<?xml version="1.0" encoding="UTF-8" ?>















<rss version="2.0" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">

<channel>
<title><![CDATA[liangdaixin'职业博客]]> </title>
<description>
<![CDATA[呼呼，欢迎大家来到偶的BLOG!学习和赚钱两不误,学习网赚也是一种乐趣，想探讨的请点左侧下脚的QQ咨询!]]>
</description>
<link>http://liangdaixin.blog.bokee.net/</link>
<language>zh-cn</language>
<creator>liangdaixin</creator>
<pubDate>Thu, 11 Oct 2007 12:49:08 CST </pubDate>
<generatorAgent rdf:resource="http://www.bokee.net"/>
<ttl>5</ttl>

<item>
<title>Google Answers DNA: Having Children </title>
<link>http://www.bokee.net/blogmodule/weblogcomment_viewEntry/1095704.html</link>
<description>
<![CDATA[<p><img alt="" hspace="8" src="http://www.eyeondna.com/wp-content/uploads/2007/08/question-mark.gif" align="right" vspace="8" border="0" />A man on Google Answers wanted to find <a href="http://answers.google.com/answers/threadview?id=446317"><font color="#005ebf">a woman who&rsquo;d bear four to 12 children</font></a> with him. He asks:</p>
<blockquote>
<p>How does one find a girl interested in having many children? What&rsquo;s the best way to go about my search? Should I think about moving to rural<br />Utah?</p>
</blockquote>
<p>In response, one of the comments suggested:</p>
<blockquote>
<p>If your main goal is passing along your DNA to the next generation,<br />you might want to give serious consideration to becoming a sperm<br />donor.</p>
</blockquote>
<p>Well. That just about covers it.</p>]]>
</description>
<guid isPermaLink="false">http://www.bokee.net/blogmodule/weblogcomment_viewEntry/1095704.html</guid>
<subject>个人展示</subject>
<author>liangdaixin</author>
<category>个人展示</category>
<pubDate>Mon, 15 Oct 2007 11:20:13 CST </pubDate>
</item>

<item>
<title>DNA Quote: Dr. Eric Lander </title>
<link>http://www.bokee.net/blogmodule/weblogcomment_viewEntry/1095700.html</link>
<description>
<![CDATA[<p><a href="http://www.broad.mit.edu/cgi-bin/news/display_news.cgi?id=2263"><img height="271" alt="eric lander" hspace="8" src="http://www.eyeondna.com/wp-content/uploads/2007/10/ericlander.jpg" width="211" align="left" vspace="8" /></a>Dr. Eric Lander, founding director of the <a href="http://www.broad.mit.edu/index.html"><font color="#005ebf">Broad Institute</font></a>, in the <a href="http://www.msnbc.msn.com/id/21162111/site/newsweek/"><font color="#005ebf">October 15, 2007 issue of Newsweek</font></a>:</p>
<blockquote>
<p>When we talk about why people get a disease, there are multiple components. There are inherent risks, and there are environmental exposures&mdash;and it&rsquo;s about a combination of those. We know that certain diseases are becoming more prevalent these days&mdash;asthma, for example. It&rsquo;s not because genes have changed; it&rsquo;s because environmental triggers have changed. &hellip;it doesn&rsquo;t mean that you&rsquo;re going to treat it by genetics. It might be that, once genetics lets you understand what pathway has gone awry, the best treatment might be a drug or a diet.</p>
</blockquote>]]>
</description>
<guid isPermaLink="false">http://www.bokee.net/blogmodule/weblogcomment_viewEntry/1095700.html</guid>
<subject>个人展示</subject>
<author>liangdaixin</author>
<category>个人展示</category>
<pubDate>Mon, 15 Oct 2007 11:19:09 CST </pubDate>
</item>

<item>
<title>收集祝福</title>
<link>http://www.bokee.net/blogmodule/weblogcomment_viewEntry/1089128.html</link>
<description>
<![CDATA[歡迎各位朋友來到偶的BLOG!本人望結識廣大天下好友,在此希望各位到訪的朋友能在此留下一句淺淡的祝福!謝謝了哈!]]>
</description>
<guid isPermaLink="false">http://www.bokee.net/blogmodule/weblogcomment_viewEntry/1089128.html</guid>
<subject>个人展示</subject>
<author>liangdaixin</author>
<category>个人展示</category>
<pubDate>Fri, 12 Oct 2007 10:49:23 CST </pubDate>
</item>

<item>
<title>Do insurance companies have a right to our DNA? </title>
<link>http://www.bokee.net/blogmodule/weblogcomment_viewEntry/1087745.html</link>
<description>
<![CDATA[<p><a href="http://clipartheaven.com/show/clipart/occupations/cartoons_(a_-_l)/insurance_salesman_1-gif.html"><img height="257" alt="insurance salesman 1" hspace="8" src="http://www.eyeondna.com/wp-content/uploads/2007/06/insurance-salesman-1.gif" width="200" align="right" vspace="8" twffan="done" /></a>The US may soon be outlawing the use of genetic information to determine insurance eligibility but the debate still rages over at BMJ where biomedical ethics professor Richard Ashcroft supports the principles of the <a href="http://www.eyeondna.com/2007/04/26/victory-for-genetic-information-nondiscrimination-act-gina/"><font color="#005ebf">Genetic Information Nondiscrimination Act</font></a> (GINA) while professor S&oslash;ren Holm does not. The UK currently has a moratorium on the use of genetic information for insurance underwriting but insurance carriers want to change this starting next year.</p>
<p><strong>The question: <em>Should genetic information be disclosed to insurers?</em></strong></p>
<p><a href="http://www.bmj.com/cgi/content/full/334/7605/1197"><font color="#005ebf">Prof. Ashcroft says &ldquo;no&rdquo;</font></a> on the basis of unfair discrimination via potential misinterpretations of genetic information. He also argues that it&rsquo;s a social injustice to punish those who&rsquo;ve had the &ldquo;ill luck&rdquo; to inherit genetic mutations predisposing them to disease. (Of course, all of us carry genetic mutations predisposing us to disease and eventually, this will cease to be an issue.) The argument is that individuals with the bad luck to have disease-causing mutations deserve insurance even more because that&rsquo;s what insurance is for - covering accidents.</p>
