant but turned in the comments to 1st) a discussion of bioinformatic tools to use, 2nd) a discussion of wet versus dry mindset and how much one should devote to learn the other. Finally it ended up as a exchange about collaborations and how a social networking site like Nature Network could/should help scientists find collaborator... Public Rambling blogs http://www.medworm.com/rss/comments.php?id=2512433 Tue, 08 Apr 2008 17:11:00 +0100 2512433 http://www.medworm.com/index.php?rid=1340501&cid=t_104228_132_f&fid=35013&url=http%3A%2F%2Ffeeds.feedburner.com%2F%7Er%2Fpedrobeltrao%2F%7E3%2F261600145%2Fcall-for-bioblogs-20.html The 20th edition of Bio::Blogs will be posted here by the end of tomorrow. This is very short notice but if anyone would like to contribute please send a few links of the most interesting things of the past month and I will put everything together (email bioblogs at gmail). (Source: Public Rambling) Public Rambling blogs http://www.medworm.com/rss/comments.php?id=1340501 Mon, 31 Mar 2008 23:42:00 +0100 1340501 http://www.medworm.com/index.php?rid=1287797&cid=t_104228_132_f&fid=35006&url=http%3A%2F%2Fnsaunders.wordpress.com%2F2008%2F03%2F08%2Fbioblogs-19%2F Bio::Blogs edition #19 is online. This edition has a bioengineering focus and is hosted by Duncan at his new WordPress home, O’Really?. He’s done a great job, so head over there for some weekend reading. Remember, volunteers to host future editions are always welcome - details here. (Source: What You're Doing Is Rather Desperate) What You're Doing Is Rather Desperate blogs http://www.medworm.com/rss/comments.php?id=1287797 Sat, 08 Mar 2008 01:03:20 +0100 1287797 http://www.medworm.com/index.php?rid=1248930&cid=t_104228_132_f&fid=35001&url=http%3A%2F%2Fwww.nodalpoint.org%2F2008%2F02%2F22%2Fbio_blogs_19 is fast approaching, hot on the heels of Bio::Blogs 18 which was hosted by Michael Barton. I'll be hosting this one over at O'Really? and publishing it at the beginning of March, so send any interesting stuff to bioblogs /ate/ gmail.com. read more (Source: nodalpoint.org - A bioinformatics weblog) nodalpoint.org - A bioinformatics weblog blogs http://www.medworm.com/rss/comments.php?id=1248930 Fri, 22 Feb 2008 08:21:22 +0100 1248930 http://www.medworm.com/index.php?rid=1246582&cid=t_104228_132_f&fid=35006&url=http%3A%2F%2Fnsaunders.wordpress.com%2F2008%2F02%2F21%2Ffeedjournal-silly-but-fun%2F Via LifeHacker: Web application FeedJournal turns your RSS feed(s) of choice into a newspaper-formatted PDF. A little clunky and buggy when I tried it out, but I eventually generated this PDF from a few of my Google shared items. I’m not keen on the way articles are headed “by neilfws” - I didn’t write any of them! What use is it? Not much - perhaps a nice way to generate a PDF for the next edition of Bio::Blogs. (Source: What You're Doing Is Rather Desperate) What You're Doing Is Rather Desperate blogs http://www.medworm.com/rss/comments.php?id=1246582 Thu, 21 Feb 2008 05:55:08 +0100 1246582 http://www.medworm.com/index.php?rid=1238128&cid=t_104228_132_f&fid=35013&url=http%3A%2F%2Ffeeds.feedburner.com%2F%7Er%2Fpedrobeltrao%2F%7E3%2F236736070%2Flate-links-bioblogs18-new-blog.html I have been away from the web for the last few weeks as I moved to San Francisco to start my first postdoc. I will be working at UCSF in the Lim Lab and the Krogan lab on the evolution of signaling in yeasts. I'll try to blog more about it later during the year. I am looking forward to getting to know the bay area and hopefully make the most of the great (and apparently relaxed) science & technology environment.Early this month Michael Barton edited another great edition of Bio::Blogs mostly dedicated to open science. He also put together an essay on the subject that is worth reading and commenting on. The next edition of Bio::Blogs will probably come back here to Public Rambling on the 1st of March (unless there is another volunteer).Also in these last few weeks Lars Juhl Jensen start... Public Rambling blogs http://www.medworm.com/rss/comments.php?id=1238128 Fri, 08 Feb 2008 20:32:00 +0100 1238128 http://www.medworm.com/index.php?rid=1195826&cid=t_104228_132_f&fid=35006&url=http%3A%2F%2Fnsaunders.wordpress.com%2F2008%2F02%2F02%2Fbioblogs-18%2F A new year, a new Bio::Blogs - edition #18. Hosted by Mike over at Bioinformatics Zen, this issue focuses on open notebook science. If you’re wondering what was hot in the bioinformatics blogosphere the past month, that’s