User talk:John J. Dennehy: Difference between revisions

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==Some workgroup help==
{{workgroup introduction}}


== Welcome ==
If I you need help, leave a messaqge on my talk page. I'll try. Regards, [[User:Nancy Sculerati|Nancy Sculerati]] 12:18, 27 April 2007 (CDT)
Wonderful to see you at work, so quickly. [[User:Nancy Sculerati|Nancy Sculerati]] 15:27, 27 April 2007 (CDT)
== Image problem ==
{{badimage}} [[User:Stephen Ewen|Stephen Ewen]] 20:14, 27 April 2007 (CDT)
==Hellow==
Another microbiologist-geneticist. Fabulous. Welcome to the wiki. [[User:David Tribe|David Tribe]] 19:32, 27 April 2007 (CDT)
Yup. I'm him. G M O Pundit hisself. Ill check out Your blog now. [[User:David Tribe|David Tribe]] 20:02, 27 April 2007 (CDT)
ooooh. Cooool. Evilutery biology and phages. Cut my teeth on Mu and P1 and upside down Y. Reading quite a bit about phage ( eg Villareal). Got student's writing stuff on cyanophage, and cre-lox as we type. Ill link to your blog  from my teaching websites. Microbe Pundit and a Microbes Wiki! ( the second hidden within the entrails of a University server).
I basically wrote [[Horizontal gene transfer in prokaryotes]] but it really needs more work. But it does have a pic of Joshua L. I teach a course in Microbial Cell biology too. looking forward to your activites [[User:David Tribe|David Tribe]] 20:09, 27 April 2007 (CDT)
:: Are you THE phage in a test tube evolution guys?  I glanced at one of those papers once. I heard Josh talk once in Madison Wisconsin. Agressively confident and lucid. Gotta go now [[User:David Tribe|David Tribe]] 20:27, 27 April 2007 (CDT)
::::Couln't resist checking out your CZ phage page. I teach with Mike Dyall-Smith who's into phages of halobacteria, and has just come back from a meeting near Nice, where there was talk about phage therapy moving forward [[User:David Tribe|David Tribe]] 20:33, 27 April 2007 (CDT).
:::: Mike just sent me a photo of Steve A. coming out of the house they shared at the Nice conference. Small World. [[User:David Tribe|David Tribe]] 07:01, 30 April 2007 (CDT)
== Images ==
Hello Dr. Dennehy. I am glad to make your acquaintance.  Please do us a favor and revisit the upload pages of the following images you recently uploaded:
*[[:Image:Phage_lifecycle.gif]]
*[[:Image:Lambda.jpg]]
*[[:Image:T-_4_Phage.gif]]
*[[:Image:Phage.gif]]
They are lacking licensing/copyright data. For help, see [[Help:Images#Copyrights]].  For further help, just ask me on my talk page. Thanks, [[User:Stephen Ewen|Stephen Ewen]] 23:46, 29 April 2007 (CDT)
:Let me know at any time if you wish help in uploading and documenting images. Regrettably, undocumented images cannot long stay on the wiki. We need at minimum to know their source and licensing and have that documented on the image upload page. [[User:Stephen Ewen|Stephen Ewen]] 04:46, 16 May 2007 (CDT)
==Suggestion==
Im sure that youll want to get your phage article approved in the near future. Dont hang back, and as soon as you feel like it give me a call via my user page and Ill help ush it through the system.
