User talk:Math-ghamhainn

November 2010

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Hello, Math-ghamhainn, and welcome to Wikipedia! Thank you for your contributions. I hope you like the place and decide to stay. Here are some pages that you might find helpful:

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I hope you enjoy editing here and being a Wikipedian! Please sign your messages on discussion pages using four tildes (~~~~); this will automatically insert your username and the date. If you need help, check out Wikipedia:Questions, ask me on my talk page, or ask your question on this page and then place {{helpme}} before the question. Again, welcome! Davtra ^(talk) 11:10, 14 November 2010 (UTC)[reply]

Gattaca

Hello, Math-ghamhainn, and thanks for your interest in the article Gattaca. You recently made an addition to that article, and another editor removed it. At that point the proper thing to do would have been to go to the talk page and discuss the issue, not to re-add your addition. See the essay WP:BRD which suggests that we should be Bold in our editing (which you were), that if someone objects they Revert (that's what the other editor did), and that then the article is left alone while the issue is Discussed at the article's talk page. I reverted your re-addition of the wording, and I want to explain why. It was not because I agreed or disagreed with it; it was because it was time to discuss rather than getting into an edit war. I hope you will come to the talk page and let's figure out whether we want to put this in the article and if so how. Thanks! --MelanieN (talk) 20:18, 29 October 2013 (UTC)[reply]

I understand. That makes sense to me. I haven't been involved in one of these edit/revert/edit exchanges before.

Phosphorylation sites

Hi. I noticed that you have been adding the following citation to a large number of articles:

Xu Q, Malecka KL, Fink L, Jordan EJ, Duffy E, Kolander S, Peterson JR, Dunbrack RL (2015). "Identifying three-dimensional structures of autophosphorylation complexes in crystals of protein kinases". Science Signaling. 8 (405): rs13. doi:10.1126/scisignal.aaa6711. PMID 26628682.

with the statement that a phosphorylation site within this protein has been identified without any indication why this phosphorylation is significant. These article are about individual proteins, not phosphorylation sites. Material and supporting citations should only be added to a Wikipedia article if the material is significant. From the source, It appears the function of these phosphorylation sites is not yet know. If the function is not known, then the material is by definition not significant. Furthermore the above is a WP:PRIMARY source whereas Wikipedia prefers secondary sources (review articles). The reason for this is two fold. Not all research can be repeated and not all research is notable. Research that has been reviewed in review articles increases both the reliability and notability of the results. Finally adding the same citation to a number of articles suggests that you may have a conflict of interest. Hence I have reverted the addition of this material. Boghog (talk) 14:04, 13 March 2016 (UTC)[reply]

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March 2018

Hello, I'm I dream of horses. I wanted to let you know that I removed one or more external links you added to the main body of GALA Choruses. Generally, any relevant external links should be listed in an "External links" section at the end of the article and meet the external links guidelines. Links within the body of an article should be internal Wikilinks. If you think I made a mistake, or if you have any questions, you can leave me a message on my talk page. Thank you. I dream of horses If you reply here, please ping me by adding {{U|I dream of horses}} to your message (talk to me) (My edits) @ 00:20, 25 March 2018 (UTC)[reply]

I dream of horses I'm sure that's true of general wikipedia articles but this is a list of choruses and the vast majority of them do not have wikipedia pages. It would seem silly to construct this page as a list of choruses and then have all the links in the external links section. It seems like the links should be in there only once and make sense in the section with the list of choruses. Rules should be applied when they make sense. I think in this case that rule does not make sense. LGBT choruses are important for many people, whether just coming out or moving to a new city or just wanting to be a part of the community. These links will help people looking to join these choruses as well as audience members.

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Protein kinase domain (check to confirm | fix with Dab solver)

added links pointing to RET, ICK, FES and TTN

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Your submission at Articles for creation: Backbone-dependent rotamer library has been accepted

Backbone-dependent rotamer library, which you submitted to Articles for creation, has been created.

