Uncommon Descent Serving The Intelligent Design Community

Anyone remember ENCODE? Not much junk DNA? Still not much.

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Still not much junk DNA (open access):

Conclusion

In contrast to evolutionary and genetic evidence, biochemical data offer clues about both the molecular function served by underlying DNA elements and the cell types in which they act, thus providing a launching point to study differentiation and development, cellular circuitry, and human disease (14, 35, 69, 111, 112). The major contribution of ENCODE to date has been high-resolution, highly-reproducible maps of DNA segments with biochemical signatures associated with diverse molecular functions. We believe that this public resource is far more important than any interim estimate of the fraction of the human genome that is functional. By identifying candidate genomic elements and placing them into classes with shared molecular characteristics, the biochemical maps provide a starting point for testing how these signatures relate to molecular, cellular, and organismal function. The data identify very large numbers of sequence elements of differing sizes and signal strengths. Emerging genome-editing methods (113, 114) should considerably increase the throughput and resolution with which these candidate elements can be evaluated by genetic criteria. Given the limitations of our current understanding of genome function, future work should seek to better define genome elements by integrating all three methods to gain insight into the roles they play in human biology and disease.

They seem to want to say that their bookkeeping is more important than the fact that they can’t really identify much junk DNA. (“We believe that this public resource is far more important than any interim estimate of the fraction of the human genome that is functional.”)

If they say so.

Anti-ENCODE rants from Darwin’s faithful here and here. Response.

Watching a movement self-destruct intellectually is curious. No one asked Darwin’s followers to insist that most of the human genome is junk. They could come down from the trees any time and no one will even notice maybe …