the place to go. Remember, hosts and monthly contributions are always welcome - details here. (Source: What You're Doing Is Rather Desperate) What You're Doing Is Rather Desperate blogs http://www.medworm.com/rss/comments.php?id=1195826 Sat, 02 Feb 2008 01:24:43 +0100 1195826 http://www.medworm.com/index.php?rid=1546733&cid=t_104228_132_f&fid=35004&url=http%3A%2F%2Fwww.bioinformaticszen.com%2F2008%2F02%2Ffebruary-2008-edition-of-bioblogs%2F This is the February edition of Bio::Blogs, an aggregation of bioinformatics posts from the past month. This issue has a particular focus on Open Notebook Science - researchers sharing their work as they produce it. For this edition, with the help of Cameron Neylon, Jean-Claude Bradley, and Pedro Beltrao, I’ve tried to write a short essay on open science as well as the open notebook variety. I’ve posted this on my research website. Cameron Neylon’s proposal for an ONS Network has received comments from the reviewers, and I think this is great for moving ONS to formal acceptance by the wider community. Shirley Wu and friends have burst onto the scene with multiple blog posts on ONS, and the rapid development of an ONS session proposal for the Pacific Symposium on Biocompu... Bioinformatics Zen blogs http://www.medworm.com/rss/comments.php?id=1546733 Fri, 01 Feb 2008 18:14:45 +0100 1546733 http://www.medworm.com/index.php?rid=1064565&cid=t_104228_132_f&fid=35006&url=http%3A%2F%2Fnsaunders.wordpress.com%2F2007%2F12%2F02%2Fbioblogs-17%2F Glancing through my November archive, I note (1) few if any bioinformatics posts and (2) few posts of any kind. Well, sometimes blogging has to take a back seat. It seems many of us are snowed under in the run-up to the holidays. Despite this, Paulo has compiled an excellent edition of Bio::Blogs, number 17. Go there for a summary of news from the bioinformatics blogosphere in the past month. Remember, volunteers to host future editions are always welcome. (Source: What You're Doing Is Rather Desperate) What You're Doing Is Rather Desperate blogs http://www.medworm.com/rss/comments.php?id=1064565 Sun, 02 Dec 2007 06:01:05 +0100 1064565 http://www.medworm.com/index.php?rid=1054766&cid=t_104228_132_f&fid=35013&url=http%3A%2F%2Ffeeds.feedburner.com%2F%7Er%2Fpedrobeltrao%2F%7E3%2F191421191%2Fbioblogs-17-call-for-submissions.html The 17th edition of Bio::Blogs will be hosted by Paulo Nuin at Blind.Scientist . Submissions of interesting bioinformatic related blog posts of this month can be sent, until the end of the November, to the usual address (bioblogs at gmail dot com) or to nuin at genedrift dot org. There is also still time to submit blog posts to the OpenLab 2007 compilation. (Source: Public Rambling) Public Rambling blogs http://www.medworm.com/rss/comments.php?id=1054766 Tue, 27 Nov 2007 18:41:00 +0100 1054766 http://www.medworm.com/index.php?rid=998570&cid=t_104228_132_f&fid=35013&url=http%3A%2F%2Ffeeds.feedburner.com%2F%7Er%2Fpedrobeltrao%2F%7E3%2F178234183%2Fbioblogs-16-one-with-halloween-theme.html The 16# edition of Bio::Blogs is know available at Freelancing science. Jump over there for summary of what has been going on during this month in the bioinformatic related blogs. If not for anything else then just to have a look at the pumpkin. Thanks again to everyone that participated. Paulo Nuin from Blind.Scientist has volunteered to host the 17# edition that is scheduled to appear as usual on the 1st of December. (Source: Public Rambling) Public Rambling blogs http://www.medworm.com/rss/comments.php?id=998570 Thu, 01 Nov 2007 13:21:00 +0100 998570 http://www.medworm.com/index.php?rid=996487&cid=t_104228_132_f&fid=35006&url=http%3A%2F%2Fnsaunders.wordpress.com%2F2007%2F11%2F01%2Fbioblogs-16%2F We have a first for Bio::Blogs this month: a holiday-themed edition. Pumpkins are involved. Pawel has done a great job and put together lots of interesting material from the bioinformatics blogosphere. The categories this month are scientific communication, bioinformatics workspaces and software tips. Go and have a read. Volunteers to host future editions are always welcome; email bioblogs at gmail dot com. (Source: What You're Doing Is Rather Desperate) What You're Doing Is Rather Desperate blogs http://www.medworm.com/rss/comments.php?id=996487 Thu, 01 Nov 2007 01:49:09 +0100 996487 http://www.medworm.com/index.php?rid=968245&cid=t_104228_132_f&fid=35006&url=http%3A%2F%2Fnsaunders.wordpress.com%2F2007%2F10%2F22%2Fplenty-of-time-for-bioblogs-16-submissions%2F