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        <title>Custom Feed &#45; The BioLogos Forum</title>
    <link>http://biologos.org/resources/find/Essay,Video/any/Divine Action &amp; Purpose,Genetics/sort&#45;by&#45;Newest?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
    <description>This is a custom feed of BioLogos resources. Make a new feed at http://biologos.org/resources/find</description>
    <dc:language>en</dc:language>
    <dc:rights>Copyright 2013</dc:rights>
    <dc:date>2013-05-22T08:09:13-08:00</dc:date>    
    
    

            
            
        
      <item>
        <title>That’s Random!  A Look at Viral Self&#45;Assembly</title>
        <link>http://biologos.org/blog/thats&#45;random&#45;a&#45;look&#45;at&#45;viral&#45;self&#45;assembly?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/blog/thats&#45;random&#45;a&#45;look&#45;at&#45;viral&#45;self&#45;assembly?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>It should be noted that indeterminacy does not imply that God does not have foreknowledge of future events. Christians ought not to be uncomfortable with the idea of God interacting with his creation through chance.</description>
        <content:encoded><![CDATA[<p>You hear it all the time: “That’s so random!” When used by people of my generation, the word “random” can simply mean “cool” or “surprising.” Or it can mean something like “disconnected,” as in the phrase, “I had a random thought” (which returns 189,000 hits on Google, by the way—random!).</p>

<p>Despite this usage, most of us know that randomness has something to do with probability, and that it often implies a lack of conscious intentionality. But what do mathematicians and scientists mean when they say something is random? Can a random process lead to an ordered, even predictable outcome? Is there evidence that God makes use of random processes to fulfill his creative purposes?</p>

<p>These are big questions, and we won’t address them all today. But I think randomness is an important topic to cover for two reasons: 1) it is integral to many processes in biology (and math, physics, chemistry, etc.), and 2) it is commonly misunderstood to be incompatible with Christianity.</p>

<p>As I said above, most of us know that randomness has something to do with probability. If you pick a card “at random” from a shuffled deck, you have a small probability of drawing an ace (4 out of 52, or a 7.7% chance). If you flip a coin, you have an equal probability of getting heads or tails.</p>

<p>Randomness also seems to imply a lack of intentionality or purposefulness. After all, you might hope for an ace when you draw a card, but you can’t choose one on purpose. You might call heads when you flip a coin, but you can’t know beforehand what the outcome will be. Thus the outcome is <em>indeterminate</em>, but is it purposeless? Not necessarily. Indeterminacy simply means the result cannot be predicted from the outset.</p>

<p>It should be noted that indeterminacy does not imply that God does not have foreknowledge of future events. Christians ought not to be uncomfortable with the idea of God interacting with his creation through chance. We often describe a seemingly-random (i.e. unplanned by us) sequence of events as being “providential,” or planned by God.</p>

<p>In biology, it is very hard or impossible to calculate precise probabilities for most processes, so when we say a process is random, we typically mean it is extremely unpredictable. Eventually we will discuss randomness within biological evolution, but first we must consider some simpler processes, like the self-assembly of a virus.</p>

<p>Viruses are remarkably efficient entities. Coiled tightly within a protein-based shell is a small amount of DNA needed for self-replication. The shell, called a capsid, is made of many repeating protein subunits and is therefore highly symmetrical (see figure). Important biomedical insights have certainly been gleaned from structural studies of viruses, but viruses also teach us about the emergence of order from non-order.</p>

<p>The virus life cycle has four main steps: 1) enter a host cell, 2) hijack the cell’s replication and translation machinery to make many copies of itself, 3) assemble into many virus particles, and 4) exit the cell to invade another host.</p>

<p>When I first learned about this process, I found it very hard to believe it just “happens.” The idea that a bunch of molecules bumping into each other inside a crowded cell could spontaneously assembly into a fully-functional virus seemed a bit far-fetched. Many viral capsids have over 100 protein subunits that must interact with each other in just the right way, or it won’t work. Surely there must be something driving this process, right?</p>

<p>There is! Random motion. I had to see it to believe it. I distinctly remember sitting in class during my first year of graduate school when the professor demonstrated self-assembly of a virus using a 3D <a href="http://models.scripps.edu/" target="_blank">model</a> as shown in the following video. In less than 30 seconds, you can watch a jumbled heap of proteins become a beautifully ordered structure.</p>

<p align="center"><object height="385" width="480"><param name="movie" value="http://www.youtube.com/v/X-8MP7g8XOE&amp;hl=en_US&amp;fs=1&amp;rel=0" /><param name="allowFullScreen" value="true" /><param name="allowscriptaccess" value="always" /><embed allowfullscreen="true" allowscriptaccess="always" height="385" src="http://www.youtube.com/v/X-8MP7g8XOE&amp;hl=en_US&amp;fs=1&amp;rel=0" type="application/x-shockwave-flash" width="480"></embed></object></p>

<p>As the narrator explains, sub-assemblies form and break apart en route to the most stable structure, the full capsid. As the sub-assemblies begin to form, further associations with free subunits become more favorable and as a result occur rapidly, while the final steps may take considerably longer. While the subunits in the model are rigid, in reality the proteins take on multiple conformations, allowing the capsid to “breathe.”</p>

