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	<title>Curious Cat Science and Engineering Blog &#187; Research</title>
	<atom:link href="http://engineering.curiouscatblog.net/category/research/feed/" rel="self" type="application/rss+xml" />
	<link>http://engineering.curiouscatblog.net</link>
	<description>Science and Engineering: Innovation, Research, Education and Economics</description>
	<pubDate>Sun, 20 Jul 2008 23:05:05 +0000</pubDate>
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		<title>DNA Passed to Descendants Changed by Your Life</title>
		<link>http://engineering.curiouscatblog.net/2008/07/20/dna-passed-to-descendants-changed-by-your-life/</link>
		<comments>http://engineering.curiouscatblog.net/2008/07/20/dna-passed-to-descendants-changed-by-your-life/#comments</comments>
		<pubDate>Sun, 20 Jul 2008 13:19:14 +0000</pubDate>
		<dc:creator>curiouscat</dc:creator>
		
		<category><![CDATA[Life Science]]></category>

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		<category><![CDATA[dna]]></category>

		<category><![CDATA[genes]]></category>

		<category><![CDATA[genetics]]></category>

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		<guid isPermaLink="false">http://engineering.curiouscatblog.net/?p=1809</guid>
		<description><![CDATA[How your behaviour can change your children&#8217;s DNA
Until recently that would also have been the opinion of most scientists. Genes, it was thought, were highly resilient. Even if people did wreck their own DNA through bad diet, smoking and getting fat, that damage was unlikely to be passed to future generations.
Now, however, those assumptions are [...]]]></description>
			<content:encoded><![CDATA[<p><a href="http://www.timesonline.co.uk/tol/life_and_style/health/article4364054.ece">How your behaviour can change your children&#8217;s DNA</a></p>
<div class="cite">Until recently that would also have been the opinion of most scientists. Genes, it was thought, were highly resilient. Even if people did wreck their own DNA through bad diet, smoking and getting fat, that damage was unlikely to be passed to future generations.</p>
<p>Now, however, those assumptions are being re-examined. At the heart of this revolution is a simple but controversial idea: that DNA can be modified or imprinted with the experiences of your parents and grandparents.</p>
<p>According to this new science, known as epigenetics, your ancestors’ diet, smoking habits, exposure to pollutants and levels of obesity could be affecting you today. In turn, your lifestyle could affect your children and grandchildren.<br />
&#8230;<br />
If we drink heavily, take drugs, get fat or wait too long to reproduce, then epigenetics might start tying up some of the wrong genes and loosening the bonds on others. Sometimes those changes will affect sperm and egg cells.</p></div>
<p>It seems to me this area is still far from having conclusive proof.  But it is another great example of <a href="http://engineering.curiouscatblog.net/tag/scientific-inquiry/">scientists seeking to improve our knowledge</a> of how things work.</p>
<p>Related: <a href="http://www.pbs.org/wgbh/nova/sciencenow/3411/02.html">Nova on Epigenetics</a> - <a href="http://www.nature.com/ejhg/journal/v14/n2/full/5201567a.html">Epigenetics: Sins of the fathers, and their fathers</a> - <a href="http://www.plosgenetics.org/article/info:doi%2F10.1371%2Fjournal.pgen.0030151">Evidence for Transgenerational Transmission of Epigenetic Tumor Susceptibility in Drosophila</a> - <a href="http://engineering.curiouscatblog.net/tag/dna/">posts on DNA</a></p>

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		<title>Finding the Host Genes Viruses Require</title>
		<link>http://engineering.curiouscatblog.net/2008/07/17/finding-the-host-genes-viruses-require/</link>
		<comments>http://engineering.curiouscatblog.net/2008/07/17/finding-the-host-genes-viruses-require/#comments</comments>
		<pubDate>Thu, 17 Jul 2008 12:15:25 +0000</pubDate>
		<dc:creator>curiouscat</dc:creator>
		