[[User:David Tribe|David Tribe]] 01:29, 16 May 2007 (CDT)
Probably need to first find a phage image to replave the lambda one some darn constBLE HAS PULLED OUT GIVING RED LINKS. hAVE YOU ANY? (OOOPS)[[User:David Tribe|David Tribe]] 15:03, 16 May 2007 (CDT)
Now I was trying to be as nice as I could about it.  :-)  ---[[User:Stephen Ewen|Stephen Ewen]] 18:20, 16 May 2007 (CDT)
==phage==
In Phage I was thinkin g that some mention of phage display and panning techniques would be good in other uses. Its m13 or fi pgage they use there isnt it [[User:David Tribe|David Tribe]] 15:59, 16 May 2007 (CDT)
OK. Lets Roll. Ill propose it for Approval, and we can fight out the minor grammat tweeking and other quibbles over the next week. [[User:David Tribe|David Tribe]] 18:01, 16 May 2007 (CDT)
(Dont forget to use you 4~s)  [[User:David Tribe|David Tribe]] 18:01, 16 May 2007 (CDT)
orright its up. Expect a week of annoying but useful comments (but quite likely there's only 5 people who can say much). The people who know little are most helpful. They (plus Nancy) point out the jargon and fine clarity issues. I've stood back, as proir to this being a significant contributor would hamper me being seen as being at a distance, but I might now try and find glitches if I can. [[User:David Tribe|David Tribe]] 18:12, 16 May 2007 (CDT)
Thx David, my first CZ article out for peer review!
==Plaques==
Just realised it would be nice to have some plaquues in the Phage article. Mike Dyall Smith has an image of his, and Ive just emailed his for permission to use it. But if you have one it would be good to load it up. Not essential, of course, but nice.
cheers David [[User:David Tribe|David Tribe]] 03:48, 20 May 2007 (CDT)
Mike's Image is of halophage. Hmmm. [[User:David Tribe|David Tribe]] 06:36, 20 May 2007 (CDT)
==cochlear hearing aid==
really interesting! thanks for showing me. [[User:Nancy Sculerati|Nancy Sculerati]] 18:51, 16 May 2007 (CDT)
==Favor to ask-imprtant==
John I have nominated DNA for approval- it needs a lot of work. Could you kindly help me? [[User:Nancy Sculerati|Nancy Sculerati]] 12:35, 8 June 2007 (CDT)
== DNA ==
I just wanted to let you know some other authors and editors were working on another version of the DNA article.  I linked it from the main article.  I think their comments can be tracked via the forums and the talk pages. [[User:Tom Kelly|Tom Kelly]] 22:30, 8 June 2007 (CDT)
I had no idea that there were two articles, there should never be a draft article of anything but an approved article. Here is a message I have put on other talk pages:there is a [[DNA/Draft]] and a [[DNA]]. The system of draft articles is strictly to allow for unprotected versions of approved articles to keep going on the wiki. Now, there are two different DNA articles, and -it's a mess. Please help, we need to put recent edits from DNA into DNA/draft and get rid of the title DNA/draft by moving the article DNA/draft to DNA. If you ever notice an author making a draft article of an unapproved article please stop them. In this case, we could have had no problem by just having named DNA draft DNA in the first place. Anyway, please help? [[User:Nancy Sculerati|Nancy Sculerati]] 11:04, 9 June 2007 (CDT)
==Felx d'Herelle==
Ive read the draft with interest. It looks ready to nominate for approval to me, which I will do if you indicate that your ready for that. [[User:David Tribe|David Tribe]] 14:50, 17 June 2007 (CDT)
::I've been polishing this along with struggling with DNA. It could use a little more polish, but I was going to ask you to put it up for approval. Looks like you were thinking the same thing. [[User:John J. Dennehy|John J. Dennehy]] 16:39, 17 June 2007 (CDT)
== [[Antibacterial]] ==
This page appears to be a copy and paste of Wikipedia's article [http://en.wikipedia.org/wiki/Antiseptic antiseptic]. When importing articles from Wikipedia, please follow [[CZ:How to convert Wikipedia articles to Citizendium articles]] and copy the source, not the display, to avoid the many problems currently evident in the article. Please work on this article soon. [[User:James A. Flippin|James A. Flippin]] 14:19, 21 June 2007 (CDT)