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Opabinia regalis (talk) 04:54, 19 April 2021 (UTC)[reply]

Suggestions

Thanks for the backbone-dependent rotamer library article! Just a couple of suggestions - it's often recommended that people who have a COI with their article topics, as you indicated in your edits to the article, should use the Wikipedia:Articles for Creation process. But it's most suited for topics like biographies, and isn't as effective for technical topics. A better place to get people to look at your work in this area is Wikipedia talk:WikiProject Molecular Biology - the talk page for the most active relevant project. Since this is a pretty obscure subject by general-encyclopedia standards, it'd be great to build out the topic area a little, either with more context in the article itself or in related articles. I don't see that we have much coverage of rotamers in proteins in general, for example. Opabinia regalis (talk) 07:42, 19 April 2021 (UTC)[reply]

Reply: Thanks. I did sign it up for the Molecular Biology project and Computational Biology project but I didn't put anything on the talk page for those projects. I will do that in the future. Do I need approval in the future? I think the message from wikipedia is that I didn't if I had done enough edits. I am still new to generating articles although I have edited a fair number of pages.

I've thought about a general protein rotamer page, that would include rotamer libraries and the some conformational analysis (why the rotamer populations are not evenly distributed). I have some material on this topic here: http://dunbrack.fccc.edu/bbdep2010/ConformationalAnalysis.php. Then such an article could point to the backbone-dependent rotamer library page for more info on that specifically.

Thanks for approving the article. I look forward to improving it with the help of other wikipedia folks. --Math-ghamhainn (talk) 09:04, 19 April 2021 (UTC)[reply]

Great! For this kind of topic, I think the wikiproject pages will do better at getting people who are familiar with the area to take a look. For approvals: there's actually two different forms of new-article reviewing. One is the process you used, Wikipedia:Articles for Creation, where you first create your article in draft space or in a user sandbox and then submit it for review as a mainspace article. This is often suggested to new editors and is the standard recommendation for topics where you have a COI. This process can take a long time because it has a very large queue, and is especially slow for technical topics because the queue isn't really organized by subject and most reviewers are not topic specialists. However, getting a formal review through this process is optional and you can choose to create articles in mainspace or move them there yourself. The second process, usually called Wikipedia:New pages patrol, is applied to all new pages, especially pages that are new to mainspace. These reviewers are also mostly non-specialists and you may get some advice in the form of tags on the page but they will tend to be very general suggestions. Editors who have created a lot of new articles are eligible for a user flag that skips this process. My suggestion is to create a sandbox or draft article for topics where you have a COI and ask editors from relevant wikiprojects to review, since they're more likely to be familiar with the topic than people working through the queues. If your article is on a general subject then it's usually better to just create it in mainspace, or move your sandbox yourself.

As for COI: there is some basic practical guidance here about working on subjects where you have a COI, and quite a few pages about being a subject-matter expert on Wikipedia, such as Wikipedia:Expert editors, Help:Wikipedia editing for researchers, scholars, and academics, and Wikipedia:Ten simple rules for editing Wikipedia (originally from PLOS Comp Bio). Wikipedia is extremely careful about respecting pseudonymity, and no one is expected to identify themselves or their credentials. If you are Roland Dunbrack or a member of his research group, and you choose to identify yourself, you may want to create your user page with this information - and if not, you may still want to add some non-identifying information about your background and interests there, to help others understand your work.

When I read your rotamer library article, I wanted to add links to explain some of the terminology, such as χ angles, and I was surprised that we don't seem to really cover this much or have an obvious link target. (We do have an article chi (angle), but it's on a completely different subject than I was expecting!) So I think a general protein rotamer/sidechain article would fill a gap. The page you linked above is much more detailed than we'd typically expect, but would be a great external link. I should mention here the Wikipedia definition of original research, which is a little broader than you'd otherwise expect - a rule of thumb is if something isn't found in the standard literature and couldn't easily be verified by a non-specialist, then it's probably original research in our sense, even if a specialist would find it very straightforward.

Hopefully all of that is helpful. Thanks again for your contributions! Opabinia regalis (talk) 19:26, 19 April 2021 (UTC)[reply]

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