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		<guid isPermaLink="false">http://engineering.curiouscatblog.net/?p=1805</guid>
		<description><![CDATA[Flu-infected fly cells reveal dependencies of the virus
The new study is important because it demonstrates a rapid-fire technique for identifying host factors such as proteins and carbohydrates that a virus commandeers to successfully infect a cell. By exposing the virus&#8217;s dependencies, the Wisconsin team has uncovered a target-rich environment for influenza drug developers.
&#8230;
By working in [...]]]></description>
			<content:encoded><![CDATA[<p><a href="http://www.news.wisc.edu/15381">Flu-infected fly cells reveal dependencies of the virus</a></p>
<div class="cite">The new study is important because it demonstrates a rapid-fire technique for identifying host factors such as proteins and carbohydrates that a virus commandeers to successfully infect a cell. By exposing the virus&#8217;s dependencies, the Wisconsin team has uncovered a target-rich environment for influenza drug developers.<br />
&#8230;<br />
By working in fly cells, the Wisconsin team was able to deploy a technique to rapidly and selectively silence thousands of genes to see which were used by the flu virus. Screening a library of some 13,000 genes, the group identified more than 100 whose suppression in fly cells hindered the virus&#8217;s ability to successfully take over the cell and make new viruses.</div>

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		<title>A Whale of a Turbine</title>
		<link>http://engineering.curiouscatblog.net/2008/07/15/a-whale-of-a-turbine/</link>
		<comments>http://engineering.curiouscatblog.net/2008/07/15/a-whale-of-a-turbine/#comments</comments>
		<pubDate>Tue, 15 Jul 2008 11:01:15 +0000</pubDate>
		<dc:creator>curiouscat</dc:creator>
		
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		<guid isPermaLink="false">http://engineering.curiouscatblog.net/?p=1800</guid>
		<description><![CDATA[A whale of a turbine
a flipperlike prototype is generating energy on Canada&#8217;s Prince Edward Island, with twin, bumpy-edged blades knifing through the air. And this summer, an industrial fan company plans to roll out its own whale-inspired model - moving the same amount of air with half the usual number of blades and thus a [...]]]></description>
			<content:encoded><![CDATA[<p><a href="http://www.guardian.co.uk/science/2008/jun/24/animalbehaviour.usa">A whale of a turbine</a></p>
<div class="cite">a flipperlike prototype is generating energy on Canada&#8217;s Prince Edward Island, with twin, bumpy-edged blades knifing through the air. And this summer, an industrial fan company plans to roll out its own whale-inspired model - moving the same amount of air with half the usual number of blades and thus a smaller, energy-saving motor.</p>
<p>Some scientists were sceptical at first, but the concept now has gotten support from independent researchers, most recently some Harvard engineers who <a href="http://scitation.aip.org/getabs/servlet/GetabsServlet?prog=normal&#038;id=PRLTAO000100000005054502000001&#038;idtype=cvips&#038;gifs=yes">wrote up their findings</a> in the respected journal Physical Review Letters.<br />
&#8230;<br />
when models of the bumpy flippers were tested in a wind tunnel, Fish and his colleagues found something interesting. The flippers could be tilted at a higher angle before stall occurred.</p>
<p>The scientific literature had scant reference to the flipper bumps, called tubercles. Fish reasoned that because the whale&#8217;s flippers remained effective at a high angle, the mammal was therefore able to manoeuvre in tight circles.  In fact, this is how it traps its prey, surrounding smaller fish in a &#8220;net&#8221; of bubbles that they are unwilling to cross.  </p>
<p>In 2004, along with engineers from the US Naval Academy and Duke University, Fish published hard data: Whereas a smooth-edged flipper stalled at less than 12 degrees, the bumpy, &#8220;scalloped&#8221; version did not stall until it was tilted more than 16 degrees - an increase of nearly 40 percent.</p>
<p>Fish then partnered with Canadian entrepreneur Stephen Dewar to start WhalePower, a Toronto-based company that licenses the technology to manufacturers.<br />
&#8230;<br />
It has all been a bit of a culture shock for Fish, who is more at home in the open world of academia than the more secretive realm of inventions and patents. Two decades ago, his only motivation was to figure out what the bumps were for.</p>
<p>&#8220;I sort of found something that&#8217;s in plain sight,&#8221; he says. &#8220;You can look at something again and again, and then you&#8217;re seeing it differently.&#8221;</p></div>
<p>Related: <a href="http://www.technologyreview.com/Energy/20379/">Finspiration, Whale-Inspired Wind Turbines</a> - <a href="http://engineering.curiouscatblog.net/2008/03/10/deep-sea-denizen-inspires-new-polymers/">Deep-Sea Denizen Inspires New Polymers</a> - <a href="http://engineering.curiouscatblog.net/2006/07/05/wind-power-technology-breakthrough/">Wind Power Technology Breakthrough</a> - <a href="http://engineering.curiouscatblog.net/2006/03/13/engineer-revolutionizing-icemakers/">Engineer Revolutionizing Icemakers</a></p>