<p><a href="http://www.bmj.com/cgi/content/full/334/7605/1196"><font color="#005ebf">Prof. Holm says &ldquo;yes&rdquo;</font></a> to allow insurance companies access to genetic information because genetic information is no different from other data, such as pre-existing medical conditions or family history. He says that it is unfair to ask insurance companies to operate without a complete medical history since they need to be cost effective. (Although plenty of people withhold critical information precisely because they fear their premiums will skyrocket or they will be denied insurance completely.)</p>
<p><strong>I say &ldquo;no&rdquo;</strong> to making genetic information widely available to insurers because information on <em>my genes</em> is not just about me. My genetic profile can give information about family members as well, especially my parents, siblings, and children.</p>
<p>Knowing the gene variant you carry could make it possible to infer those carried by your relatives as well. This situation is particularly clear-cut for diseases that are caused by a single dominant gene with 100% penetrance (the presence of the disease gene always causes the disease). Huntington&rsquo;s disease is one example. If a currently healthy person tests positive for the gene causing <a href="http://www.ninds.nih.gov/disorders/huntington/huntington.htm"><font color="#005ebf">Huntington&rsquo;s disease</font></a>, it is easy to figure out that the gene was inherited from the parent with the positive family history. This parent&rsquo;s positive status can then easily be inferred from the child&rsquo;s positive result.</p>
<p>What&rsquo;s worse, asking for genetic information for one purpose can cause problems in other ways. Family turmoil ensues if the parent had not wanted to know if s/he carried the disease gene, preferring instead to take life day-by-day never knowing if or when the disease might strike. And what about when testing can reveal secrets about family relationships that would have never been known before? Fathers, mothers and children, or sisters and brothers may turn out not be biologically related or perhaps related more closely than previously thought.</p>
<p><strong>How would you answer the question? Take the poll below:</strong></p>
<p><span id="more-230" twffan="done"></span></p>
<div twffan="done">
<div class="democracy" twffan="done"><strong class="poll-question">Should genetic information be disclosed to insurers?</strong>
<div class="dem-results" twffan="done">
<form onsubmit="return dem_Vote(this)" action="http://www.eyeondna.com/wp-content/plugins/democracy/democracy.php">
    <ul>
        <li><input id="dem-choice-6" type="radio" name="dem_poll_2" value="6" /> <label for="dem-choice-6">Yes</label> </li>
        <li><input id="dem-choice-7" type="radio" name="dem_poll_2" value="7" /> <label for="dem-choice-7">No</label> </li>
        <li><input id="dem-choice-8" type="radio" name="dem_poll_2" value="8" /> <label for="dem-choice-8">Depends on the situation</label> </li>
        <li><input id="dem-choice-9" type="radio" name="dem_poll_2" value="9" /> <label for="dem-choice-9">Not sure</label> </li>
    </ul>
</form>
<ul>
    <li>Yes
    <div class="dem-graph" twffan="done"><a style="WIDTH: 8%" onclick="return false" href="http://www.eyeondna.com/2007/06/09/do-insurance-companies-have-the-right-to-our-dna/#"><strong>4</strong>6% of all votes</a></div>
    </li>
    <li>No
    <div class="dem-graph dem-winner" twffan="done"><a style="WIDTH: 100%" onclick="return false" href="http://www.eyeondna.com/2007/06/09/do-insurance-companies-have-the-right-to-our-dna/#"><strong>53</strong>78% of all votes</a></div>
    </li>
    <li>Depends on the situation
    <div class="dem-graph" twffan="done"><a style="WIDTH: 15%" onclick="return false" href="http://www.eyeondna.com/2007/06/09/do-insurance-companies-have-the-right-to-our-dna/#"><strong>8</strong>12% of all votes</a></div>
    </li>
    <li>Not sure
    <div class="dem-graph" twffan="done"><a style="WIDTH: 6%" onclick="return false" href="http://www.eyeondna.com/2007/06/09/do-insurance-companies-have-the-right-to-our-dna/#"><strong>3</strong>4% of all votes</a></div>
    </li>
</ul>
<em>Total Votes: 68</em> <em class="dem-total-votes">Started: June 9, 2007</em></div>
</div>
</div>]]>
</description>
<guid isPermaLink="false">http://www.bokee.net/blogmodule/weblogcomment_viewEntry/1087745.html</guid>
<subject>个人展示</subject>
<author>liangdaixin</author>
<category>个人展示</category>
<pubDate>Thu, 11 Oct 2007 16:52:38 CST </pubDate>
</item>

<item>
<title>100 Facts About DNA </title>
<link>http://www.bokee.net/blogmodule/weblogcomment_viewEntry/1087698.html</link>
<description>
<![CDATA[<p><a href="http://clipartheaven.com/show/clipart/occupations/images/scientist_1-gif.html"><img height="224" alt="scientist 1" hspace="8" src="http://www.eyeondna.com/wp-content/uploads/2007/08/scientist-1.gif" width="200" align="left" vspace="8" twffan="done" modo="false" /></a>I&rsquo;m on vacation this week but that doesn&rsquo;t mean Eye on DNA is going to be silent. I&rsquo;ve prepared posts in advance and figured this list of 100 facts about DNA should keep you busy! It&rsquo;s not particularly well-organized since I created using stream of consciousness. Ommm.</p>