I see that you have done the same with [[Germ theory of disease]], [[Cholera]], [[Habitats]], [[Ganges]], [[Jumna]], and [[Enzyme]]. These all need to be significantly improved soon or they will be put up for deletion. [[User:James A. Flippin|James A. Flippin]] 15:42, 21 June 2007 (CDT)
== Importing Wikipedia Articles ==
When importing articles from Wikipedia, please click on "edit this page" at Wikipedia and copy and paste the wiki code from the edit box into Citizendium. This preserves the formatting, such as bolding, sectioning, references, etc. and makes the pages much easier to work on later. [[User:James A. Flippin|James A. Flippin]] 18:35, 21 June 2007 (CDT)
James, we might have to go back and get the June 15th version.  It seems that the editors at WP were deleting content and that is why John imported them quickly.  Any chance you can help do that? --[[User:D. Matt Innis|Matt Innis]] [[User talk:D. Matt Innis|(Talk)]] 18:54, 21 June 2007 (CDT)
Actually, John, maybe there are better versions than the 15th.  I.e. for [http://en.wikipedia.org/wiki?title=Germ_theory_of_disease&action=history Germ theory of disease] there may be a version that you want before they started to mess with it.  Do you see one? --[[User:D. Matt Innis|Matt Innis]] [[User talk:D. Matt Innis|(Talk)]] 19:38, 21 June 2007 (CDT)
:I'm certainly willing to help him go through the histories at Wikipedia and import the versions he likes best, but I have no way to gauge which version should be imported. John, please contact me on my [[User talk:James A. Flippin|talk page]] or [[Special:Emailuser/James_A._Flippin|e-mail me]] if you'd like my help. [[User:James A. Flippin|James A. Flippin]] 19:49, 21 June 2007 (CDT)
==Inclined?==
I placed To approve tags on both Twort and D'Herelle. Ive actually read Martin Arrowsmith a looong time ago. [[User:David Tribe|David Tribe]] 23:42, 21 June 2007 (CDT)
== [[Frederick Twort]] ==
Congratulations on your good work!  It was my pleasure approving that one.  Keep going!! --[[User:D. Matt Innis|Matt Innis]] [[User talk:D. Matt Innis|(Talk)]] 21:03, 25 June 2007 (CDT)
== Wiki Research ==
Thanks for your completed survey. [[User:James Sutton|James Sutton]] 08:47, 26 June 2007 (CDT)
==DNA again==
Ive dropped a note at Chris Day proposing to approve DNA. If three of us say yes, we could get it approved. What do you say? [[User:David Tribe|David Tribe]] 19:35, 1 July 2007 (CDT)
:I'm with you David. I read it this morning and it is looking very nice. [[User:John J. Dennehy|John J. Dennehy]] 08:16, 2 July 2007 (CDT)
==DNA==
I slapped "Nancy" 's To approve back on [[DNA]]. Please advise if there is dissent. [[User:David Tribe|David Tribe]] 02:46, 6 July 2007 (CDT)
== Ganges ==
Dear John J. Dennehy, I came across your article about [[Ganges]] when preparing a set of articles on European rivers, and I have moved it to [[Ganges River]] (a redirection remained at [[Ganges]]). This is because a general agreement is being formed that river articles should include the word river in their titles. The reason is that very often other geographical and other terms are named after rivers, and such agreement can save us some work and confusion. For more information, you can refer to  [http://en.citizendium.org/wiki/User_talk:Igor_Gre%C5%A1ovnik#River_names this Section] on my talk page. In other respects, the article has not been modified. Best Regards, [[User:Igor Grešovnik|Igor Grešovnik]] 12:06, 17 January 2008 (CST)
== Eduzedium template ==
Hi, I was somewhat bold and went ahead and added instructions to your class page about how your students ca put a template at the head of their articles which will mark them as an Eduzendium effort, and also stop other editors/authors from fiddling with them while your students are working on them. I hope I haven't offended by doing that directly, as opposed to just telling you how to do it. If so, sorry, just trying to be efficiet! [[User:J. Noel Chiappa|J. Noel Chiappa]] 09:46, 10 March 2008 (CDT)