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		<title>The Brain Hides Information From Us To Prevent Mistakes</title>
		<link>http://engineering.curiouscatblog.net/2008/07/12/the-brain-hides-information-from-us-to-prevent-mistakes/</link>
		<comments>http://engineering.curiouscatblog.net/2008/07/12/the-brain-hides-information-from-us-to-prevent-mistakes/#comments</comments>
		<pubDate>Sat, 12 Jul 2008 15:48:37 +0000</pubDate>
		<dc:creator>curiouscat</dc:creator>
		
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		<description><![CDATA[The Brain Hides Information From Us To Prevent Mistakes
“The main finding of the study is that it has enabled us to confirm that tactile sensations are initially located unconsciously in anatomical coordinates, but they reach our awareness only when the brain has formed an image of their origin in the spatial coordinates, external to the [...]]]></description>
			<content:encoded><![CDATA[<p><a href="http://www.sciencedaily.com/releases/2008/07/080711135447.htm">The Brain Hides Information From Us To Prevent Mistakes</a></p>
<div class="cite">“The main finding of the study is that it has enabled us to confirm that tactile sensations are initially located unconsciously in anatomical coordinates, but they reach our awareness only when the brain has formed an image of their origin in the spatial coordinates, external to the body,” explained Salvador Soto-Faraco. The coexistence of different spatial reference frames in the brain has been known for some time. So has the fact that confusions between them may result in some cases, such as when we invert the usual anatomical position of some body parts (e.g. when crossing our arms over the body midline). “The brain sorts out problems of this kind rapidly, in a matter of tenths of a second. To do so, however, it has to integrate information arriving in formats that are quite disparate”, Sotoa-Faraco added. “Our research has helped us understand how this process works and how the brain manages spatial realignment when faced with conflict”, he concluded.</div>
<p>Interesting.  I think my brain might be hiding more from me lately (like right now where the key to my shed is) <img src='http://engineering.curiouscatblog.net/wp-includes/images/smilies/icon_smile.gif' alt=':-)' class='wp-smiley' /> </p>
<p>Related: <a href="http://engineering.curiouscatblog.net/2006/11/09/how-brain-resolves-sight/">How Brain Resolves Sight</a> - <a href="http://engineering.curiouscatblog.net/2008/01/06/mapping-where-brains-store-similar-information/">Mapping Where Brains Store Similar Information</a> - <a href="http://engineering.curiouscatblog.net/2007/01/24/how-the-brain-rewires-itself/">How The Brain Rewires Itself</a> - <a href="http://engineering.curiouscatblog.net/tag/brain/">posts on science and brains</a></p>

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		<title>Magnetic Movie</title>
		<link>http://engineering.curiouscatblog.net/2008/07/10/magnetic-movie/</link>
		<comments>http://engineering.curiouscatblog.net/2008/07/10/magnetic-movie/#comments</comments>
		<pubDate>Thu, 10 Jul 2008 22:42:13 +0000</pubDate>
		<dc:creator>curiouscat</dc:creator>
		