<ol>
    <li>DNA stands for deoxyribonucleic acid. </li>
    <li>DNA is part of our definition of a living organism. </li>
    <li>DNA is found in all living things. </li>
    <li>DNA was first isolated in 1869 by Friedrich Miescher. </li>
    <li><a href="http://www.eyeondna.com/?s=james+watson"><font color="#005ebf">James Watson</font></a> and <a href="http://www.eyeondna.com/?s=francis+crick"><font color="#005ebf">Francis Crick</font></a> figured out the structure of DNA. </li>
    <li>DNA is a double helix. </li>
    <li>The structure of DNA can be likened to a twisted ladder. </li>
    <li>The rungs of the ladder are made up of &ldquo;bases&rdquo; </li>
    <li>Adenine (A) is a base. </li>
    <li>Thymine (T) is a base. </li>
    <li>Cytosine (C) is a base </li>
    <li>Guanine (G) is a base. </li>
    <li>A always pairs with T in DNA. </li>
    <li>C also pairs with G in DNA. </li>
    <li>The amount of A is equal to the amoun tof T, same for C and G. </li>
    <li>A+T = T+G </li>
    <li>Hydrogen bonds hold the bases together. </li>
    <li>The sides of the DNA ladder is made of sugars and phosphate atoms. </li>
    <li>Bases attached to a sugar; this complex is called a nucleoside. </li>
    <li>Sugar + phosphate + base = nucleotide. </li>
    <li>The DNA ladder usually twists to the right. </li>
    <li>There are many conformations of DNA: A-DNA, B-DNA, and Z-DNA are the only ones found in nature. </li>
    <li>Every single cell in our body has DNA. </li>
    <li>DNA is the &ldquo;blueprint&rdquo; of life. </li>
    <li>Chromosomal or nuclear DNA is DNA found in the nucleus of cells. </li>
    <li>Humans have 46 chromosomes. </li>
    <li>Autosomal DNA is part of chromosomal DNA but does not include the two sex chromsomes - X and Y. </li>
    <li>One chromosome can have as little as 50 million base pairs or as much as 250 million base pairs. </li>
    <li>Mitochondrial DNA (mtDNA) is found in the mitochondria. </li>
    <li>mtDNA is only passed from the mother to the child because only eggs have mitochondria, not sperm. </li>
    <li>There&rsquo;s a copy of our entire DNA sequence in every cell of our body with one exception. </li>
    <li>Our entire DNA sequence is called a <em>genome</em>. </li>
    <li>There&rsquo;s an estimated 3 billion DNA bases in our genome. </li>
    <li>One million bases (called a megabase and abbreviated Mb) of DNA sequence data is roughly equivalent to 1 megabyte of computer data storage space. </li>
    <li>Our entire DNA sequence would fill 200 1,000-page New York City telephone directories. </li>
    <li>A complete 3 billion base genome would take 3 gigabytes of storage space. </li>
    <li>If unwound and tied together, the strands of DNA in one cell would stretch almost six feet but would be only 50 trillionths of an inch wide. </li>
    <li>In humans, the DNA molecule in a non-sex cell would have a total length of 1.7 metres. </li>
    <li>If you unwrap all the DNA you have in all your cells, you could reach the moon 6000 times! </li>
    <li>Our sex cells&ndash;eggs and sperm&ndash;have only half of our total DNA. </li>
    <li>Over 99% of our DNA sequence is the same as other humans&rsquo;. </li>
    <li>DNA can self-replicate using cellular machinery made of proteins. </li>
    <li>Genes are made of DNA. </li>
    <li>Genes are pieces of DNA passed from parent to offspring that contain hereditary information. </li>
    <li>The average gene is 10,000 to 15,000 bases long. </li>
    <li>The segment of DNA designated a gene is made up of exons and introns. </li>
    <li>Exons have the code for making proteins. </li>
    <li>Introns are intervening sequences sometimes called &ldquo;junk DNA.&rdquo; </li>
    <li>Junk DNA&rsquo;s function or lack thereof is a source of debate. </li>
    <li>Part of &ldquo;junk DNA&rdquo; help to regulate the genomic activity. </li>
    <li>There are an estimated 20,000 to 25,000 genes in our genome. </li>
    <li>In 2000, a rough draft of the human genome (complete DNA sequence) was completed. </li>
    <li>In 2003, the final draft of the human genome was completed. </li>
    <li>The human genome sequence generated by the private genomics company Celera was based on DNA samples collected from five donors who identified themselves only by race and sex. </li>
    <li>If all the DNA in your body was put end to end, it would reach to the sun and back over 600 times (100 trillion times six feet divided by 92 million miles). </li>
    <li>It would take a person typing 60 words per minute, eight hours a day, around 50 years to type the human genome. </li>
    <li><a href="http://clipartheaven.com/show/clipart/occupations/cartoons_(m_-_z)/scientist_09-gif.html"><img height="251" alt="scientist 09" hspace="8" src="http://www.eyeondna.com/wp-content/uploads/2007/08/scientist-09.gif" width="200" align="right" vspace="8" twffan="done" /></a>If all three billion letters in the human genome were stacked one millimeter apart, they would reach a height 7,000 times the height of the Empire State Building. </li>