<p>Amazing as it is, the system we just considered—one virus capsid in a jar—is pretty simple. One wonders how self-assembly can happen in a crowded cell, where there are countless other molecules diffusing around, potentially getting in the way. We can’t directly <em>see</em> how it happens in a cell, but we can reconstitute the process in a test tube using different combinations of constituent molecules.</p>

<p>Consider two viruses, where each protein subunit in one virus is the mirror image of the corresponding subunit in the other. Putting the two viruses together by hand would be pretty tricky, because the constituent parts look so similar. But random motion can do the job in short order:</p>

<p align="center"><object height="385" width="480"><param name="movie" value="http://www.youtube.com/v/YbpTusoDEgA&amp;hl=en_US&amp;fs=1&amp;rel=0" /><param name="allowFullScreen" value="true" /><param name="allowscriptaccess" value="always" /><embed allowfullscreen="true" allowscriptaccess="always" height="385" src="http://www.youtube.com/v/YbpTusoDEgA&amp;hl=en_US&amp;fs=1&amp;rel=0" type="application/x-shockwave-flash" width="480"></embed></object></p>

<p>From this model, we can see clearly, in real-time, how distinct complex structures can arise from their parts randomly interacting with one another. Many large viruses also use special scaffolding proteins to assist in the assembly process, and some even use their own genomes as a scaffold. In addition, two closely-related viruses that happen to infect the same cell can exchange parts to create a new virus. This is one way viruses can evolve quickly to evade the host’s immune system.</p>

<p>Here we have seen how viruses demonstrate a principle inherent in God’s world—that order can emerge out of chaos from random processes. In my next post, we will look at some other biological processes that make use of—rather, depend on—randomness. This will set the stage for us to see that such processes can not only assemble a structure within seconds or minutes, but also generate complex, information-bearing molecules over billions of years. Even though the freedom inherent in nature sometimes produces <em>un</em>intelligently-designed structures (like viruses, which can kill us), we see that God has made, and continues to oversee by his providence, a <em>good</em> creation that, at least in part, is capable of creating itself.</p>

<p class="intro">Next weekend, we’ll continue this series about randomness and God’s divine will. Up next: how God created the body to heal itself, and how can random mutations can be both harmful and benign.</p>]]></content:encoded>
        <pubDate>Sat, 16 Mar 13 08:54:44 -0700</pubDate>
        <dc:creator>Kathryn Applegate</dc:creator>
        <!--<dc:date>Mar 16, 2013 08:54</dc:date>-->
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        <title>Series: Divine Action in the World</title>
        <link>http://biologos.org/blog/series/divine&#45;action&#45;in&#45;the&#45;world?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/blog/series/divine&#45;action&#45;in&#45;the&#45;world?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>In this talk, Professor Plantinga addresses the fact that many contemporary thinkers—including many theologians—believe that God cannot perform miracles, providentially guide history, or interact in the lives of people, as these activities would be contrary to science.   Plantinga, on the other hand, makes the case that this popular view is mistaken; excluding divine action in the world is not a central feature of natural science itself, but a philosophical or theological preference that has been added on to science (and can just as readily be removed).   Plantinga concludes that it is completely logical to accept the miracles of the Bible and support contemporary science.</description>
        <content:encoded><![CDATA[<p>My talk is entitled “Divine Action in the World.”  I want to talk about a certain kind of objection to Christian belief that some people raise. They claim that central thoughts, central doctrines of Christianity, are contrary to science, and therefore, are suspicious or incredible or such that one can’t sensibly hold them—can’t be rational in accepting them.</p>

<p>There are several different kinds of arguments that people bring along these lines; I want to talk about just one. So first… the Heidelberg catechism, one of the forms of unity of the church I go to (the Christian Reformed Church), says </p>

<blockquote>Providence is the almighty and ever-present power of God, by which he upholds as with his hand heaven and Earth and all creatures and so rules them, that leaf and blade, rain and drought, fruitful and lean years, food and drink, health and sickness, prosperity and poverty. All things, in fact, come to us not by chance, but from his fatherly hand.</blockquote>

<p>And part of the way it comes to us—not by chance, but from his fatherly hand—part of the way God has designed our world, is that there is a great deal of regularity and dependability in our world. Of course, if it were not for this regularity and dependability, we couldn’t do the things that we actually do. I mean, for example, if I just wanted to walk off the stage—if, for example, all the sudden those stairs over there suddenly turned into a ladder going up—well, that would make it really difficult.</p>

<p>If you are trying to build a house, for example, you have this hammer, but all the sudden the hammer turns in to a goose or a pigeon. Again, that would make things really difficult…or if the nail turned into a worm…or if you get in the car and turn the key and the car turns into a camel, things would be really hard, much harder than they are. This regularity and dependability in our world is an essential condition of our being able to live in the world in which we actually do.</p>

<p>If the world were irregular enough, we would not even be able to live in it, but there are also, according to classical Christianity here (the Heidelberg catechism, for example) there are also special divine actions; sometimes God does things specially. There are miracles in Scripture: the parting of the Red Sea, for example, Jesus walking on water, Jesus changing water into wine. There are miraculous healings: Jesus rising from the dead, Jesus raising Lazarus from the dead, and so on. And according to classical Christians, many of them, perhaps most of them, are special divine actions. God, for example, responds to prayers. He works in the hearts and minds of his children to effect sanctification. There is, what Calvin called, the internal testimony or witness of the Holy Spirit, and there is what Thomas Aquinas called the internal instigation of the Holy Spirit. So, these things are all special actions on the part of God. God constantly causes events in the world. Ok, so far fair enough—what is the problem?</p>