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		<description><![CDATA[Magnetic Movie from Semiconductor on Vimeo
Magnetic Movie was shot in NASA&#8217;s Space Sciences Laboratories at UC Berkeley for Chanel 4 in association with the Arts Council of England.
In Magnetic Movie, Semiconductor have taken the magnificent scientific visualisations of the sun and solar winds conducted at the Space Sciences Laboratory and Semiconducted them. Ruth Jarman and [...]]]></description>
			<content:encoded><![CDATA[<p><object width="400" height="225"><param name="allowfullscreen" value="true" /><param name="allowscriptaccess" value="always" /><param name="movie" value="http://www.vimeo.com/moogaloop.swf?clip_id=1166968&amp;server=www.vimeo.com&amp;show_title=1&amp;show_byline=1&amp;show_portrait=0&amp;color=&amp;fullscreen=1" /><embed src="http://www.vimeo.com/moogaloop.swf?clip_id=1166968&amp;server=www.vimeo.com&amp;show_title=1&amp;show_byline=1&amp;show_portrait=0&amp;color=&amp;fullscreen=1" type="application/x-shockwave-flash" allowfullscreen="true" allowscriptaccess="always" width="400" height="225"></embed></object><br /><a href="http://www.vimeo.com/1166968?pg=embed&#038;sec=1166968">Magnetic Movie</a> from <a href="http://www.vimeo.com/semiconductor?pg=embed&#038;sec=1166968">Semiconductor</a> on <a href="http://vimeo.com?pg=embed&#038;sec=1166968">Vimeo</a></p>
<p><a href="http://www.semiconductorfilms.com/root/Magnetic_Movie/Magnetic.htm">Magnetic Movie</a> was shot in NASA&#8217;s Space Sciences Laboratories at UC Berkeley for Chanel 4 in association with the Arts Council of England.</p>
<div class="cite">In Magnetic Movie, Semiconductor have taken the magnificent scientific visualisations of the sun and solar winds conducted at the Space Sciences Laboratory and Semiconducted them. Ruth Jarman and Joe Gerhardt of Semiconductor were artists-in-residence at SSL. Combining their in-house lab culture experience with formidable artistic instincts in sound, animation and programming, they have created a magnetic magnum opus in nuce, a tour de force of a massive invisible force brought down to human scale, and a &#8220;very most beautiful thing.&#8221;</p>
<p>Magnetic Movie is the aquavit, something not precisely scientific but grants us an uncanny experience of geophysical and cosmological forces.</p></div>
<p>Cool video: I must admit I am confused at how extensive the artistic license taken with the animation is.</p>
<p>Related: <a href="http://engineering.curiouscatblog.net/2008/01/13/science-webcasts/">SciVee Science Webcasts</a> - <a href="http://engineering.curiouscatblog.net/2006/06/21/the-art-and-science-of-imaging/">The Art and Science of Imaging</a> - <a href="http://engineering.curiouscatblog.net/2006/06/09/art-of-science-2006/">Art of Science 2006</a> - <a href="http://engineering.curiouscatblog.net/2006/10/02/2006-nikon-small-world-photos/">Nikon Small World Photos</a></p>

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		<title>How Prozac Sent Science Inquiry Off Track</title>
		<link>http://engineering.curiouscatblog.net/2008/07/07/how-prozac-sent-science-inquiry-off-track/</link>
		<comments>http://engineering.curiouscatblog.net/2008/07/07/how-prozac-sent-science-inquiry-off-track/#comments</comments>
		<pubDate>Mon, 07 Jul 2008 18:04:55 +0000</pubDate>
		<dc:creator>curiouscat</dc:creator>
		