    <li>DNA is translated via cellular mechanisms into proteins. </li>
    <li>DNA in sets of 3 bases, called a codon, code for amino acids, the building blocks of protein. </li>
    <li>Changes in the DNA sequence are called <em>mutations</em>. </li>
    <li>Many thing can cause mutations, including UV irradiation from the sun, chemicals like drugs, etc. </li>
    <li>Mutations can be changes in just one DNA base. </li>
    <li>Mutations can involve more than one DNA base. </li>
    <li>Mutations can involve entire segments of chromosomes. </li>
    <li>Single nucleotide polymorpshisms (SNPs) are single base changes in DNA. </li>
    <li>Short tandem repeats (STRs) are short sequences of DNA repeated consecutively. </li>
    <li>Some parts of the DNA sequence do not make proteins. </li>
    <li>Genes make up only about 2-3% of our genome. </li>
    <li>DNA is affected by the environment; environmental factors can turn genes on and off. </li>
    <li>There are many ways you can analyze your DNA using commercially available tests. </li>
    <li>Paternity tests compare segments of DNA between the potential father and child. </li>
    <li>There are other types of relationship testing that compares DNA between siblings, grandparents and grandchild, etc. </li>
    <li>DNA tests can help you understand your risk of disease. </li>
    <li>A DNA mutation or variation may be associated with a higher risk of a number of diseases, including breast cancer. </li>
    <li>DNA tests can help you understand your family history aka <a href="http://www.eyeondna.com/category/dna-and-genealogy/"><font color="#005ebf">genetic genealogy</font></a>. </li>
    <li>DNA tests can help you understand your ethnic make-up. </li>
    <li>DNA can be <a href="http://www.eyeondna.com/2007/06/06/get-a-dna-sample-from-almost-anything/"><font color="#005ebf">extracted from many different types of samples</font></a>: blood, cheek cells, urine. </li>
    <li>DNA can be stored either as cells on a cotton swab, buccal brush, or frozen blood or in extracted form. </li>
    <li>In forensics, DNA analysis usually looks at 13 specific DNA markers (segments of DNA). </li>
    <li>The odds that two individuals will have the same 13-loci DNA profile is about one in one billion. </li>
    <li>A DNA fingerprint is a set of DNA markers that is unique for each individual <a href="http://www.eyeondna.com/2007/05/21/dna-isnt-the-answer-to-everything/"><font color="#005ebf">except identical twins</font></a>. </li>
    <li>Identical twins share 100% of their genes. </li>
    <li>Siblings share 50% of their genes. </li>
    <li>A parent and child share 50% of their genes. </li>
    <li>You can extract DNA at home from fruit and even your own cheek cells. </li>
    <li>DNA is used to determine the pedigree for livestock or pets. </li>
    <li>DNA is used in <a href="http://www.eyeondna.com/2007/08/09/dna-in-wildlife-investigations/"><font color="#005ebf">wildlife forensics</font></a> to identify endangered species and people who hunt them (poachers). </li>
    <li>DNA is used in identify victims of accidents or crime. </li>
    <li>DNA is used to exonerate innocent people who&rsquo;ve been wrongly convicted. </li>
    <li>Many countries, including the US and UK, maintain a DNA database of convicted criminals. </li>
    <li>The CODIS databank (COmbined DNA Index System) is maintained by the BI and has DNA profiles of convicted criminals. </li>
    <li>Polymerase chain reaction (PCR) is used to amplify a sample of DNA so that there are more copies to analyze. </li>
    <li>We eat DNA every day. </li>
    <li>DNA testing is used to authenticate food like caviar and fine wine. </li>
    <li>DNA is used to determine the purity of crops. </li>
    <li>Genetically modified crops have DNA from another organism inserted to give the crops properties like pest resistance. </li>
    <li>Dolly the cloned sheep had the same nuclear DNA as its donor mom but its mitochondrial DNA came from from the egg mom. (Does that make any sense?) </li>
    <li><a href="http://www.eyeondna.com/category/dna-fun/in-your-dna/"><font color="#005ebf">People like to talk about DNA</font></a> even if it bears no relation to science or reality. </li>
    <li>A group of bloggers who write regularly about DNA and genetics have banded to gether to form <a href="http://networks.feedburner.com/The-DNA-Network"><font color="#005ebf">The DNA Network</font></a>. </li>
    <li>Lists about DNA can get a little boring. </li>
</ol>
<p><strong>What do you think I left off the list?</strong></p>]]>
</description>
<guid isPermaLink="false">http://www.bokee.net/blogmodule/weblogcomment_viewEntry/1087698.html</guid>
<subject>个人展示</subject>
<author>liangdaixin</author>
<category>个人展示</category>
<pubDate>Thu, 11 Oct 2007 16:40:46 CST </pubDate>
</item>

<item>
<title>5 Cool Things You Can Do With Your DNA </title>
<link>http://www.bokee.net/blogmodule/weblogcomment_viewEntry/1087683.html</link>
<description>
<![CDATA[<p><a href="http://www.problogger.net/archives/2007/05/07/top-5-group-writing-project/"><img height="144" alt="top-5" hspace="8" src="http://www.eyeondna.com/wp-content/uploads/2007/05/top-5.jpg" width="144" align="left" vspace="8" twffan="done" /></a>Genetic technology isn&rsquo;t quite advanced enough to predict your future, but there&rsquo;s already plenty of fun you can have with your DNA. Here are five cool things you can do with your DNA.</p>