<p>Many theologians seem to think there is a science-religion problem here. I don’t think any of the theologians of Biola think this, (I don’t know, but I doubt it) but many theologians do. For example, Rudolf Bultmann says, “The historical method,” which of course he thinks that is the method we should use, “includes the presupposition that history is a unity in the sense of a closed continuum of effects in which individual events are connected by the succession of cause and effect. This continuum, furthermore, cannot be rent by the interference of supernatural, transcendent powers.”</p>

<p>That’s what he says. Alright, there is this continuum that cannot be rent by the interference of supernatural (that would be God) or transcendent powers. So, it is a little bit like the laws of the Medes and Persians. You probably remember Daniel. Daniel was a favorite of King Darius, and well, the other courtiers became jealous of Daniel (they didn’t like it that the king liked him so well). So, they came to the king and said, “Oh king, live forever, we think it would be a great idea if you passed an edict to the effect that you alone can be worshipped. Everybody has to worship you and nothing else.”  Well the king thought that over for a minute, and that sounded pretty good to him so he said, “I guess that it is a pretty good idea.” So he made this edict; he made this declaration: “Only King Darius is to be worshipped—no one else, nothing else.”</p>

<p>These courtiers knew that Daniel worshipped God, and they thought probably Daniel would keep right on worshipping God despite this edict. So they were watching Daniel, and he was, in fact, worshipping God. So they came to the king.  Now the penalty for worshipping something else was to be thrown into the lion’s den and they said, “Well, king live forever, looks like Daniel has been violating this edict. You have got to throw him in the lion’s den.”</p>

<p>Well, the king didn’t want to do this because he really liked Daniel. He thought this was a miserable way to proceed, and he didn’t want to do it, but then they said to him, “O king live forever, and remember a law of the Medes and Persians cannot be abrogated, even by the king himself.” So once it’s put in place, not even the king himself can change it or abrogate it or go against it.</p>

<p>That is sort of the suggestion that you get here from Bultmann. Bultmann thinks, “Maybe God created the world and set it up in a certain way, but once he did that, not even he can interfere in it”—he uses that word interference—“not even he can do anything in it. He just has to keep hands off.” It is like the law of the Medes and the Persians.</p>

<p>Another theologian who agrees is John Macquarrie, who says,</p>

<blockquote>The way of understanding miracle (and that would be one kind of special divine action) that appeals to breaks in the natural order and to supernatural intervention belongs to the mythological outlook, and cannot commend itself in a post-mythological climate of thought. The traditional conception of miracle is irreconcilable with our modern understanding of both science and history. Science proceeds on the assumption that whatever events occur in the world, can be accounted for in terms of other events that also belong within the world, and if on some occasion, we are unable to give a complete account of some happening, the scientific conviction is that further research will bring to light further factors in the situation that will turn out to be just as imminent and this worldly as the factors already known.</blockquote>

<p>Ok again, no room there for special action. And the third thinker here, Langdon Gilkey (still another theologian), says something similar, but I will pass. I will not read that one in the interest of saving a little bit of time, but these three theologians, plus many others want to assert that there is something wrong with the idea of God acting in the world, acting in the world in a way that goes beyond creation and sustaining, or creation and holding things in existence. So they think, “Ok, God created the world; God sustains it in existence”…that is ok with them, but anything beyond that, God performing any miracles, raising Jesus from the dead, or for that matter working in somebody’s heart and mind in a special way, that, they say, is a real problem.  The question is, what is the problem?</p>

<p>Well, the next little bit here…according to the Christian and theistic idea, God is a person; he has knowledge, loves, and hates. He has aims and ends. He acts on the basis of his knowledge to achieve his ends. He is all-powerful, all-knowing, and wholly good. Thirdly (noted above by the Heidelberg catechism), God has created the world. Fourth is God conserves and sustains and maintains in being this world he created, but fifth, at least sometimes, God acts in a way going beyond creation and conservation in miracles, but also in his providential guiding of history, his working in the hearts of people, his internal instigation of the Holy Spirit, and so on, and it is with that fifth category that these people have a problem. It is God’s special action in the world—action beyond conservation and creation—and miracles would be an example.</p>

<p>So we might think of these theologians as endorsing what we could call hands off theology. God has got to keep his hands off. God could create the world. God conserves the world, sustains it in being, but he can’t do anything else—that is as far as he could go. It is hands off theology, and Bultmann, even in this context, even talks about interfering. I mean if God did something in the world that would be interfering, which, when you think about it, is a sort of strange thing to say—I mean if God created the world, he is the omnipotent, omniscient, holy, good creator of the world—when you accuse someone of interfering, you are saying they are doing something they should not be doing, right?</p>

<p>So Bultmann thinks if God did something in the world that would be interfering, and he should be ashamed of himself. Ok, now why is this a problem? Their suggestion is that somehow it is contrary to science. It is contrary to science the suggestion that God acts specially in the world. I didn’t read that bit, but Gilkey says, "The causal nexus in space and time which the enlightenment science and philosophy introduced into the western mind is also assumed by modern theologians and scholars. Since they participate in the modern world of science, both intellectually and existentially, they can scarcely do anything else.”</p>