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		<guid isPermaLink="false">http://engineering.curiouscatblog.net/?p=1789</guid>
		<description><![CDATA[I post often on examples of scientific inquiry in action.  I think it is an important way to see how science works while searching for answers.  The process is not a simple one, but after a solution is found it can often be presented as obvious.  But while trying to find answers [...]]]></description>
			<content:encoded><![CDATA[<p>I post often on examples of <a href="http://engineering.curiouscatblog.net/tag/scientific-inquiry/">scientific inquiry in action</a>.  I think it is an important way to see how science works while searching for answers.  The process is not a simple one, but after a solution is found it can often be presented as obvious.  But while trying to find answers it is quite difficult.</p>
<p><a href="http://www.boston.com/bostonglobe/ideas/articles/2008/07/06/head_fake/">How Prozac sent the science of depression in the wrong direction</a></p>
<div class="cite">But the success of Prozac hasn&#8217;t simply transformed the treatment of depression: it has also transformed the science of depression. For decades, researchers struggled to identify the underlying cause of depression, and patients were forced to endure a series of ineffective treatments. But then came Prozac. Like many other antidepressants, Prozac increases the brain&#8217;s supply of serotonin, a neurotransmitter. The drug&#8217;s effectiveness inspired an elegant theory, known as the chemical hypothesis: Sadness is simply a lack of chemical happiness. The little blue pills cheer us up because they give the brain what it has been missing.</p>
<p>There&#8217;s only one problem with this theory of depression: it&#8217;s almost certainly wrong, or at the very least woefully incomplete. Experiments have since shown that lowering people&#8217;s serotonin levels does not make them depressed, nor does it does not make them depressed, nor does it worsen their symptoms if they are already depressed.<br />
&#8230;<br />
In this sense, Prozac is simply a bottled version of other activities that have a similar effect, such as physical exercise.<br />
&#8230;<br />
It is jarring to think of depression in terms of atrophied brain cells, rather than an altered emotional state. It is called &#8220;depression,&#8221; after all. Yet these scientists argue that the name conceals the fundamental nature of the illness, in which the building blocks of the brain - neurons - start to crumble. This leads, over time, to the shrinking of certain brain structures, like the hippocampus, which the brain needs to function normally.</p></div>
<p>Related: <a href="http://engineering.curiouscatblog.net/2007/07/15/lifestyle-drugs-and-risk/">Lifestyle Drugs and Risk</a> - <a href="http://engineering.curiouscatblog.net/2007/08/10/overrelience-on-perscription-drugs-to-aid-childrens-sleep/">Overrelience on Prescription Drugs to Aid Children’s Sleep?</a></p>

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		<title>Our Genome Changes as We Age</title>
		<link>http://engineering.curiouscatblog.net/2008/06/26/our-genome-changes-as-we-age/</link>
		<comments>http://engineering.curiouscatblog.net/2008/06/26/our-genome-changes-as-we-age/#comments</comments>
		<pubDate>Thu, 26 Jun 2008 17:31:35 +0000</pubDate>
		<dc:creator>curiouscat</dc:creator>
		
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		<description><![CDATA[Our Genome Changes Over Our Lifetime
For the new study, researchers first collected DNA samples collected in 1991 and again between 2002 and 2006 from 600 participants already enrolled in the AGES Reykjavik Study. The AGES study is renowned for its value to genetics research because of the historic isolation and reduced number of genetic “variables” [...]]]></description>
			<content:encoded><![CDATA[<p><a href="http://www.hopkinsmedicine.org/Press_releases/2008/06_24_08.html">Our Genome Changes Over Our Lifetime</a></p>
<div class="cite">For the new study, researchers first collected DNA samples collected in 1991 and again between 2002 and 2006 from 600 participants already enrolled in the AGES Reykjavik Study. The AGES study is renowned for its value to genetics research because of the historic isolation and reduced number of genetic “variables” among Iceland’s population, making certain patterns of genetic information easier to identify.   </p>
<p>Among the 600, the research team measured the total amount of DNA methylation in each of 111 samples and compared total methylation from DNA collected in 2002 to 2005 to that person’s DNA collected in 1991.</p>
<p>They discovered that in almost one-third of the subjects, methylation changed over that 11-year span, with some gaining DNA methylation and others losing it.</p>
<p>&#8220;The key thing this part of the study told us is that levels changed over time, proof of principle that an individual’s epigenetic profile does change with age,&#8221; said M. Daniele Fallin, Ph.D., an associate professor of epidemiology at the Johns Hopkins Bloomberg School of Public Health.</p>
<p>Still a puzzle, though, was why or how, Fallin said, “so we wondered whether the tendency to those changes was also inherited, right along with our DNA sequences. That would explain why certain families are more susceptible to certain diseases.&#8221;</p></div>
<p>Related: <a href="http://engineering.curiouscatblog.net/2007/05/06/genetic-information-nondiscrimination-act/">Genetic Information Nondiscrimination Act</a> - <a href="http://engineering.curiouscatblog.net/2007/03/19/learning-about-the-human-genome/">Learning About the Human Genome</a> - <a href="http://engineering.curiouscatblog.net/2007/12/13/genomics-course-for-college-freshman-supported-by-hhmi-at-12-universities/">Genomics Course For College Freshman Supported by HHMI at 12 Universities</a></p>

