Talk:DNA separation by silica adsorption

Student Project, December 4-15, 2006
I am creating this article for a class project. Please note any changes you would like to see here rather than editing the page directly until 12/15/2006. Thanks! (The preceding unsigned comment was posted by User:ReginaSophia at 18:50, 3 December 2006.)


 * Thanks Regina. This article is part of a WP:SUP student project on Downstream_processing at Cornell University. It is slated for scientific peer review by the user's classmates and instructor over the next two weeks and will be finalized (for the purposes of the class) by 15 Dec 2006. If you would like to help, please hold off from the normal "bold editing" process until after December 15, and instead leave comments and suggestions for User:ReginaSophia here on the article discussion page. Your thoughtful review will be very much appreciated!

Jean Hunter, instructor, BEE 464 susato 17:41, 4 December 2006 (UTC)

Reviews
Hey Regina, I have a few comments to make. First, theres a few places where the grammar needs to be polished. Phrases including "meet the rises demand," "rapid results, in field applications, low costs...", "these decrease in surface charge leads to," and "theses molecules." That aside, I have two questions that arise when reading. First, I spent a good part of my summer doing mini-preps and was simply curious if you know how the cells are lysed after they're put onto the chip. Also, I'm not sure I completely understand why silica is used as opposed to other molecules. I imagine it doesnt necessarily have much to do with the charge since its negative and so is DNA. Is there anything in particular that makes the DNA adsorb to the silica better than positively charged molecules running through the chip? Overall though, I liked the organization in the article. It flows well and gets some good info across. Good job. Steve Lund 07:28, 5 December 2006 (UTC) --

Hey Regina, I read your article and the content/pictures look good. The article is organized well, but there are some grammatical/mechanical errors and some of the explanation might need to be expanded. The wording is dense in certain places, like in "how does this method work" section, some of the sentences assume previous knowledge ...These are some mechanical errors I found in the article...

"silica’s surface’s negative charge" "These decrease in surface"   "theses molecules are sent"  " which can then be closed off using a gated channel or a pressure or voltage controlled chamber"

Also, PCR can be internally linked to its article. Altogether the article runs well and the content is all there, but it may need to be a bit more explanatory. Great Job! Priya Shoor 17:34, 6 December 2006 (UTC) -- Hey,

I used Word to edit your article, so I'll email that to you. It's got grammar related comments written in the margin. If you have trouble opening it for some reason, just let me know. As far as content, I just have a couple of things (I'm probably a little picky on this topic because I've had spent some time working with almost this very thing). The first question I have is what type of cell sample is used. Most of what I've done has started with a cell pellet produced by centrifugation, but if the idea is to ultimately avoid large equipment, then that's not going to work. This is actually a step that we haven't really gotten to in the lab, so it would actually be quite helpful if you happened to know the answer. Also, I've been using GuSCN as the salt in our buffers, so you might want to add that to your list (I don't think this is proprietary info from our lab because we got it from a paper we found, so don't worry about that). Regarding Steve's question about how the cells are lysed, we've been mixing a detergent with the GuSCN solution, and that takes care of cell lysis. The last question I had was whether this method distinguishes between DNA and RNA. My lab experience has been in purifying RNA with silica beads, so I'm curious what the distinction is. Actually, one question that came up in my research has been whether the signals we're getting when we measure RNA concentration after our isolation might be higher than they really are because of DNA being present.

I realilze I'm probably more picky when it comes to this topic than any other one, it's just that I've spent the last year or so working on it. Overall, the article is pretty good, and I think there's a lot of good content. I actually had no idea what the mechanism was for the DNA binding the silica, and I've been working with it for a year! Good Job!

Jhsuosu 22:51, 6 December 2006 (UTC)

Hey Regina, I also sent you a word document with my comments. I'm not as picky as Jon, but I did make some suggestions.

132.236.221.23 02:33, 8 December 2006 (UTC)

Thanks to all the Reviewers
Thanks to everyone who reviewed my article. I have made all of the grammatical corrections that you suggested. In addition, I've added things like the solutions that may be used and the types of samples that are loaded. Hopefully, I've also clarified the entive process with my brief overview at the beginning. As for adding GuSCN, were you using this for this exact method? I will stick to the publish solutions that I have until I hear back from you. Thanks again, ReginaSophia 01:13, 15 December 2006 (UTC)

Solid phase extraction
Isn't this basically a solid phase extraction method? --Kupirijo 03:59, 2 November 2007 (UTC)

Too application-specific?
The description of this approach, focusing as it does only on a chip-based automated process, seems too specific for the generic page name. DNA separation by silica adsorption equally describes the use of silica beads, membranes and columns that are much more commonly utilized applications than this chip-based approach. As far as I can tell, these more common alternative forms of silica adsorption are not given a detailed description anywhere (there is a generic description of one option at Spin column-based nucleic acid purification, and this page would seem to be the place. Indeed, I thought it might be a push-page for a particular proprietary technology until I saw its history here as a student project.  69.166.47.99 (talk) 18:17, 10 March 2016 (UTC)
 * I totally agree with that assessment and came to this talk page to write basically the same thing. I've tried to clean-up the article a bit so it doesn't focus on chip-based DNA separation, which is rarely used compared to the other silica adsorption technologies like columns or beads or plain-old silica resin. Nosferattus (talk) 01:03, 4 July 2022 (UTC)