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Comments
AVS,
There is also a site called the “initiation region” in DNA, that activates transcription.
Just how is it that this site activates transcription?Mung
April 24, 2014
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Dio, if you were serious about learning biology, then you wouldn't be on this site. This is the last place to learn biology. The last time I talked to you, I gave you a number of hints about things to research. You obviously weren't ready for most of them, but that's alright. I'll give you a brief explanation. Genes express proteins. Regulation of many of these genes is specific to cell type. During development there are many different signaling factors that alter the transcription of genes. These factors bind cells and activate signal transduction pathways which alter transcription. These pathways can act on things like histones, promoter regions, enhancers, silencers, etc. This alters protein expression and cell type. All cells (except sex cells) have virtually the same genome. For the last time, buy some books or take some classes at a local university. Do NOT get your scientific information here.AVS
April 24, 2014
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Mung, I appreciate your explanations. Can you provide a link to where my questions get answered in details? For the project I'm working on, step-by-step details are very important. Can't do my work without those details. Just point to some video or written material where that is explained. Thank you. I've looked around and searched the internet. Found some information, but not all I'm looking for.Dionisio
April 24, 2014
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Ohhohhhohoooooo Mungy, now we're talking. I certainly do have a good grasp on cell biology and in fact I do know a thing or two about the initiation of transcription. That is exactly why I asserted that "initiation is highly dependent on DNA sequence." Now let me explain myself...something you guys never bother to do when making your BS claims. First of all, DNA's ability to melt (or separate for you laymen) is largely effected by the nucleotide sequence. The sequence T,A is more flexible due to less hydrogen bonding an this is why the TATA box is a well known site for transcription initiation. There is also a site called the "initiation region" in DNA, that activates transcription. The DNA helix winding is also an important factor in activation/repression, effecting protein binding on different faces of the helix. I could go on for days about this stuff, Mungy. Now the next time Joe tries to tell me I don't know what I'm talking about you're gonna have to step in and correct him. Thanks!AVS
April 24, 2014
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Salvador, you claim that this paper Defining functional DNA elements in the human genome supports your claim that "Designs can be functional but selectively neutral or deleterious." But you don't say how this paper supports your claim. You make the same claim in this post:
By the way, the latest PNAS paper supports my claim:
But again, you fail to mention how that paper supports your claim. Specifically, what claim did you make, and how does that paper support your claim?Mung
April 24, 2014
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AVS @ 5
You obviously didn’t pay much attention in your bio classes Dio. And you haven’t been doing much reading nowadays in your studies apparently. I’m not really surprised I guess.
AVS @ 7
You sure about that Mungy? That “DNA doesn’t cause anything to take place”? Maybe a bunch of scientifically illiterate fools are not the people to rely on for education on biology, Dio. Just a thought.
What's wrong with you, buddy? I specially quoted your comments, so everyone reading this can realize how you write so many offensive statements, but don't add any valuable information to answer my questions correctly. Try to be more positive, more helpful, more friendly. I mean, what in the world makes you so unfriendly. Can't you just answer the questions, instead of telling others that they are stupid or ignorant? If you know so much, then go ahead and answer my questions. I'm sure they're very simple questions to you. So explain, what makes a cardiac tissue cell behave different than a liver tissue cell, or a kidney tissue cell, if they all have the same DNA? Please, stick to the questions, don't keep digressing into name-calling and offensive mocking. Just try to behave like a real scientist, gracious and willing to share knowledge. C'mon, I know you can, because you're a very talented guy, with a very strong educational background. Just be nice. Thank you. P.S. you may provide links to videos, or to written material where the questions are answered correctly. I'm sure you know what 'correctly' means in this case. Remember that being nice to others is a virtue. C'mon, show us that you possess that virtue too. Here's a happy face for you to cheer up! :) Remember I'm a stupid ignorant guy who is struggling to learn some easy biological stuff, so I can develop the simulation software I'm working on. See how important your help will be. So go ahead and write an impressive clear explanation, like the ones you wrote in other threads before. We know you can. Go for it! Thank you. Also, please, remember I need this information in order to write the programming tech specs. Hence details are very important.Dionisio
April 24, 2014
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AVS:
Well maybe I don’t fully understand your argument Mungy, but I’d say that DNA sequences play a very important role in the expression of a downstream gene. In fact the initiation of transcription is highly dependent on DNA sequence.
Well, perhaps you just don't understand cell biology, much like you don't understand how cells came to be in the first place. What, precisely, initiates transcription? Do you know? If you don't know what initiates transcription, how can you asset that "the initiation of transcription is highly dependent on DNA sequence." If you actually know what you are talking about, and you aren't just yet another internet troll, please tell us how you know that "the initiation of transcription is highly dependent on DNA sequence." pleaseMung
April 24, 2014
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Link to the PNAS paper, please.
It's in the OP. :roll:scordova
April 24, 2014
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Salvador:
By the way, this latest PNAS paper supports my claim...
Link to the PNAS paper, please.Mung
April 24, 2014
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Well maybe I don't fully understand your argument Mungy, but I'd say that DNA sequences play a very important role in the expression of a downstream gene. In fact the initiation of transcription is highly dependent on DNA sequence. What do I know though?AVS
April 24, 2014
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Well, I look forward to the day that AVS posts whatever it is that AVS thinks DNA is the cause of. But I am not going to hold my breath.Mung
April 24, 2014
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You sure about that Mungy? That "DNA doesn't cause anything to take place"? Maybe a bunch of scientifically illiterate fools are not the people to rely on for education on biology, Dio. Just a thought.AVS
April 24, 2014
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By the way, this latest PNAS paper supports my claim that Designs can be functional but selectively neutral or deleterious
Loss-of-function tests can also be buffered by functional redundancy, such that double or triple disruptions are required for a phenotypic consequence.
Have said this since 2006 where I gave an examples where a double disruption would have to occur for a serious problem to emerge: Airplane Magnetos, contingency designsscordova
April 24, 2014
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You obviously didn't pay much attention in your bio classes Dio. And you haven't been doing much reading nowadays in your studies apparently. I'm not really surprised I guess.AVS
April 24, 2014
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Hi Dionisio, DNA is an inert molecule. It does not cause anything to take place. There are many biological processes that change depending upon context, including tissue differentiation. It's not that the coding areas are different or that the non-coding areas are different. It's that the context has changed and some how some way cells "know" this and act accordingly.Mung
April 24, 2014
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I have a question about something I don't quite understand. In the bio classes I've taken, they said most somatic cells in the human body have the same DNA. If that's the case, then how come they behave differently depending on the tissue the are in? Or is it the protein coding regions that are the same, but the non-coding areas different between different cell types.Dionisio
April 24, 2014
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Larry Moran is a function denier.Jehu
April 24, 2014
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You guys must really like Larry Moran's state of blood pressure. It goes up each time you post a JUNK DNA post. He loves his junk but it looks like most of us, sooner or later, forget about are "junk" especially if more, and more evidence shows that more, and more function for it... We just don't to tend to go back and rediscover something we had doomed as junk in the first place.kevnick
April 24, 2014
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