Bio::Blogs, the monthly bioinformatics blog journal will be hosted at Freelancing science on November 1. You know what to do and you’ve plenty of time to do it. Send links to posts (your own or others) to the email addresses in Pawel’s post. Email bioblogs at gmail dot com if you’d like to host an edition - it’s easy, fun and the appreciation from the community will make you warm and fuzzy. (Source: What You're Doing Is Rather Desperate) What You're Doing Is Rather Desperate blogs http://www.medworm.com/rss/comments.php?id=968245 Mon, 22 Oct 2007 03:50:42 +0100 968245 http://www.medworm.com/index.php?rid=966877&cid=t_104228_132_f&fid=35013&url=http%3A%2F%2Ffeeds.feedburner.com%2F%7Er%2Fpedrobeltrao%2F%7E3%2F172908514%2Fbioblogs-16-call-for-submissions.html The next edition of Bio::Blogs (bioinformatics blog journal) will be hosted at Freelancing science on the 1st of November. If you find anything this month that you think is interesting to add to this addition send an email to bioblogs at gmail. com until the end of the month. Anyone interested in hosting future edition can also send an email to volunteer. (Source: Public Rambling) Public Rambling blogs http://www.medworm.com/rss/comments.php?id=966877 Sun, 21 Oct 2007 14:35:00 +0100 966877 http://www.medworm.com/index.php?rid=918860&cid=t_104228_132_f&fid=35006&url=http%3A%2F%2Fnsaunders.wordpress.com%2F2007%2F10%2F02%2Fbioblogs-15%2F For your pleasure at Pedro’s place. Go read. Remember, volunteers to host an edition of Bio::Blogs are always very welcome. (Source: What You're Doing Is Rather Desperate) What You're Doing Is Rather Desperate blogs http://www.medworm.com/rss/comments.php?id=918860 Tue, 02 Oct 2007 05:42:53 +0100 918860 http://www.medworm.com/index.php?rid=913461&cid=t_104228_132_f&fid=35013&url=http%3A%2F%2Ffeeds.feedburner.com%2F%7Er%2Fpedrobeltrao%2F%7E3%2F162860150%2Fbioblogs-15-call-for-submission-since.html Bio::Blogs #15 - call for submissionSince there were no volunteers :) I will be hosting the 15th edition of Bio::Blogs here in the blog. I will be gathering some posts from around the web on bioinformatics and other science related topics from the last month and will post about in on the 1st of October. Suggestions are more than welcome. Please email any links to interesting blog posts to bioblogs at gmail dot com. On a personal note, I have defended my PhD :). This mostly explains the low volume blogging. (Source: Public Rambling) Public Rambling blogs http://www.medworm.com/rss/comments.php?id=913461 Sat, 29 Sep 2007 10:50:00 +0100 913461 http://www.medworm.com/index.php?rid=928807&cid=t_104228_132_f&fid=35004&url=http%3A%2F%2Fwww.bioinformaticszen.com%2F2007%2F09%2Fmy-open-science-notebook%2F I said, a month ago, that there would be an open science section for this month’s issue of Bio::Blogs. Unfortunately this wasn’t the case. There are a number of theories as to why this didn’t materialise, including global warming, the recent stock market panic, or the appointment of new British Prime Minister. However research has suggested that it was because I didn’t work on it; though the other reasons are linked to having had secondary effects. (more…) (Source: Bioinformatics Zen) Bioinformatics Zen blogs http://www.medworm.com/rss/comments.php?id=928807 Mon, 10 Sep 2007 17:58:51 +0100 928807 http://www.medworm.com/index.php?rid=836626&cid=t_104228_132_f&fid=35006&url=http%3A%2F%2Fnsaunders.wordpress.com%2F2007%2F09%2F02%2Fbioblogs-14%2F is published over at My Biotech Life. Some good contributions this month, so go and check out the latest from the bioinformatics blogosphere. New hosts and contributions are always welcome; contact Pedro or email bioblogs <at> gmail dot com. (Source: What You're Doing Is Rather Desperate) What You're Doing Is Rather Desperate blogs http://www.medworm.com/rss/comments.php?id=836626 Sun, 02 Sep 2007 10:03:59 +0100 836626 http://www.medworm.com/index.php?rid=832523&cid=t_104228_132_f&fid=35006&url=http%3A%2F%2Fnsaunders.wordpress.com%2F2007%2F08%2F31%2Fbioblogs-14-call-for-submissions%2F End of the month already? Ricardo is hosting Bio::Blogs #14. Send him your posts. (Source: What You're Doing Is Rather Desperate) What You're Doing Is Rather Desperate blogs http://www.medworm.com/rss/comments.php?id=832523 Fri, 31 Aug 2007 00:13:36 +0100 832523 http://www.medworm.com/index.php?rid=829922&cid=t_104228_132_f&fid=35013&url=http%3A%2F%2Ffeeds.feedburner.com%2F%7Er%2Fpedrobeltrao%2F%7E3%2F149758223%2Fbioblogs-14-call-for-submissions-14th.html