<ol>
    <li><strong>Extract your own DNA.</strong>
    <p>All you need is 15 minutes, salt, liquid soap, water, rubbing alcohol, and some glass and plastic cups. More details from biology.about.com: <a href="http://biology.about.com/c/ht/00/07/How_Extract_DNA_Human0962932481.htm"><font color="#005ebf">How to Extract DNA From Human Cheek Cells</font></a>. </p>
    </li>
    <li>
    <div twffan="done"><strong>Save it for future reference in case of missing persons, abduction, or identification in the event of a tragedy.</strong>
    <p>&nbsp;</p>
    <p>The City of San Bruno has step-by-step instructions for <a href="http://sanbruno.ca.gov/city_services/police/DNA2.html"><font color="#005ebf">how to collect and save your children&rsquo;s DNA</font></a> in your own home (it would also be a good idea to do the same for other members of the family). A number of companies, such as <a href="http://www.dna-lifeprint.com/Default.htm"><font color="#005ebf">DNA LifePrint</font></a>, also sell DNA collection kits. And, companies like DNA Analysis have <a href="http://www.storedna.com/html/storage.html"><font color="#005ebf">fee-for-service DNA storage</font></a>.</p>
    </div>
    </li>
    <li><strong>Preserve your DNA in jewelry form.</strong>
    <p>The Perpetua <a href="http://www.perpetua.us/life_jewel_dna_pendant.htm"><font color="#005ebf">Life Jewel Pendant</font></a> is composed of your DNA embedded in acrylic and can be made in a variety of colors. There&rsquo;s also a <a href="http://perpetua.us/life_jewel_heart.htm"><font color="#005ebf">Gold &amp; Crystal Life Jewel Heart</font></a> available. They market it for preserving &ldquo;your animal companion&rsquo;s DNA,&rdquo; but nothing stops you from preserving DNA from yourself or your lover(s) and children. </p>
    </li>
    <li><strong>Convert your DNA into a DNA art print.
    <p>&nbsp;</p>
    </strong>I&rsquo;ve already mentioned the brilliantly colorful <a href="http://www.dna11.com/gallery_portraits.asp"><font color="#005ebf">DNA 11 DNA Portraits</font></a> <a href="http://www.eyeondna.com/2007/05/01/dna-art/"><font color="#005ebf">before</font></a> but they&rsquo;re worth mentioning again. Although, it might give this former lab jockey a few flashbacks. </li>
    <li>
    <div twffan="done"><strong>Get your DNA tested.</strong>
    <p>&nbsp;</p>
    <p>Many many companies now offer DNA testing. Some are held to high standards while others are more suitable for recreational purposes. You can get your DNA tested for <a href="http://www.dnadirect.com/"><font color="#005ebf">disease susceptibility genes</font></a>, gene variants studied by people interested in <a href="http://www.mycellf.com/index2.html"><font color="#005ebf">nutritional genetics</font></a>, <a href="https://www3.nationalgeographic.com/genographic/index.html"><font color="#005ebf">ancestry</font></a>, and <a href="http://www.thegeneticgenealogist.com/"><font color="#005ebf">genealogy</font></a>.</p>
    </div>
    </li>
</ol>
<p><strong>Bonus idea:</strong> Send your DNA into the future by having children.</p>
<p><strong>What other cool stuff have you done with your DNA?</strong></p>
<p><em>This post was written as part of the <a href="http://www.problogger.net/archives/2007/05/07/top-5-group-writing-project/"><font color="#005ebf">ProBlogger Group Writing Project - Top 5</font></a>.</em></p>
<p><strong>Note:</strong> I have no financial affiliations with any of the companies named in this list.</p>
<p><strong><big><a href="http://digg.com/general_sciences/5_Cool_Things_You_Can_Do_With_Your_DNA"><font color="#005ebf">Digg this post!</font></a></big></strong></p>]]>
</description>
<guid isPermaLink="false">http://www.bokee.net/blogmodule/weblogcomment_viewEntry/1087683.html</guid>
<subject>个人展示</subject>
<author>liangdaixin</author>
<category>个人展示</category>
<pubDate>Thu, 11 Oct 2007 16:37:00 CST </pubDate>
</item>

<item>
<title>Eye on DNA Headlines for 9 October 2007 </title>
<link>http://www.bokee.net/blogmodule/weblogcomment_viewEntry/1087676.html</link>
<description>
<![CDATA[<li><a href="http://www.dnabloggers.com/"><img alt="" hspace="8" src="http://www.eyeondna.com/wp-content/uploads/2007/09/the-dna-network-logo-1.jpg" align="right" vspace="8" border="0" twffan="done" modo="false" /></a>Welcome <a href="http://bayblab.blogspot.com/"><em><font color="#005ebf">Bayblab</font></em></a><em>: Interesting news in science from a bunch of degenerate grad students</em> to <a href="http://www.dnabloggers.com/" modo="false"><font color="#005ebf">The DNA Network</font></a>! The team at Bayblab brings the total number of DNA Network members to 30. How high can we go? (<a href="http://www.eyeondna.com/2007/05/09/the-dna-network/"><font color="#005ebf">Here&rsquo;s more info about The DNA Network.</font></a>)
<p>&nbsp;</p>
</li>
<li>Jasia at Creative Gene is trying to figure out what her genealogy is worth to her and comes up with <a href="http://creativegene.blogspot.com/2007/10/what-is-your-genealogy-worth-to-you-dna.html"><font color="#005ebf">a price breakdown for incorporating DNA testing</font></a> in her genealogical research. I think it&rsquo;s worth it, what about you?