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		<title>Refrigeration Without Electricity</title>
		<link>http://engineering.curiouscatblog.net/2008/06/24/refrigeration-without-electricity/</link>
		<comments>http://engineering.curiouscatblog.net/2008/06/24/refrigeration-without-electricity/#comments</comments>
		<pubDate>Tue, 24 Jun 2008 21:22:17 +0000</pubDate>
		<dc:creator>curiouscat</dc:creator>
		
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		<guid isPermaLink="false">http://engineering.curiouscatblog.net/?p=1771</guid>
		<description><![CDATA[
Lack of electricity is a serious problem for vaccines and medicines that need to be cooled.  It is hard to imagine that this is a problem, living in the USA, but this is still a problem today.  As readers of this blog notice I really like appropriate technology solutions that provide real quality [...]]]></description>
			<content:encoded><![CDATA[<p><!--cut and paste--><object classid="clsid:d27cdb6e-ae6d-11cf-96b8-444553540000" codebase="http://download.macromedia.com/pub/shockwave/cabs/flash/swflash.cab#version=8,0,0,0" width="432" height="285" id="VE_Player" align="middle"><param name="movie" value="http://static.videoegg.com/ted2/flash/loader.swf"><PARAM NAME="FlashVars" VALUE="bgColor=FFFFFF&#038;file=http://static.videoegg.com/ted/movies/AdamGrosser_2007_high.flv&#038;autoPlay=false&#038;fullscreenURL=http://static.videoegg.com/ted/flash/fullscreen.html&#038;forcePlay=false&#038;logo=&#038;allowFullscreen=true"><param name="quality" value="high"><param name="allowScriptAccess" value="always"><param name="bgcolor" value="#FFFFFF"><param name="scale" value="noscale"><param name="wmode" value="window"><embed src="http://static.videoegg.com/ted2/flash/loader.swf" FlashVars="bgColor=FFFFFF&#038;file=http://static.videoegg.com/ted/movies/AdamGrosser_2007_high.flv&#038;autoPlay=false&#038;fullscreenURL=http://static.videoegg.com/ted/flash/fullscreen.html&#038;forcePlay=false&#038;logo=&#038;allowFullscreen=true" quality="high" allowScriptAccess="always" bgcolor="#FFFFFF" scale="noscale" wmode="window" width="432" height="285" name="VE_Player" align="middle" type="application/x-shockwave-flash" pluginspage="http://www.macromedia.com/go/getflashplayer"></object></p>
<p>Lack of electricity is a serious problem for vaccines and medicines that need to be cooled.  It is hard to imagine that this is a problem, living in the USA, but this is still a problem today.  As readers of this blog notice <a href="http://johnhunter.com/">I really like appropriate technology solutions</a> that provide real quality of life enhancements for hundreds of millions of people (which undoubtedly is influence by <a href="http://williamghunter.net/">my father</a>).</p>
<p>Related: <a href="http://engineering.curiouscatblog.net/2008/04/03/refrigerator-without-electricity/">Cooling with Clay Pots, Sand and Water</a> - <a href="http://engineering.curiouscatblog.net/tag/appropriate-technology/">appropriate technology posts</a> - <a href="http://engineering.curiouscatblog.net/2006/02/23/water-and-electricity-for-all/">Water and Electricity for All</a> - <a href="http://engineering.curiouscatblog.net/2008/04/12/inspirational-engineer/">Inspirational Engineer</a> - <a href="http://engineering.curiouscatblog.net/tag/ted/"> Technology, Entertainment, Design (TED) posts (great webcasts)</a></p>

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		<title>Fold.it - the Protein Folding Game</title>
		<link>http://engineering.curiouscatblog.net/2008/06/22/foldit-the-protein-folding-game/</link>
		<comments>http://engineering.curiouscatblog.net/2008/06/22/foldit-the-protein-folding-game/#comments</comments>
		<pubDate>Sun, 22 Jun 2008 12:48:42 +0000</pubDate>
		<dc:creator>curiouscat</dc:creator>
		