<p class="intro">From a presentation sponsored by Biola University’s <a href="http://cct.biola.edu/" target="_blank">Center for Christian Thought</a>, and delivered February 12, 2012 at EV Free Church, Fullerton, CA.  Used by permission.</p>]]></content:encoded>
        <pubDate>Tue, 04 Sep 12 04:00:33 -0700</pubDate>
        <dc:creator>Alvin Plantinga</dc:creator>
        <!--<dc:date>Sep 04, 2012 04:00</dc:date>-->
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        <title>Randomness and Evolution: Is There Room for God? (Videocast)</title>
        <link>http://biologos.org/blog/randomness&#45;and&#45;evolution&#45;is&#45;there&#45;room&#45;for&#45;god&#45;videocast?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/blog/randomness&#45;and&#45;evolution&#45;is&#45;there&#45;room&#45;for&#45;god&#45;videocast?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>This BioLogos videocast addresses the idea of randomness as a part of natural selection, and whether it challenges the possibility of God using the evolutionary process as a means of creation.</description>
        <content:encoded><![CDATA[<p>Today we present the fourth entry in our on-going BioLogos videocast series. So far we have looked at the fossil record and genetic evidence for evolution, as well as speciation and macroevolution. The latest entry addresses the idea of randomness as a part of natural selection, and whether it raises questions about the possibility of God using the evolutionary process as a means of creation. The script was written by biology student Joy Walters, with help from BioLogos president Darrel Falk.</p>

<p>For more, be sure to read Randall Pruim's recent series <a href="http://biologos.org/blog/series/randomness-and-gods-governance">Randomness and God’s Governance</a>, Kathryn Applegate's post <a href="http://biologos.org/blog/thats-random-a-look-at-viral-self-assembly2">That's Random: A Look at Viral Self-Assembly</a>, and our FAQ <a href="http://biologos.org/questions/chance-and-god">How Do Randomness and Chance Align with Belief in God's Sovereignty and Purpose?</a>.</p>

<h3>Author's Note</h3>

<p>I am so thankful that I grew up in a Christian environment, which both kindled and nurtured my relationship with Jesus Christ. The Biblical instruction I received from my parents, pastors, and teachers has been invaluable as I walk out my love for the Lord from day to day. However, there was one specific topic growing up which was not fully addressed, namely evolutionary theory. </p>

<p>Coming from a conservative Christian background, evolution was given little or no thought because of its seeming contradiction to the creation story in Genesis. To me, evolution meant a monkey became a human, and as far as I knew, I had never seen that happen! So, of course, it appeared too improbable to hold any truth. When it was discussed, an inadequate picture of its ideas was often painted, which caused immediate suspicion and rejection of the theory. I don’t think this was intentional, but most Christians have never learned an unbiased, in-depth theory of evolution that is completely detached from societal agendas and philosophical conclusions. Therefore, their explanations of the theory are often misinformed. </p>

<p>My senior year of high school, I took AP Biology, and finally learned the scientific reasoning supporting this theory. I was surprised by how logical and obvious the mechanisms of change (such as mutations, natural selection, genetic drift, and so on) were that gave rise to new species. My subsequent response was, “No wonder people believe evolution occurred.” At that point, I was convinced that microevolution (evolution within a species) existed, but I was still questioning macroevolution.  </p>

<p>Now, being at Point Loma Nazarene University as an undergrad in the Biology-Chemistry major and a year-round, student intern at BioLogos, my understanding of evolution has expanded enormously. I have enjoyed critically thinking through the evidence for evolution and reading articles that tackle difficult issues at the interface of science and Christian faith. Ultimately, I know that God has created all things, but the processes he used surpass my small understanding. </p>

<p>My personal wrestling with evolution and quest for truth has led to times of prayer and studying God’s Word, which has deepened my love for him in ways I cannot express. The first chapters of Genesis, in particular, have come alive. My whole life, the creation story was a straightforward list of facts about the creation of the world; I never searched further. I didn’t even perceive the truths Genesis declared over my very identity and God’s character. The more I study his Word and handiwork, I glimpse the awesomeness and majesty of the Creator, who loves me much more than I know. There is still so much to learn, but I am confident that he will lead me into all truth as I seek him out.</p>

<p>I desire to give others the opportunity to see evolution accurately and to distinguish it from the traditional, philosophical, and personal conclusions that too often cloud the scientific theory. I believe these conclusions alienate Christians from evolution more than the scientific theory itself. Ultimately, I do not mean to convince someone about evolution, but simply to give them the freedom to understand it. </p>

<p>Therefore, my goal for this podcast is two-fold:</p>

<ul><li>First, to offer a new perspective on randomness within natural processes that removes its negative connotations (especially as it relates to evolution).</li>
<li>Second, to expose why evolution is powerless to support conclusions beyond the physical realm.</li></ul>

<p>This will hopefully encourage others to study evolutionary theory and draw their own conclusions about its meaning in the framework of their faith.</p>]]></content:encoded>
        <pubDate>Fri, 15 Jun 12 05:00:15 -0700</pubDate>
        <dc:creator>Joy Walters</dc:creator>
        <!--<dc:date>Jun 15, 2012 05:00</dc:date>-->
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        <title>Possibilities and Second Chances</title>
        <link>http://biologos.org/blog/possibilities&#45;and&#45;second&#45;chances?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/blog/possibilities&#45;and&#45;second&#45;chances?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>In today’s video, Dr. Rick Colling states that evolution is not merely the imposition of death and destruction and survival of the fittest. Rather, it is about second chances.</description>
        <content:encoded><![CDATA[<p align="center"><iframe src="http://player.vimeo.com/video/37257770" width="570" height="321" frameborder="0" webkitAllowFullScreen mozallowfullscreen allowFullScreen></iframe></p>

