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 'computational biology'. Sat, 03 Sep 2011 02:48:42 +0100 http://www.medworm.com/index.php?rid=2912485&cid=t_104657_136_f&fid=36070&url=http%3A%2F%2Fnetwork.nature.com%2Fpeople%2Fbasanta%2Fblog%2F2009%2F10%2F21%2Fsystems-biology-graphical-notation I haven’t updated this blog for a while, the reason being the usual for many researchers working in the US: grant writing. Part of this grant writing involved producing diagrams to illustrate various processes occurring at different scales in prostate tissue. These diagrams describe rather sophisticated intra and extra cellular interactions in the simplest possible manner. Yet these diagrams can be complicated and selecting the right symbols and colours to describe these interactions in a visually appealing but consistent manner can be far from trivial. As someone with a background in computer science I appreciate the advantage of having a standard notation to describe processes. Software engineers use tools such as UML to describe software modules and how they interact to form comp... Cancerevo: Evolution and cancer blogs http://www.medworm.com/rss/comments.php?id=2912485 Wed, 21 Oct 2009 03:40:04 +0100 2912485 http://www.medworm.com/index.php?rid=1596354&cid=t_104657_132_f&fid=35024&url=http%3A%2F%2Ffeeds.feedburner.com%2F%7Er%2FBlindscientist%2F%7E3%2F330167276%2F Image by Aaronyx via FlickrI was at gym, proudly wearing my PLoS Computational Biology t-shirt when a person tripped in one of the corrifors me and started shouting that I was “supporting a failed model of scientific publication” and that I should start “supporting the Nature Publishing Group model of publication”. I didn’t know what to say. I just know that it was the last time I wore this t-shirt in public. Related articles by Zemanta Bulk Publishing Keeps PLoS Afloat (Source: Blind.Scientist) Blind.Scientist blogs http://www.medworm.com/rss/comments.php?id=1596354 Tue, 08 Jul 2008 21:19:45 +0100 1596354 http://www.medworm.com/index.php?rid=765052&cid=t_104657_131_f&fid=35743&url=http%3A%2F%2Fthegenesherpa.blogspot.com%2F2007%2F07%2Fwhat-good-is-map.html Imagine being stranded on a raft......An object is floating in the water. You paddle hard to get it. Once you do, you realize its a map. Hooray, you can finally find some land. Or can you? There are some significant questions to ask yourself prior to having any utility gained from that map.Can you read the map? I used to be in the Navy. We learned how to read nautical maps. But my father, a retired colonel in the Army, would have no clue where to begin. Imagine someone who had no training......Where are you on that map? If you have no orientation, how could you hope to navigate. Where does the sun rise? Simple question. However, when asked almost 15% of Americans do not know the answer. What is on the land you will be paddling to? If you paddle hard to get there only to find out that there... Gene Sherpas: Personalized Medicine and You blogs http://www.medworm.com/rss/comments.php?id=765052 Sun, 29 Jul 2007 15:59:00 +0100 765052 http://www.medworm.com/index.php?rid=486211&cid=t_104657_132_f&fid=35001&url=http%3A%2F%2Fwww.nodalpoint.org%2F2007%2F03%2F16%2Fadvice_to_a_young_computational_biologist Just when I though Bosco was posting too much poetry, he comes out with this truly excellent post on advice for young computational biologists. Bosco has managed to distill his 10 years of experience into eleven succinct points that are relevant to not only those just starting out in computational biology, but experienced hackers as well. This post is a must read, I highly recommend his advice in point four on using configuration files. It is a simple way of adding value to scripts, by extracting out the parameters into a config file and then writing another script to iterate over different values. Python has a default module for this, with many other third party options. And of course point eight, using command line plotting software, my current favorite is Ploticus. read more (Source: no... nodalpoint.org - A bioinformatics weblog blogs http://www.medworm.com/rss/comments.php?id=486211 Fri, 16 Mar 2007 05:45:16 +0100 486211