<p>&nbsp;</p>
</li>
<li>Mary Emma Allen of Alzheimer&rsquo;s Notes ponders what DNA ancestry testing could tell us about <a href="http://www.alzheimersnotes.com/will-ancestral-dna-research-reveal-alzheimers/" modo="false"><font color="#005ebf">our family history of dementia and Alzheimer&rsquo;s</font></a>.
<p>&nbsp;</p>
</li>
<li>FringeHog comes up with <a href="http://fringehog.com/verge/2007/10/05/fringehog-friday-five-five-things-to-do-with-your-genome/"><font color="#005ebf">five things to do with your genome</font></a>. Here&rsquo;s my list - <a href="http://www.eyeondna.com/2007/05/07/5-cool-things-you-can-do-with-your-dna/"><font color="#005ebf">5 Cool Things You Can Do With Your DNA</font></a>. By the way, I&rsquo;ve added a list of my most popular posts in the sidebar. The 5 Cool Things post is up at the very top!
<p>&nbsp;</p>
</li>
<li><a href="http://news.bbc.co.uk/2/hi/americas/7031359.stm"><font color="#005ebf">Argentina is collecting DNA from relatives</font></a> in the hopes of identifying approximately 600 bodies that may be of people who went missing during <a href="http://www.pbs.org/newshour/bb/latin_america/july-dec97/argentina_10-16a.html"><font color="#005ebf">Argentina&rsquo;s &ldquo;Dirty War&rdquo;</font></a> that lasted from 1976-1983. DNA from the bodies will be matched with the DNA of relatives.
<p>Eduardo Luis Duhalde, Argentina&rsquo;s human rights secretary:</p>
<p><em>Part of the anguish one perceives from the mothers and the fathers of the disappeared is that they may die and fear that could hinder the identification process. This project will try to bring them some peace, so they can know that, although they may no longer be here physically, elements will exist allowing us to identify whatever remains are found.</em> </p>
</li>]]>
</description>
<guid isPermaLink="false">http://www.bokee.net/blogmodule/weblogcomment_viewEntry/1087676.html</guid>
<subject>个人展示</subject>
<author>liangdaixin</author>
<category>个人展示</category>
<pubDate>Thu, 11 Oct 2007 16:34:49 CST </pubDate>
</item>

<item>
<title>Flood of DNA </title>
<link>http://www.bokee.net/blogmodule/weblogcomment_viewEntry/1087661.html</link>
<description>
<![CDATA[<p><a href="http://flickr.com/photos/9588236@N02/1522929912/"><img height="161" alt="chihuly glass" hspace="8" src="http://www.eyeondna.com/wp-content/uploads/2007/10/chihulyglass.jpg" width="211" align="left" vspace="8" twffan="done" modo="false" /></a>Summer is over (in the Northern Hemisphere) but the DNA flood has only just begun. Robert Langreth and Matthew Herper of Forbes chronicles <a href="http://www.forbes.com/2007/10/01/genetics-disease-cancer-biz-sci-cx_mh_1002genetests.html" modo="false"><font color="#005ebf">Genetics&rsquo; Super Summer</font></a> and covers some of the biggest developments in genetics and genomics over the past few months: new genes, new genetic tests, the controversy over <a href="http://www.eyeondna.com/2007/09/11/commercials-for-myriad-bracanalysis-genetic-test-under-scrutiny/"><font color="#005ebf">Myriad&rsquo;s ads for BRACAnalysis</font></a>, DNA/gene chips, whole genome sequencing, and phamacogenomics. Despite the excitement, not everyone believes the discoveries will lead to practical applications in the immediate future.</p>
<p>Dr. Leroy Hood, head of the Institute for Systems Biology:</p>
<blockquote>
<p>I am very skeptical that genome-wide association studies will give us much of anything at all that will be useful for patients.</p>
</blockquote>
<p>But of course he would say that because <a href="http://www.eyeondna.com/2007/09/14/what-comes-after-genome-sequencing/"><font color="#005ebf">systems biology</font></a> looks at the overall picture of how genes interact with each other and with the environment. For complex diseases, simply having information on a few genes is not enough to predict a person&rsquo;s risk of disease without leaving a great deal of room for doubt.</p>
<p>Here are the Forbes <a href="http://www.forbes.com/2007/10/01/genetics-disease-cancer-biz-sci-cx_mh_1002genetests_slides_2.html?thisspeed=20000"><font color="#005ebf">9 Gene Discoveries That Could Change Your Life</font></a>:</p>
<ol>
    <li>FGFR2 for breast cancer </li>
    <li>HLA-C for HIV and AIDS (also see <a href="http://www.eyeondna.com/2007/07/20/hiv-resistance-genes/"><font color="#005ebf">HIV-Resistance Genes</font></a>) </li>
    <li>BTBD9 for restless legs syndrome </li>
    <li>Variants on chromosomes 9, 6, and 2 for heart disease (also see <a href="http://www.eyeondna.com/2007/07/19/nejm-focus-on-genomewide-scans/"><font color="#005ebf">NEJM Focus on Genomewide Scans</font></a>) </li>
    <li>Variants on chromosome 4 for atrial fibrillation </li>
    <li>LOXL1 for glaucoma (also see <a href="http://www.eyeondna.com/2007/08/11/only-one-gene-for-exfoliative-glaucoma/"><font color="#005ebf">Only One Gene for Exfoliative Glaucoma</font></a>) </li>
    <li>FLJ10986 for amyotrophic lateral sclerosis (Lou gehrig&rsquo;s disease) </li>
    <li>Human Leukocyte Antigen/Interleukin-2 receptor/Interleukin-7 receptor for multiple sclerosis </li>
    <li>Traf1/C5 and PTPN22 for rheumatoid arthritis </li>
</ol>]]>
</description>
<guid isPermaLink="false">http://www.bokee.net/blogmodule/weblogcomment_viewEntry/1087661.html</guid>
<subject>个人展示</subject>
<author>liangdaixin</author>
<category>个人展示</category>
<pubDate>Thu, 11 Oct 2007 16:29:38 CST </pubDate>
</item>

<item>
<title>Showing posts with label DNA-protein interactions. </title>
<link>http://www.bokee.net/blogmodule/weblogcomment_viewEntry/1087646.html</link>
<description>
<![CDATA[<h3 class="post-title entry-title"><a href="http://omicsomics.blogspot.com/2007/06/illumina-ting-dna-protein-interactions.html">Illumina-ting DNA-protein interactions</a> </h3>
<div class="post-header-line-1" twffan="done"></div>
<div class="post-body entry-content" twffan="done">