<p class="intro">Today's video is courtesy of filmmaker Ryan Pettey, director/editor of Satellite Pictures, and features Dr. Rick Colling, biologist and author of <em>Random Designer</em>.</p>

<p>In today’s video, Dr. Rick Colling states that one of the biggest difficulties in communicating compatibility between evolution and faith is a misunderstanding of what evolution is. Evolution is not, he says, about the imposition of death and destruction and survival of the fittest. Rather, it is about second chances. Our bodies contain thousands of genes, which duplicate like a computer back-up copy and can serve as raw material. When an organism encounters adverse environmental condition, this raw material can be used to help adapt and survive.</p>

<p>“God is so creative," says Colling, "that he’s actually put into place a mechanism to start doing these gene changes in advance before they’re even needed. And God has given us a second change through the evolutionary process of creating duplicate genes that give rise to new raw material that give rise to new possibilities, and that really more accurately describes the process of evolution. It’s redemption, it’s possibility, and it’s hope.”</p>]]></content:encoded>
        <pubDate>Wed, 22 Feb 12 10:17:28 -0800</pubDate>
        <dc:creator>Richard Colling</dc:creator>
        <!--<dc:date>Feb 22, 2012 10:17</dc:date>-->
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        <title>Genesis and the Genome</title>
        <link>http://biologos.org/essays/genesis&#45;and&#45;the&#45;genome?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/essays/genesis&#45;and&#45;the&#45;genome?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>This article provides an overview of genomics evidence for common ancestry and hominid population sizes, and briefly discusses the implications of these lines of evidence for scientific concordist approaches to the Genesis narratives.</description>
        <content:encoded><![CDATA[This article provides an overview of genomics evidence for common ancestry and hominid population sizes, and briefly discusses the implications of these lines of evidence for scientific concordist approaches to the Genesis narratives.]]></content:encoded>
        <pubDate>Wed, 19 Oct 11 15:09:09 -0700</pubDate>
        <dc:creator>Dennis Venema</dc:creator>
        <!--<dc:date>Oct 19, 2011 15:09</dc:date>-->
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        <title>From Chaos to Order: The Random Process as the &quot;Precision Tool&quot;of God</title>
        <link>http://biologos.org/blog/understanding&#45;random?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/blog/understanding&#45;random?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>For many, the importance of apparent randomness in evolution can be a major stumbling block when considering whether God could have created through an evolutionary process.</description>
        <content:encoded><![CDATA[<p>For many, the importance of apparent randomness in evolution can be a major stumbling block when considering whether God could have created through an evolutionary process. After all, if God created for a purpose, how could there be room for “unguided and purposeless” processes? Aren’t randomness and design naturally opposed?</p>

<p>While these are indeed complex questions, some of the problems do stem from misunderstandings about what randomness means in a scientific sense and what role it plays in evolution. To help clarify some of these details, we offer these resources.</p>

<p align="center"><iframe src="http://player.vimeo.com/video/22675654?title=0&amp;byline=0&amp;portrait=0" width="533" height="300" frameborder="0"></iframe></p>

<p>The “Randomness” installment of our Distinctions series (first posted earlier this year) looks at some of the basic misconceptions about the role of randomness in evolution. While it is understood by many simply to mean blind, undirected and purposeless, in truth, randomness is far more complex and awe-inspiring than this overly-simplified definition. Whether through genetic mutations or the combinations that occur between sperm and eggs, these processes can be seen as the continual unfolding of something that is decidedly not random--creation itself. Randomness, in essence, generates certainty.  This is further illustrated in the second video. </p>

<p align="center"><iframe src="http://player.vimeo.com/video/25365944?title=0&amp;byline=0&amp;portrait=0" width="533" height="300" frameborder="0" webkitAllowFullScreen allowFullScreen></iframe></p>

<p>In the clip “Randomness” from the upcoming film <em>A Leap of Truth</em> by Ryan Pettey, Richard Colling, Ard Louis, and John Polkinghorne offer several examples of random processes leading to order rather than disorder. As Dr. Louis points out, the scientific definition of “randomness” is quite different from our everyday understanding of the word. In fact, random generation is the most efficient way to generate complexity. Polkinghorne further notes that we live in a world where the balance of random mutations is almost perfectly tuned for fruitful life on Earth.  This, we learn, is God's process:  Randomness given time, can lead to that which is nearly certain.  </p>

<p>This is beautifully illustrated in the following re-post from last year.  Here, in a blog called "That's Random,"  Kathryn Applegate offers two examples of random motion leading to certainty in the process of assembling a virus.  Because random processes can lead to that which is almost certain, it is not at all surprising that this has frequently been used by God over billions of years to create order out of chaos--God's creation, by God's way, in God's time. </p>

<h3>That's Random</h3>

<p>You hear it all the time: “That’s so random!” When used by people of my generation, the word “random” can simply mean “cool” or “surprising.” Or it can mean something like “disconnected,” as in the phrase, “I had a random thought” (which returns 189,000 hits on Google, by the way—random!).</p>