Bio::Blogs #14 call for submissionsThe 14th edition of Bio::Blogs will be hosted by Ricardo at My Biotech Life. It will be made available on the 1st of September and submissions can be sent by email as mentioned in his blog post. (Source: Public Rambling) Public Rambling blogs http://www.medworm.com/rss/comments.php?id=829922 Wed, 29 Aug 2007 18:51:00 +0100 829922 http://www.medworm.com/index.php?rid=841719&cid=t_104228_132_f&fid=35004&url=http%3A%2F%2Fwww.bioinformaticszen.com%2F2007%2F08%2Fthree-more-journal-responses-on-open-science-nature-plos-and-bmc%2F All emails have been put on the Nodalpoint wiki. Here’s a brief summary of each. Nature’s response came from the always helpful Maxine Clarke, who regularly appears on their publishing blog. Nature encourages the discussion of work by scientists prior to publication, such as the established practices of preprint servers and presenting at conferences, but blogs and wikis are also covered under this. Nature is however very strict about discussing work with the media until the peer review process is complete. I contacted Matt Hodgkinson at BMC, after reading about a discussion with Heather on her blog. Publishing data and figures on personal websites is considered by BMC to be similar to informal preprint circulation, and therefore does not prevent the inclusion of the data in an ... Bioinformatics Zen blogs http://www.medworm.com/rss/comments.php?id=841719 Fri, 10 Aug 2007 17:30:44 +0100 841719 http://www.medworm.com/index.php?rid=777558&cid=t_104228_132_f&fid=35013&url=http%3A%2F%2Ffeeds.feedburner.com%2F%7Er%2Fpedrobeltrao%2F%7E3%2F140306839%2Fbioblogs13-great-edition-of-monthly.html Bio::Blogs#13A great edition of the monthly Bio::Blogs is up at Neil's blog. This month there are plenty of tutorials and a round up of blog coverage about the ISMB/ECCB 2007 conference.PDF version for offline reading of the editorial and highlighted posts is here and here (Box.net copy).If someone wants to give it a try at editing future editions of Bio::Blogs let me know. Speaking of community projects, the list of webservers published in that last NAR webserver edition are in this Nodalpoint wiki webpage. If you try one of these services spend a minute noting down if it was even available, if it worked well, etc. (Source: Public Rambling) Public Rambling blogs http://www.medworm.com/rss/comments.php?id=777558 Fri, 03 Aug 2007 12:44:00 +0100 777558 http://www.medworm.com/index.php?rid=776075&cid=t_104228_132_f&fid=35006&url=http%3A%2F%2Fnsaunders.wordpress.com%2F2007%2F08%2F03%2Fbioblogs-13%2F Welcome aboard - it’s edition #13 of Bio::Blogs, the monthly compendium of bioinformatics and computational biology highlights from around the blogosphere. It’s a bumper edition this month with 28 posts in all from 18 blogs. Thanks to everyone who submitted posts. As with previous editions, this one has a PDF version for your offline enjoyment. I’ve contacted almost all the bloggers to make sure that they are happy if their posts are reproduced and nobody objected. All posts in the PDF are fully attributed with hyperlinks - we don’t want anyone to think that we’re stealing their work for some sort of dubious publication. If I didn’t contact you and you do object, get in touch. Here it is then: Bio::Blogs #13 PDF (760 KB). Please save the forests by print... What You're Doing Is Rather Desperate blogs http://www.medworm.com/rss/comments.php?id=776075 Fri, 03 Aug 2007 06:22:06 +0100 776075 http://www.medworm.com/index.php?rid=776144&cid=t_104228_132_f&fid=35001&url=http%3A%2F%2Fwww.nodalpoint.org%2F2007%2F08%2F02%2Fbio_blogs_13_online Here it is, complete with PDF (760 KB). Tired now. Enjoy. (Source: nodalpoint.org - A bioinformatics weblog) nodalpoint.org - A bioinformatics weblog blogs http://www.medworm.com/rss/comments.php?id=776144 Fri, 03 Aug 2007 03:42:19 +0100 776144 http://www.medworm.com/index.php?rid=841721&cid=t_104228_132_f&fid=35004&url=http%3A%2F%2Fwww.bioinformaticszen.com%2F2007%2F08%2Ftwo-journal-replies%2F While away in Madrid, I received two replies to my open science question to journals, from Elsevier and from BMC. In short summary, Elsevier’s point of view, excluding Cell and Lancet, was quite positive with “watch, test and learn from examples”. BMC’s response was slightly negative, with “we only publish original research articles”. I’ve put both these emails on the