<p>The new Science (sorry, you'll need a subscription beyond the abstracts) has a bunch of genomics papers, but the one closest to my heart is a paper from Stanford and Cal Tech<a href="http://www.sciencemag.org/cgi/content/abstract/316/5830/1497"></a> using the Illumina (ex-Solexa) sequencing platform to perform human genome-wide mapping of the binding sites for a particular DNA-binding protein.<br /><br />One particular interesting angle on this paper is actually witnessing the beginning of the end of another technique, ChIP Chip. Virtually all of the work in this field relies on using antibodies against a DNA-binding protein which has been chemically cross-linked to nearby DNA in a reversible way. This process, chromatin immunoprecipitation or ChIP, was married with DNA chips containing potential regulatory regions to create ChIP on Chip, or ChIP Chip.<br /><br />It is a powerful technique, but with a few limitations. First, you can only see binding to what you put on a chip, and it isn't practical to put more than a sampling of the genome on a chip. So, if you fail to put the right pieces down, you might miss some interesting stuff. This interacts in a bad way with a second consideration: how big to shear the DNA to. A key step I left out in the ChIP description above is the mechanical shearing of the DNA into small fragments. Only those fragments bound to your protein of interest should be precipitated by the antibody. The smaller your sheared fragment size, the better your resolution -- but also the greater risk that you will successfully precipitate DNA that doesn't bind to any of your probes.<br /><br />A stepping stone away from ChIP Chip is to clone the fragments and sequence them, and several papers have done this (e.g. <a href="http://nar.oxfordjournals.org/cgi/content/full/34/12/e84"><font color="#5588aa">this one</font></a>). The new paper ditches cloning entirely and simply sequences the precipitated DNA using the Illumina system. <br /><br />With sequencing, your ability to map sites will now be determined by the ability to uniquely identify sequence fragments and again the size distribution of your shattered DNA. Illumina has short read lengths, but the handicap imposed by this is often greatly overestimated. <a href="http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&amp;Cmd=ShowDetailView&amp;TermToSearch=16275781&amp;ordinalpos=7&amp;itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_RVDocSum"><font color="#5588aa">Computational analyses</font></a> have shown that many short reads are still unique in the genome, and assemblers capable of dealing with whole-genome shotgun of complex genomes with short reads are starting to show up. <a href="http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&amp;Cmd=ShowDetailView&amp;TermToSearch=17534434&amp;ordinalpos=1&amp;itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_RVDocSum"><font color="#5588aa">One paper</font></a> I stumbled on while finding references for this post includes Pavel Pevzner as an author, and I always find myself much wiser after reading a Pevzner paper (his <a href="http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&amp;Cmd=ShowDetailView&amp;TermToSearch=11504945&amp;ordinalpos=8&amp;itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_RVDocSum"><font color="#5588aa">paper on the Eulerian path method</font></a> is exquisitely written).<br /><br />In this paper, read length of 25 nt were achieved, and about 1/2 of those were uniquely mappable to the genome, allowing for up to 2 mismatches vs. the reference sequence. Tossing 50% of your data is frustrating, but with 2-5 <span style="FONT-STYLE: italic" twffan="done">million</span> reads in the experiment, you can tolerate some loss. These uniquely mapped sequences where then aligned to each other to identify sites marked by multiple read. 5X enrichment of a site vs. a control run were required to call a positive.<br /><br />One nice bit of this study is that they chose a very well studied DNA-binding protein for the study. Many developers of new techniques rush for the glory of untrodden paths, but going after something unknown strongly constrains your ability to actually benchmark the new technique. Because the site they went after (NRSF) is well characterized, they could also compare their results to relatively well-validated computational methods. For 94% of their sites, the called peak from their results was within 50nt of the computationally defined site. They also achieved an impressive 87% sensitivity (ability to detect true sites) and 98% specificity (ability to exclude false sites) when benchmarked against well-characterized true positives and known non-binding DNA sites. A particularly interesting claim is that this survey is probably comprehensive and has located all of the NRSF/REST sites in the genome, at least in the cell line studied. This is attributable to the spectacular sequencing depth of the new platforms.<br /><br />Of course, this is one study with one target and one antibody in one cell line. Good antibodies for ChIP experiments are a challenge -- finding good antibodies in general remains a challenge. Other targeted DNA-binding proteins might not behave so well. On the other hand, improvements in next generation sequencing technologies will enable more data to be collected. With paired-end reads from the fragments, perhaps a significant amount of the discarded 50% of the data could be salvaged as uniquely mappable. Or, just go to even greater depths. Presumably some clever computational algorithms will be developed to tease out sites which are hiding in the repetitive portions of the genome.<br /><br />It is easy to imagine that in the next few years this approach will be used to map virtually all of the binding sites for a few dozen transcription factors of great interest. Ideally, this will happen in parallel in both human and other model systems. For example, it should be fascinating to compare the binding site repertoire of Drosophila p53 vs. human p53. Another fascinating study would be to take some transcription factors suggested to play a role in development and scan them in multiple mammalian genomes, yielding a picture of how transcription factor binding has changed with different body plans. Perhaps such a study would reveal the key transcription factor changes which separate our development from those of the non-human primates. The future is <span style="FONT-STYLE: italic" twffan="done">bound</span> to produce interesting results.</p>