<p>Despite this usage, most of us know that randomness has something to do with probability, and that it often implies a lack of conscious intentionality. But what do mathematicians and scientists mean when they say something is random? Can a random process lead to an ordered, even predictable outcome? Is there evidence that God makes use of random processes to fulfill his creative purposes?</p>

<p>These are big questions, and we won’t address them all today. But I think randomness is an important topic to cover for two reasons: 1) it is integral to many processes in biology (and math, physics, chemistry, etc.), and 2) it is commonly misunderstood to be incompatible with Christianity.</p>
<p>As I said above, most of us know that randomness has something to do with probability.  If you pick a card “at random” from a shuffled deck, you have a small probability of drawing an ace (4 out of 52, or a 7.7% chance).  If you flip a coin, you have an equal probability of getting heads or tails.</p>
<p>Randomness also seems to imply a lack of intentionality or purposefulness.  After all, you might hope for an ace when you draw a card, but you can’t choose one on purpose.  You might call heads when you flip a coin, but you can’t know beforehand what the outcome will be.  Thus the outcome is <em>indeterminate</em>, but is it purposeless?  Not necessarily.  Indeterminacy simply means the result cannot be predicted from the outset.</p>  
<p>It should be noted that indeterminacy does not imply that God does not have foreknowledge of future events.  Christians ought not to be uncomfortable with the idea of God interacting with his creation through chance.  We often describe a seemingly-random (i.e. unplanned by us) sequence of events as being “providential,” or planned by God.  A good introduction to the way divine action could drive physical processes can be found in this <a href="http://biologos.org/questions/evolution-and-divine-action/">Question</a>.</p>
<p>In biology, it is very hard or impossible to calculate precise probabilities for most processes, so when we say a process is random, we typically mean it is extremely unpredictable.  Eventually we will discuss randomness within biological evolution, but first we must consider some simpler processes, like the self-assembly of a virus.</p>
<p>Viruses are remarkably efficient entities.  Coiled tightly within a protein-based shell is a small amount of DNA needed for self-replication.  The shell, called a capsid, is made of many repeating protein subunits and is therefore highly symmetrical (see figure).  Important biomedical insights have certainly been gleaned from structural studies of viruses, but viruses also teach us about the emergence of order from non-order.</p>  
<p>The virus life cycle has four main steps: 1) enter a host cell, 2) hijack the cell’s replication and translation machinery to make many copies of itself, 3) assemble into many virus particles, and 4) exit the cell to invade another host.</p>
<p>When I first learned about this process, I found it very hard to believe it just “happens.”  The idea that a bunch of molecules bumping into each other inside a crowded cell could spontaneously assembly into a fully-functional virus seemed a bit far-fetched.  Many viral capsids have over 100 protein subunits that must interact with each other in just the right way, or it won’t work.  Surely there must be something driving this process, right?</p>
<p>There is!  Random motion.  I had to see it to believe it.  I distinctly remember sitting in class during my first year of graduate school when the professor demonstrated self-assembly of a virus using a 3D <a href="http://models.scripps.edu/" target="_blank">model</a> as shown in the following video.  In less than 30 seconds, you can watch a jumbled heap of proteins become a beautifully ordered structure.</p>
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<p>As the narrator explains, sub-assemblies form and break apart en route to the most stable structure, the full capsid.  As the sub-assemblies begin to form, further associations with free subunits become more favorable and as a result occur rapidly, while the final steps may take considerably longer.  While the subunits in the model are rigid, in reality the proteins take on multiple conformations, allowing the capsid to “breathe.”</p>
<p>Amazing as it is, the system we just considered—one virus capsid in a jar—is pretty simple.  One wonders how self-assembly can happen in a crowded cell, where there are countless other molecules diffusing around, potentially getting in the way.  We can’t directly <em>see</em> how it happens in a cell, but we can reconstitute the process in a test tube using different combinations of constituent molecules.</p>
<p>Consider two viruses, where each protein subunit in one virus is the mirror image of the corresponding subunit in the other.  Putting the two viruses together by hand would be pretty tricky, because the constituent parts look so similar.  But random motion can do the job in short order:</p>
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<p>From this model, we can see clearly, in real-time, how distinct complex structures can arise from their parts randomly interacting with one another.  Many large viruses also use special scaffolding proteins to assist in the assembly process, and some even use their own genomes as a scaffold.  In addition, two closely-related viruses that happen to infect the same cell can exchange parts to create a new virus.  This is one way viruses can evolve quickly to evade the host’s immune system.</p>
<p>Here we have seen how viruses demonstrate a principle inherent in God’s world—that order can emerge out of chaos from random processes.</p>]]></content:encoded>
        <pubDate>Tue, 13 Sep 11 22:00:20 -0700</pubDate>
        <dc:creator>Ryan Pettey</dc:creator>
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        <title>Miracles and Science: The Long Shadow of David Hume</title>
        <link>http://biologos.org/essays/miracles&#45;and&#45;science&#45;the&#45;long&#45;shadow&#45;of&#45;david&#45;hume?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/essays/miracles&#45;and&#45;science&#45;the&#45;long&#45;shadow&#45;of&#45;david&#45;hume?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>In this paper, physicist Ard Louis, a &quot;scientist who believes in the miracles of the Bible&quot;, looks at the implications science has on the acceptance of miracles.</description>
        <content:encoded><![CDATA[In this paper, physicist Ard Louis, a "scientist who believes in the miracles of the Bible", looks at the implications science has on the acceptance of miracles.]]></content:encoded>
        <pubDate>Mon, 02 May 11 18:43:36 -0700</pubDate>
        <dc:creator>Ard Louis</dc:creator>
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        <title>Distinctions.  Part 1: Randomness</title>
        <link>http://biologos.org/blog/distinctions&#45;part&#45;1&#45;randomness?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/blog/distinctions&#45;part&#45;1&#45;randomness?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>In our first Distinctions video &#45;&#45; featuring biologists Sean Carroll and Kerry Fulcher, Smithsonian Human Origins Program director Rick Potts, and Old Testament scholar John Walton &#45;&#45; we look at the concept of randomness.</description>
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<p>Today we are happy to introduce the first in a new series of videos from The BioLogos Foundation called “Distinctions”. These short videos look to clarify some of the important scientific questions at the heart of the science and faith dialogue. In our first video -- featuring biologists Sean Carroll and Kerry Fulcher, Smithsonian Human Origins Program director Rick Potts, and Old Testament scholar John Walton -- we look at the concept of randomness. While it is understood by many simply to mean blind, undirected and purposeless, in truth, randomness is far more complex and awe-inspiring than this overly-simplified definition. Unlike our previous posts for the Conversations series, we won't be including a full summary, as we feel the videos speak for themselves.</p>