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		<description><![CDATA[Foldit is a revolutionary new computer game enabling you to contribute to important scientific research.  This is another awesome combination of technology, distributed problem solving, science education&#8230;

Essentially the game works by allowing the person to make some decisions then the computer runs through some processes to determine the result of those decisions.  It [...]]]></description>
			<content:encoded><![CDATA[<p><a href="http://fold.it/">Foldit</a> is a revolutionary new computer game enabling you to contribute to important scientific research.  This is another <strong>awesome</strong> combination of technology, distributed problem solving, science education&#8230;</p>
<p><object width="425" height="344"><param name="movie" value="http://www.youtube.com/v/lGYJyur4FUA&#038;hl=en"></param><embed src="http://www.youtube.com/v/lGYJyur4FUA&#038;hl=en" type="application/x-shockwave-flash" width="425" height="344"></embed></object></p>
<p>Essentially the game works by allowing the person to make some decisions then the computer runs through some processes to determine the result of those decisions.  It seems the human insight of what might work provides an advantage to computers trying to calculate solutions on their own.  Then the results are compared to the other individuals working on the same protein folding problem and the efforts are ranked.</p>
<p>This level of interaction is very cool.  SETI@home, <a href="http://boinc.bakerlab.org/rosetta/">Rosetta@home</a> and the like are useful tools to tap the computing resources of millions on the internet.  But the use of human expertise really makes fold.it special.  And you can&#8217;t help but learn by playing.  In addition, if you are successful you can gain some scientific credit for your participation in new discoveries.</p>
<p>Related: <a href="http://www.youtube.com/watch?v=va92d9Ei1QM&#038;NR=1">Expert Foldit Protein Folder, JSnyder</a> - <a href="http://www.hhmi.org/news/foldit20080508.html">Researchers Launch Online Protein Folding Game</a> - <a href="http://engineering.curiouscatblog.net/2007/10/17/new-approach-builds-better-proteins-inside-a-computer/">New Approach Builds Better Proteins Inside a Computer</a> - <a href="http://engineering.curiouscatblog.net/2008/03/05/phun-physics/">Phun Physics</a> - <a href="http://engineering.curiouscatblog.net/2006/09/22/protein-knots/">Protein Knots</a></p>
<p>The site includes some <a href="http://fold.it/portal/info/science">excellent educational material on proteins</a> and related material.  <strong>What is a protein</strong>:</p>
<div class="cite">Proteins are the workhorses in every cell of every living thing. Your body is made up of trillions of cells, of all different kinds: muscle cells, brain cells, blood cells, and more. Inside those cells, proteins are allowing your body to do what it does: break down food to power your muscles, send signals through your brain that control the body, and transport nutrients through your blood. Proteins come in thousands of different varieties, but they all have a lot in common. For instance, they&#8217;re made of the same stuff: every protein consists of a long chain of joined-together amino acids.<br />
&#8230;<br />
structure specifies the function of the protein. For example, a protein that breaks down glucose so the cell can use the energy stored in the sugar will have a shape that recognizes the glucose and binds to it (like a lock and key) and chemically reactive amino acids that will react with the glucose and break it down to release the energy.<br />
&#8230;<br />
Proteins are involved in almost all of the processes going on inside your body: they break down food to power your muscles, send signals through your brain that control the body, and transport nutrients through your blood. Many proteins act as enzymes, meaning they catalyze (speed up) chemical reactions that wouldn&#8217;t take place otherwise. But other proteins power muscle contractions, or act as chemical messages inside the body, or hundreds of other things.</div>
<p><span id="more-1765"></span><br />
What are amino acids?</p>
<div class="cite">Amino acids are small molecules made up of atoms of carbon, oxygen, nitrogen, sulfur, and hydrogen. To make a protein, the amino acids are joined in an unbranched chain, like a line of people holding hands. Just as the line of people has their legs and feet &#8220;hanging&#8221; off the chain, each amino acid has a small group of atoms (called a sidechain) sticking off the main chain (backbone) that connects them all together. There are 20 different kinds of amino acids, which differ from one another based on what atoms are in their sidechains. These 20 amino acids fall into different groups based on their chemical properties: acidic or alkaline, hydrophilic (water-loving) or hydrophobic (greasy).</div>
<p><a href="http://seattlepi.nwsource.com/local/367140_foldit16.html">Scientists tap gaming&#8217;s power</a></p>
<div class="cite">&#8220;He&#8217;s actually better at it than I am,&#8221; said Baker, a UW biochemist who is world renowned for his work on protein analysis. Players don&#8217;t have to know anything about biology or science to play it, he noted, but playing the game will actually assist researchers with real problems in the lab.</p>
<p>&#8220;The biochemists are getting beaten to a pulp by the regular players,&#8221; laughed Zoran Popovic, a UW computer scientist who with his graduate students Adrien Treuille and Seth Cooper worked with Baker to help create this interactive game dubbed &#8220;Foldit.&#8221;</p></div>
<p>Fold.it is supported by: Univ. of Washington Animation Research Labs, UW Baker Lab, HHMI, DARPA, Microsoft, and Adobe.  The game is only available for Mac or Windows though so if you use Linux (Ubuntu&#8230;) you are out of luck (for now anyway).</p>