nodalpoint wiki here, so that you can go and read them yourself and make up your own mind. I’m very grateful that these two publishers replied, but I’m a bit disappointed by the lack of response from the other journals. Particularly PNAS, Nature, and PLoS which seem to be the most open science friendly. Any thoughts on this would be appreciated. I could get on the telephon... Bioinformatics Zen blogs http://www.medworm.com/rss/comments.php?id=841721 Wed, 01 Aug 2007 17:36:52 +0100 841721 http://www.medworm.com/index.php?rid=770574&cid=t_104228_132_f&fid=35006&url=http%3A%2F%2Fnsaunders.wordpress.com%2F2007%2F08%2F01%2Fbioblogs-coming-this-friday-3rd%2F As I posted previously, a slight delay to Bio::Blogs; I’m going to post on Friday 3rd. So you still have a day or two to submit posts. There’s been a flurry after a slow start, so expect plenty of content this month. (Source: What You're Doing Is Rather Desperate) What You're Doing Is Rather Desperate blogs http://www.medworm.com/rss/comments.php?id=770574 Tue, 31 Jul 2007 22:48:30 +0100 770574 http://www.medworm.com/index.php?rid=765008&cid=t_104228_132_f&fid=35001&url=http%3A%2F%2Fwww.nodalpoint.org%2F2007%2F07%2F29%2Fbio_blogs_13_call_for_submissions It's almost time for the monthly compendium of bioinformatics-oriented material from the blogosphere that we call Bio::Blogs. I'll be hosting this month so send your submissions to the usual bioblogs <at> gmail <dot> com. Remember, you can send one of your own posts or recommend someone else's. The official publishing date is August 1st (Wednesday), but I may delay until Friday 3rd, depending on other commitments this week. (Source: nodalpoint.org - A bioinformatics weblog) nodalpoint.org - A bioinformatics weblog blogs http://www.medworm.com/rss/comments.php?id=765008 Mon, 30 Jul 2007 00:06:55 +0100 765008 http://www.medworm.com/index.php?rid=764959&cid=t_104228_132_f&fid=35013&url=http%3A%2F%2Ffeeds.feedburner.com%2F%7Er%2Fpedrobeltrao%2F%7E3%2F138538336%2Fbioblogs-13-call-for-submissions-neil.html Bio::Blogs #13 call for submissionsNeil has kindly agreed to host the next edition of Bio::Blogs, due out on the first of August. Send in links to blog posts of bioinformatics/chemioinformatics/omics/open science related content to bioblogs at gmail and they will be re-directed to him. (Source: Public Rambling) Public Rambling blogs http://www.medworm.com/rss/comments.php?id=764959 Sun, 29 Jul 2007 15:14:00 +0100 764959 http://www.medworm.com/index.php?rid=841725&cid=t_104228_132_f&fid=35004&url=http%3A%2F%2Fwww.bioinformaticszen.com%2F2007%2F07%2Fjournals-the-open-science-question%2F I think journal policies towards preprint servers are covered by the data from the Romeo database, outlined previously. For the next stage of the open science edition of tips and tricks I think I need to include clarification of journal positions towards publication and discussion of data on blogs, wikis, and such like. I spent a while trying to come up with a suitably clever letter, but this is the best I could do. Dear Sirs, I’m compiling, with the bioinformatics blogging community, a guide to open science. I believe one of the one of most important points on in this issue are journal editorial polices towards sharing and discussing research, prior to publication. The use of preprint servers is becoming accepted, however the position of journals towards the use of blogs and wikis t... Bioinformatics Zen blogs http://www.medworm.com/rss/comments.php?id=841725 Wed, 04 Jul 2007 16:43:33 +0100 841725 http://www.medworm.com/index.php?rid=707605&cid=t_104228_132_f&fid=35013&url=http%3A%2F%2Fpbeltrao.blogspot.com%2F2007%2F07%2Fbioblogs-12-and-blogroll-update-12th.html BioBlogs #12 and a blogroll updateThe 12th edition of Bio::Blogs is out in Nodalpoint. It has been one year of monthly posts (mostly) about bioinformatics. Is anyone interested in hosting the next edition ? Also, I updated my blogroll to reflect more what I am currently reading. Most updates are in the bioinformatics part but there are a couple of additions in all of them. (Source: Public Rambling) Public Rambling blogs http://www.medworm.com/rss/comments.php?id=707605 Sun, 01 Jul 2007 21:41:00 +0100 707605 http://www.medworm.com/index.php?rid=707378&cid=t_104228_132_f&fid=35001&url=http%3A%2F%2Fwww.nodalpoint.org%2F2007%2F07%2F01%2Fbio_blogs_12_1_year_anniversary Welcome to the 12th edition of Bio::Blogs, a monthly blog journal covering bioinformatic related