<p>There are certainly more resources addressing the topic of randomness, however. For further reading, be sure to check out our <a href="http://biologos.org/questions/chance-and-god/">FAQ</a> on chance and God's sovereignty, Ard Louis’ scholarly essay <a href="http://biologos.org/uploads/projects/louis_white_paper.pdf" target="_blank">“How Does the BioLogos Model Need to Address Concerns Christians Have About the Implications of its Science?”</a>, and the series of blogs by BioLogos program director and cell biologist Kathryn Applegate, beginning with her posts <a href="http://biologos.org/blog/thats-random-a-look-at-viral-self-assembly/">“That’s Random!”</a> and <a href="http://biologos.org/blog/understanding-randomness/">"Understanding Randomness"</a>.</p>

<p><strong>Credits:</strong> This video was directed by Loretta Cooper, President of <a href="http://claritymediacoaching.com/" target="_blank">Clarity Media Strategies</a> and was scripted by Loretta Cooper and BioLogos Program Director, Kathryn Applegate.</p>]]></content:encoded>
        <pubDate>Thu, 21 Apr 11 12:58:07 -0700</pubDate>
        <dc:creator>Loretta Cooper</dc:creator>
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        <title>The Creator Speaks</title>
        <link>http://biologos.org/blog/the&#45;creator&#45;speaks?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
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        <description>Who is this that obscures my plans with words without knowledge? Brace yourself like a man; I will question you, and you shall answer me. “Where were you when I laid the earth’s foundation? Tell me, if you understand.</description>
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<p class="intro">Today's video, courtesy of the <a href="http://www.testoffaith.com/resources/resource.aspx?id=616" target="_blank">Test of Faith project</a>, presents a dramatic retelling of Job 38. Below is the original text from the New International Version.</p>

<h3>Job 38</h3>

<p>1 Then the LORD spoke to Job out of the storm. He said:</p>

<p> 2 “Who is this that obscures my plans<br />
   with words without knowledge?<br />
3 Brace yourself like a man;<br />
   I will question you,<br />
   and you shall answer me</p>

<p>4 “Where were you when I laid the earth’s foundation?<br />
   Tell me, if you understand.<br />
5 Who marked off its dimensions? Surely you know!<br />
   Who stretched a measuring line across it?<br />
6 On what were its footings set,<br />
   or who laid its cornerstone—<br />
7 while the morning stars sang together<br />
   and all the angels shouted for joy?</p>

<p>8 “Who shut up the sea behind doors<br />
   when it burst forth from the womb,<br />
9 when I made the clouds its garment<br />
   and wrapped it in thick darkness,<br />
10 when I fixed limits for it<br />
   and set its doors and bars in place,<br />
11 when I said, ‘This far you may come and no farther;<br />
   here is where your proud waves halt’?</p>

<p>12 “Have you ever given orders to the morning,<br />
   or shown the dawn its place,<br />
13 that it might take the earth by the edges<br />
   and shake the wicked out of it?<br />
14 The earth takes shape like clay under a seal;<br />
   its features stand out like those of a garment.<br />
15 The wicked are denied their light,<br />
   and their upraised arm is broken.</p>

<p>16 “Have you journeyed to the springs of the sea<br />
   or walked in the recesses of the deep?<br />
17 Have the gates of death been shown to you?<br />
   Have you seen the gates of the deepest darkness?<br />
18 Have you comprehended the vast expanses of the earth?<br />
   Tell me, if you know all this.</p>

<p>19 “What is the way to the abode of light?<br />
   And where does darkness reside?<br />
20 Can you take them to their places?<br />
   Do you know the paths to their dwellings?<br />
21 Surely you know, for you were already born!<br />
   You have lived so many years!</p>