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		<title>Lancelet Genome Provides Answers on Evolution</title>
		<link>http://engineering.curiouscatblog.net/2008/06/18/lancelet-genome-provides-answers-on-evolution/</link>
		<comments>http://engineering.curiouscatblog.net/2008/06/18/lancelet-genome-provides-answers-on-evolution/#comments</comments>
		<pubDate>Wed, 18 Jun 2008 22:32:41 +0000</pubDate>
		<dc:creator>curiouscat</dc:creator>
		
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		<description><![CDATA[Lancelet genome shows how genes quadrupled during vertebrate evolution by Robert Sanders
&#8220;If you compare the 23 chromosomes of humans with the 19 chromosomes of amphioxus, you find that both genomes can be expressed in terms of 17 ancestral pieces. So, we can say with some confidence that 550 million years ago, the common ancestor of [...]]]></description>
			<content:encoded><![CDATA[<p><a href="http://www.berkeley.edu/news/media/releases/2008/06/18_lancelet.shtml">Lancelet genome shows how genes quadrupled during vertebrate evolution</a> by Robert Sanders</p>
<div class="cite">&#8220;If you compare the 23 chromosomes of humans with the 19 chromosomes of amphioxus, you find that both genomes can be expressed in terms of 17 ancestral pieces. So, we can say with some confidence that 550 million years ago, the common ancestor of amphioxus and humans had 17 chromosomal elements.&#8221;<br />
&#8230;<br />
Each of those 17 ancestral segments was duplicated twice in the evolution of vertebrates, after which most of the routine &#8220;housekeeping&#8221; genes lost the extra copies. Those left, totaling a couple thousand genes, found new functions that, Putnam said, make us different from all other creatures.</p>
<p>&#8220;These few thousand genes have been retooled to make humans more elaborate than their simpler ancestors. They are involved in setting up the body plan of an animal and differentiating different parts of the animal,&#8221; he said. &#8220;The hypothesis, pretty strongly supported by this data, is that the multiplication of this particular kind of gene and differentiation into different functions was important in the formation of vertebrates as we know them.&#8221;</p>
<p>&#8220;The most exciting thing that the amphioxus genome does is provide excellent evidence for the idea that Ono proposed in 1970, that the human genome had undergone two rounds of whole-genome duplication with subsequent losses,&#8221;</p></div>
<p>A great example of the scientific method in action.  It often isn&#8217;t a matter of developing a theory one day, testing it the next and learning the outcome the next.  The process can take decades for complex matters.</p>
<p>Related: <a href="http://engineering.curiouscatblog.net/2007/05/10/opossum-genome-shows-junk-dna-is-not-junk/">Opossum Genome Shows &#8216;Junk&#8217; DNA is Not Junk</a> - <a href="http://engineering.curiouscatblog.net/2007/11/28/amazing-science-retroviruses/">Amazing Science: Retroviruses</a> - <a href="http://engineering.curiouscatblog.net/tag/evolution/">posts on evolution</a></p>

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