blog posts. This month officially marks 1 full year that Bio::Blogs has been running (we skipped a month along the way). In the last couple of months Bio::Blogs has been sticking around Nodalpoint but I was hoping that other people could now give it a try at hosting this in their blogs. Also, maybe we could find a different (and easier) way of voting for blog posts to include. I was wondering if we could somehow get feeds like the stared Google reader items or link blogs or social bookmarking feeds from several different people together to come up with an automatic selection from the individual filtering done by everyone. The PDF version of this month is a bit late so I might update this post o... nodalpoint.org - A bioinformatics weblog blogs http://www.medworm.com/rss/comments.php?id=707378 Sun, 01 Jul 2007 17:00:58 +0100 707378 http://www.medworm.com/index.php?rid=700653&cid=t_104228_132_f&fid=35013&url=http%3A%2F%2Fpbeltrao.blogspot.com%2F2007%2F06%2Fcall-for-bioblogs-12-i-am-collecting.html Call for Bio::Blogs #12I am collecting submissions for the 12th edition of Bio::Blogs. Send in links to blog posts you want to share from your blog or that you enjoyed reading in other blogs to bioblogs at gmail until the end of the month. The next edition will be up at Nodalpoint on the 1st of Jully. Maybe it could be cool to try out a section on papers of the month as voted by everyone (Neil used to do this once in a while). Anyone interested in participating just has to send a link to a paper, published last month and related to bioinformatics, with a short paragraph explaining what is nice about the paper. Mike over at Bioinformatics Zen is asking how to continue the Tips and Tricks section of Bio::Blogs. He has put up a wiki page on open science in Nodalpoint to collect information fo... Public Rambling blogs http://www.medworm.com/rss/comments.php?id=700653 Wed, 27 Jun 2007 21:23:00 +0100 700653 http://www.medworm.com/index.php?rid=841730&cid=t_104228_132_f&fid=35004&url=http%3A%2F%2Fwww.bioinformaticszen.com%2F2007%2F06%2Ftips-and-tricks-where-next%2F The recent release of the bio::blogs “tips & tricks” special has proved popular and comments from three readers suggested continuing it further. But I’d like to know what kind of interest there would be in this. And how to carry it out. One possibility is to aim for regular release cycles, for example every 4/6 months. Each issue would be on a specific topic, such as sequence analysis, network analysis, etc. This could be co-ordinated and set up on a wiki site. Another idea I had is to set up a semantic wiki, the aim to create both a human and machine readable resource. This would be particularly useful for categorising the tools and databases available in bioinformatics. These are just two examples, but I be really interested to hear your suggestions. Posting a... Bioinformatics Zen blogs http://www.medworm.com/rss/comments.php?id=841730 Wed, 13 Jun 2007 17:05:35 +0100 841730 http://www.medworm.com/index.php?rid=650591&cid=t_104228_132_f&fid=35013&url=http%3A%2F%2Fpbeltrao.blogspot.com%2F2007%2F06%2Fbioblogs-11-11th-edition-of-bioblogs-is.html Bio::Blogs# 11The 11th edition of Bio::Blogs, is online at Nodalpoint. We tried to do something different this time. Michael Barton volunteered to host a special section dedicated to tips and tricks for bioinformatics that is hosted separately in Bioinformatics Zen. Because there were so many posts this month about personalized medicine there is also a special section on that.There are three separate PDFs for this edition: 1) the main PDF can be found here; 2) The one on personalized medicine can be downloaded here; the one for tips and tricks available from Bioinformatics Zen. Michael did a great job with this special section, with a very cool design. (Source: Public Rambling) Public Rambling blogs http://www.medworm.com/rss/comments.php?id=650591 Fri, 01 Jun 2007 21:08:00 +0100 650591 http://www.medworm.com/index.php?rid=651089&cid=t_104228_132_f&fid=35001&url=http%3A%2F%2Fwww.nodalpoint.org%2F2007%2F06%2F01%2Fbio_blogs_11 Welcome to the 11th edition of Bio::Blogs, a monthly round-up of bioinformatics related blog posts (with some additional -omics and open science flavors). The PDF version for this month can be found here for offline reading. For the curious, the previous PDFs for Bio::Blogs #8,#9 and #10 have been downloaded 50, 83 and 100 times respectively. This edition has two special sections. The