<p>22 “Have you entered the storehouses of the snow<br />
   or seen the storehouses of the hail,<br />
23 which I reserve for times of trouble,<br />
   for days of war and battle?<br />
24 What is the way to the place where the lightning is dispersed,<br />
   or the place where the east winds are scattered over the earth?<br />
25 Who cuts a channel for the torrents of rain,<br />
   and a path for the thunderstorm,<br />
26 to water a land where no one lives,<br />
   an uninhabited desert,<br />
27 to satisfy a desolate wasteland<br />
   and make it sprout with grass?<br />
28 Does the rain have a father?<br />
   Who fathers the drops of dew?<br />
29 From whose womb comes the ice?<br />
   Who gives birth to the frost from the heavens<br />
30 when the waters become hard as stone,<br />
   when the surface of the deep is frozen?</p>

<p> 31 “Can you bind the chains of the Pleiades?<br />
   Can you loosen Orion’s belt?<br />
32 Can you bring forth the constellations in their seasons<br />
   or lead out the Bear with its cubs?<br />
33 Do you know the laws of the heavens?<br />
   Can you set up God’s dominion over the earth?</p>

<p>34 “Can you raise your voice to the clouds<br />
   and cover yourself with a flood of water?<br />
35 Do you send the lightning bolts on their way?<br />
   Do they report to you, ‘Here we are’?<br />
36 Who gives the ibis wisdom<br />
   or gives the rooster understanding?<br />
37 Who has the wisdom to count the clouds?<br />
   Who can tip over the water jars of the heavens<br />
38 when the dust becomes hard<br />
   and the clods of earth stick together?</p>

<p> 39 “Do you hunt the prey for the lioness<br />
   and satisfy the hunger of the lions<br />
40 when they crouch in their dens<br />
   or lie in wait in a thicket?<br />
41 Who provides food for the raven<br />
   when its young cry out to God<br />
   and wander about for lack of food?</p>]]></content:encoded>
        <pubDate>Fri, 14 Jan 11 10:45:43 -0800</pubDate>
        <dc:creator></dc:creator>
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        <title>Uncertainty is Uncomfortable</title>
        <link>http://biologos.org/blog/how&#45;evolutionary&#45;science&#45;reveals&#45;gods&#45;character?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/blog/how&#45;evolutionary&#45;science&#45;reveals&#45;gods&#45;character?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>Scientists become fairly comfortable with a certain level of uncertainty within scientific data, notes Kathryn Applegate, but that is not the case for most people, especially where faith is concerned</description>
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<p>In this video “Conversation,” BioLogos Program Director Kathryn Applegate points to evolutionary science as a way to gain a richer understanding of the glory of God.</p>

<p>Scientists become fairly comfortable with a certain level of uncertainty within scientific data, notes Applegate, but that is not the case for most people.  Uncertainty—especially where faith is concerned—can be scary for people who want a black and white answer. Yet science has all of the subtlety of a beautiful painting that is hard to encapsulate in a sound byte.</p>

<p>God speaks through the Bible and all sorts of other things that comport with the Bible, says Applegate.  “Science is another way of studying what God does.  How he created and how he continues to create. God is active and involved. We see that through the means of a continuous creation through evolution,” she says.</p>

<p>That is really exciting and allows us to better understand the character of God.  God is infinitely creative and infinitely good.  Looking to Genesis for scientific data is like looking at the notes on the page of a symphonic score without ever hearing the music—you miss all the richness. “Not that the notes aren’t important,” says Applegate, but they do not offer the complete picture and it isn’t the primary purpose of those texts.</p>


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        <pubDate>Wed, 03 Nov 10 14:38:23 -0700</pubDate>
        <dc:creator>Kathryn Applegate</dc:creator>
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        <title>What Does it Mean to Believe in God the Creator?</title>
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        <guid>http://biologos.org/blog/what&#45;does&#45;it&#45;mean&#45;to&#45;believe&#45;in&#45;god&#45;the&#45;creator?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>In this video conversation, Karl Giberson notes that have to be careful about projecting our idea about human creation onto God because the notion of a human creator is an entirely different concept.</description>
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<p>In this video conversation, Karl Giberson advocates for an understanding of the Creator that places more emphasis on his <em>sustainment</em> of creation and less on its origins.  Giberson notes that one of the things that the New Atheists have succeeded in doing is setting the frame of the debate by suggesting that unless we can point to what God is “doing”, that is, what he is actively creating—then he can’t exist.</p>
<p>This is a very reductionist argument, says Giberson, which attempts to evaluate claims of God in the same way that one would evaluate something like the Second Law of Thermodynamics.  This kind of rubric does not work because the Christian understanding of God has always been a much more “robust and philosophically deep concept” than that which the New Atheists will account or allow for.</p>
<p>“What does it mean to say that God brings a universe into being?”  It doesn’t mean that God is “[always in there] tinkering like gravity”—but he is more significant than that because he is the grounding force of gravity.  God works through secondary causes—thus we need a more sophisticated view of causality.  Way before the Big Bang or any theory of evolution, Aquinas points out that <em>origination</em> is not the key part to creating, it’s <em>sustaining</em>. </p>

<p>We have to be careful about projecting our idea about human creation onto God because the notion of a human creator is an entirely different concept.  For example, when humans create something, they finish, and then walk away.  We don’t say that Da Vinci continues to sustain the <em>Mona Lisa</em> and that if he were to remove his “sustaining powers” that it would cease to exist.</p> 

<p>That would make no sense at all.</p>

<p>“Yet, that’s what it means to say God created the world—because everything is grounded in his being.”</p>
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        <pubDate>Sat, 06 Mar 10 06:00:27 -0800</pubDate>
        <dc:creator>Karl Giberson</dc:creator>
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