</div>]]>
</description>
<guid isPermaLink="false">http://www.bokee.net/blogmodule/weblogcomment_viewEntry/1087646.html</guid>
<subject>个人展示</subject>
<author>liangdaixin</author>
<category>个人展示</category>
<pubDate>Thu, 11 Oct 2007 16:24:14 CST </pubDate>
</item>

<item>
<title>Small results, big press release</title>
<link>http://www.bokee.net/blogmodule/weblogcomment_viewEntry/1087636.html</link>
<description>
<![CDATA[The medical world is full of horrible diseases which need tackling, but you can't track them all. For me, it is natural to focus a touch more on those to which I have a personal connection. <br /><br />Lupus is one such disease, as I have a friend with it. Lupus is an autoimmune disease in which the body produces antibodies targeting various normal cellular proteins. The result can be brutal biological chaos.<br /><br />The pharmaceutical armamentarium for lupus isn't very good. Anti-lupus therapies fall into two general categories: anti-inflammatory agents and low doses of cancer chemotherapeutics (primarily anti-metabolite therapies such as methotrexate). Few of these have been adequately tested in lupus, and certainly not well tested in combination. The docs are flying by the seat of their pants. The side effects of the drugs are quite severe, so much so that lupus therapy can be an endless back-and-forth between minimizing disease damage &amp; therapy side effects.<br /><br />One reason lupus hasn't received a lot of attention from the pharmaceutical industry is that we really don't understand the disease. It is almost certainly a 'complex disease', meaning there are multiple genetic pathways that lead to or influence the disease. Different patients manifest the disease in different ways. For many patients, the most dangerous aspect is an autoimmune assault on the kidneys. but for my friend the most vicious flare-ups are pericarditis, an inflammation of the sac around the heart. These differences could reflect very different disease mechanisms; we really don't know.<br /><br />We need to understand the mechanisms of lupus, so it is with interest I read items such as this one: <a href="http://www.sciencedaily.com/releases/2006/11/061110092223.htm"><font color="#5588aa">New biomarkers for lupus found</font></a>. The item starts promisingly<br /><br /><blockquote>A Wake Forest University School of Medicine team believes it has found biomarkers for lupus that also may play a role in causing the disease.<br /><br />The biomarkers are micro-ribonucleic acids (micro-RNAs), said Nilamadhab Mishra, M.D. He and colleagues reported at the American College of Rheumatology meeting in Washington that they had found profound differences in the expression of micro-RNAs...<br /></blockquote><br /><br />So far, so good -- except now things go south<br /><blockquote>...between five lupus patients and six healthy control patients who did not have lupus.</blockquote><br /><br />Five patients? Six controls? These are exquisitely tiny samples, particularly when looking at microRNAs, of which there are &gt;100 known for human. With so few samples, the risk of a chance association is high. And are these good comparisons? Were the samples well matched for age, concurrent &amp; previous therapies, gender, etc? <br /><br />Farther down is even more worrisome verbiage<br /><blockquote>In the new study, the researchers found 40 microRNAs in which the difference in expression between the lupus patients and the controls was more than 1.5 times, and focused on five micro-RNAs where the lupus patients had more than three times the amount of the microRNAs as healthy controls, and one, called miR 95 where the lupus patients had just one third of the gene expression of the microRNA of the controls.</blockquote><br /><br />Fold-change cutoffs are popular in expression studies, because they are intuitive, but are generally meaningless. Depending on how tight the assays are, fold changes of 3X can be meaningless (in an assay with high technical variance) and ones smaller than 1.5X can be quite significant (in an assay with very tight technical variance). Well-designed microarray studies are far more likely to use proper statistical tests, such as T-tests. <br /><br />And one last statement to complain about<br /><blockquote>The team reported the lesser amount of miR 95 &quot;results in aberrant gene expression in lupus patients.&quot;</blockquote><br />Is this simply correlation between miR 95 and other gene expression -- which suffers both from the fact that correlation is not causation and that with such small samples gene expression differences will be found from pure chance. Are these genes which have previously been shown to be targets of miR 95? Has it been shown that actually interfering with miR 95 expression in the patient samples reverts the gene expression changes?<br /><br />Of course, it is patently unfair for me to beat up on a scientific poster of preliminary results for which I have only seen a press release - one hopes that before this data gets to press a much more detailed workup is performed (please, please let me review this paper!). But, it is also patently unfair to yank the chains of patients with understudied diseases with press releases that take a nub of a preliminary result and headline it into a major advance.]]>
</description>
<guid isPermaLink="false">http://www.bokee.net/blogmodule/weblogcomment_viewEntry/1087636.html</guid>
<subject>个人展示</subject>
<author>liangdaixin</author>
<category>个人展示</category>
<pubDate>Thu, 11 Oct 2007 16:20:46 CST </pubDate>
</item>

</channel>
</rss>