first one is dedicated to tips and tricks for bioinformatics and it is hosted separately in Bioinformatics Zen. Thanks to Michael Barton for having the idea and for organizing it. The second section is dedicated to personalized medicine, mostly because there were many posts about it during this last month. Both of these have separate PDF versions. The one on personalized medicine can be downloaded here. The P... nodalpoint.org - A bioinformatics weblog blogs http://www.medworm.com/rss/comments.php?id=651089 Fri, 01 Jun 2007 20:05:08 +0100 651089 http://www.medworm.com/index.php?rid=841731&cid=t_104228_132_f&fid=35004&url=http%3A%2F%2Fwww.bioinformaticszen.com%2F2007%2F06%2Fbioblogs-11-special-edition%2F Short and to the point - the tips & tricks supplement to this month’s bio::blogs edition has been compiled. The link to the pdf is at the end of this post. But first I want to thank those who contributed. Thanks to Dan Swan, Pierre Lindenbaum and Konrad Forstner, who contributed particularly large articles covering every aspect of being a bioinformatian. Euan Adie (Stew) wrote about revision control, creating applications and blogging. Bertalan Meskó sent in a list of genetic disorder databases. Roland Krause offers tips on managing and searching data sets. Ryan Castillo wrote about his experiences in bioinformatics. Paras Chopra offers advice for undergraduates on how to use their summers. Pedro Beltrao, editor of bio::blogs, discusses the importance of keeping up to date on t... Bioinformatics Zen blogs http://www.medworm.com/rss/comments.php?id=841731 Fri, 01 Jun 2007 18:29:39 +0100 841731 http://www.medworm.com/index.php?rid=629235&cid=t_104228_132_f&fid=35001&url=http%3A%2F%2Fwww.nodalpoint.org%2F2007%2F05%2F21%2Fbio_blogs_11_tips_for_computational_biologists As we near the end of the month I will be collecting posts for Bio::Blogs #11. I am posting this reminder a little sooner than usual because this month Michael Barton from Bioinformatics Zen volunteered to edit and host a separate special section dedicated to tips for computational biologists. Anyone can participate in this section as well by sending some sentences with your own tips to him by email (mail at bioinformaticszen.com). This section will be posted on his blog and the main Bio::Blogs issue will be posted here in Nodalpoint, both on the 1st of June. Submissions for Bio::Blogs#11 can be sent to bioblogs at gmail. read more (Source: nodalpoint.org - A bioinformatics weblog) nodalpoint.org - A bioinformatics weblog blogs http://www.medworm.com/rss/comments.php?id=629235 Mon, 21 May 2007 08:17:52 +0100 629235 http://www.medworm.com/index.php?rid=586615&cid=t_104228_132_f&fid=35013&url=http%3A%2F%2Fpbeltrao.blogspot.com%2F2007%2F05%2Fbioblogs-10-10th-edition-of-bioblogs.html Bio::Blogs #10The 10th edition of Bio::Blogs, the bioinformatics blog journal has been posted at Nodalpoint. The PDF can be downloaded from Box.net. (Source: Public Rambling) Public Rambling blogs http://www.medworm.com/rss/comments.php?id=586615 Wed, 02 May 2007 09:44:00 +0100 586615 http://www.medworm.com/index.php?rid=576381&cid=t_104228_132_f&fid=35013&url=http%3A%2F%2Fpbeltrao.blogspot.com%2F2007%2F04%2Fbioblogs-10-reminder-may-1st-edition-of.html Bio::Blogs #10 - reminderThe May 1st edition of Bio::Blogs will be hosted at Nodalpoint. Anyone can participate by sending in links for interesting blog posts from April (to bioblogs at gmail). If you send in links to your own blog posts please also say if you agree or not to have the post copied to the PDF version for offline reading. (Source: Public Rambling) Public Rambling blogs http://www.medworm.com/rss/comments.php?id=576381 Sun, 29 Apr 2007 09:43:00 +0100 576381 http://www.medworm.com/index.php?rid=577164&cid=t_104228_132_f&fid=35001&url=http%3A%2F%2Fwww.nodalpoint.org%2F2007%2F04%2F28%2Fbio_blogs_10_call_for_submissions In two days I will try to put together the monthly round-up of bioinformatic related blog posts here at Nodalpoint. Anybody can help by submitting links to blog posts they found interesting during the last month to bioblogs at gmail. As in the previous months I will make a an offline PDF version if the authors give permission to re-use the blog post, so please say so on the email if it is your own content. Previous editions of Bio::Blogs can be found in here. (Source: nodalpoint.org - A bioinformatics weblog) nodalpoint.org - A bioinformatics weblog blogs http://www.medworm.com/rss/comments.php?id=577164 Sat, 28 Apr 2007 18:45:24 +0100 577164 http://www.medworm.com/index.php?rid=519230&cid=t_104228_132_f&fid=35001&url=http%3A%2F%2Fwww.nodalpoint.org%2F2007%2F04%2F03%2Fninth_edition_of_bio_blogs Bio::BlogsJust in case you have been busy like me or maybe just new to Bio::Blogs, Pedro has once again done some sterling editorial work and posted the Ninth Edition of Bio::Blogs. Apart from this months edition, the are a few good comments on the last edition regarding relevance of blogs and blog carnivals to bioinformatics. I don't want to see Bio::Blogs (and all Pedro's hard work) vanish into the aether, so I'm happy to see nodalpoint become a semi-permanent host of a monthly blog round up under the Bio::Blogs banner. Any further thoughts on the future Bio::Blogs ? read more (Source: nodalpoint.org - A bioinformatics weblog) nodalpoint.org - A bioinformatics weblog blogs http://www.medworm.com/rss/comments.php?id=519230 Tue, 03 Apr 2007 17:59:01 +0100 519230 http://www.medworm.com/index.php?rid=515401&cid=t_104228_132_f&fid=35013&url=http%3A%2F%2Fpbeltrao.blogspot.com%2F2007%2F04%2Fbioblogs-9-welcome-to-ninth-edition-of.html Bio::Blogs #9Welcome to the ninth edition of the bioinformatics blog journal Bio::Blogs posted online on the 1st of April of 2007. The archive from previous months can be found at bioblogs.wordpress.com.Today is an exciting day for bioinformatics and open science in general. I am happy to report on an ongoing project in Nature that has been under wraps for quite a long time. It is called Nature Sherlock and it promises to turn the dream of rich semantic web for scientist a reality. This service is still in closed beta but you can have a look at (http://sherlock.nature.com/) to see that the service does exist and you might from the name get a sense for what it might do. I have been allowed to use Sherlock for some time and according to the FAQ of the main website it has been co-developed by... Public Rambling blogs http://www.medworm.com/rss/comments.php?id=515401 Sun, 01 Apr 2007 23:08:00 +0100 515401 http://www.medworm.com/index.php?rid=514269&cid=t_104228_132_f&fid=35013&url=http%3A%2F%2Fpbeltrao.blogspot.com%2F2007%2F03%2Fbioblogs-9-call-for-submission-9th.html Bio::Blogs #9 call for submission The 9th edition of Bio::Blogs will be posted here tomorrow. I will go around the usual blogs and look for interesting blog posts to make a round-up of what happened during the month. I will try to make again an offline version including the blog posts authorized by the authors. Fell free to submit links to bioinformatic related blog posts you find interesting from your blog and any other blogs during today and tomorrow. Submissions can be sent by email to bioblogs at gmail or in a comment to this post. (Source: Public Rambling) Public Rambling blogs http://www.medworm.com/rss/comments.php?id=514269 Sat, 31 Mar 2007 15:44:00 +0100 514269 http://www.medworm.com/index.php?rid=486216&cid=t_104228_132_f&fid=35001&url=http%3A%2F%2Fwww.nodalpoint.org%2F2007%2F03%2F01%2Freminder_bio_blogs_8th_edition Update: The 8th edition has now been posted, enjoy ! Pedro has announced the final call for submission for the 8th edition of Bio::Blogs. Send links to your favorite bioinformatics blog posts to bioblogs[at]gmail[dot]com. For this edition Pedro will be compiling a PDF copy of the submissions for offline reading. (Source: nodalpoint.org - A bioinformatics weblog) nodalpoint.org - A bioinformatics weblog blogs http://www.medworm.com/rss/comments.php?id=486216 Thu, 01 Mar 2007 10:09:49 +0100 486216 http://www.medworm.com/index.php?rid=485252&cid=t_104228_132_f&fid=35013&url=http%3A%2F%2Fpbeltrao.blogspot.com%2F2007%2F02%2Fbioblogs-8-eighth-edition-of-bioblogs.html Bio::Blogs #8 The eighth edition of Bio::Blogs is coming up soon. It is going to be published here on Public Rambling tomorrow night. I almost forgot that this month is shorter than usual :). There are currently 3 submissions sent in. Pick something from your blogs that is bioinformatic related and sent it in (bioblogs at gmail) or leave the link in the comments. Please also let me know if you mind that I create a PDF file including your submission for offline reading. If you don;t have a blog start one and let me know or just send in a link to something that you particularly liked. (Source: Public Rambling) Public Rambling blogs http://www.medworm.com/rss/comments.php?id=485252 Wed, 28 Feb 2007 14:02:00 +0100 485252