: Thanks! much appreciated --[[User:John J. Dennehy|John J. Dennehy]] 09:50, 10 March 2008 (CDT)
:: You're welcome, glad to be of asssistance! [[User:J. Noel Chiappa|J. Noel Chiappa]] 10:12, 10 March 2008 (CDT)
== Article name consistency? ==
Could you make sure your students are naming things consistently? Some are using caps on both words in the organism name, one named their article [[Hepatitis C Virus]] (capital V) which I'm pretty sure is not right, etc. Typos inside the article aren't too hard to fix, but article names are a bit more of a pain... Thanks! [[User:J. Noel Chiappa|J. Noel Chiappa]] 08:19, 11 March 2008 (CDT)
: OK Ill try!--[[User:John J. Dennehy|John J. Dennehy]] 08:27, 11 March 2008 (CDT)
:: Here's another one: we have both [[Human papilloma virus (HPV)]] and [[Human Papilloma virus]] (the latter being a student article) - and no [[Human papilloma virus]]! Sigh, article should probably be at the last, and all the others redirect to it. Let me know if you want me to get that all straight. [[User:J. Noel Chiappa|J. Noel Chiappa]] 23:23, 13 March 2008 (CDT)
:::Early on I tried with a few others to help create a system to avoid this, along with the general disorganization and inconsistency we see with Eduzendium pages, but we kept getting stopped.  [[CZ_Talk:Sp08UniversityofColoradoatBoulderANTH4110HumanEvolutionaryBiology#Start_an_Eduzendium_article|Here is a useful tool]] I made at that time.  [[User:Stephen Ewen|Stephen Ewen]] 06:09, 14 March 2008 (CDT)
== Existing article? ==
Umm, did you notice that [[Parvovirus]] already existed? (Although it is rather stubby, I concede...) [[User:J. Noel Chiappa|J. Noel Chiappa]] 09:29, 17 March 2008 (CDT)
: yes, I think a lot more can be added to Parvovirus. --[[User:John J. Dennehy|John J. Dennehy]] 10:32, 17 March 2008 (CDT)
Another one: one of your students [http://en.citizendium.org/wiki?title=Helicobacter_pylori&diff=100297260&oldid=100284377 deleted] the entire existing content of [[Helicobacter pylori]] - was that the approach they were supposed to take? [[User:J. Noel Chiappa|J. Noel Chiappa]] 22:36, 29 March 2008 (CDT)
: well I told them to "be bold". Lets wait to see how the editing of this proceeds. I told her she should significantly improve the present (deleted) version. --[[User:John J. Dennehy|John J. Dennehy]] 12:43, 31 March 2008 (CDT)
== taxonomy box ==
John, I see you started a page for zoster.  You might consider putting in a blank taxonomy info box for the students to help them get started.  You can find one example at [[West Nile virus]], but I'm sure more complete ones can be found at other articles, perhaps some of the snake articles for example or even the [[Dog]] page maybe. [[User:David E. Volk|David E. Volk]] 15:43, 18 March 2008 (CDT)
: OK I will try to add this to the student's pages.--[[User:John J. Dennehy|John J. Dennehy]] 15:04, 20 March 2008 (CDT)
== Student confusion ==
Having a clickable section [edit] button next to the clickable link "Student Microbe list" on the [[CZ:Biol 201: General Microbiology‎]] page was probably confusing them, which is probably why their organism list entries kept winding up on that page. I made a small change to get rid of that possibility; hope I didn't irritate you by just forging ahead and making the change myself. [[User:J. Noel Chiappa|J. Noel Chiappa]] 10:22, 27 March 2008 (CDT)
: It was a poor format by myself, the addition makes sense. Thanks! Be bold right:) --[[User:John J. Dennehy|John J. Dennehy]] 10:49, 27 March 2008 (CDT)
:: Again, you're welcome, and glad to help. [[User:J. Noel Chiappa|J. Noel Chiappa]] 19:36, 28 March 2008 (CDT)
== Thrichomonas vaginalis ==
I found a few web hits for [[Thrichomonas vaginalis]] at places that seemed like they should know what they are talking about... or is this just a typo on your student's part? [[User:J. Noel Chiappa|J. Noel Chiappa]] 21:55, 2 April 2008 (CDT)
:typo [[User:John J. Dennehy|John J. Dennehy]] 05:55, 3 April 2008 (CDT)
::Im not sure if Dalia realizes that there is a [[Trichomonas vaginalis]] article. --[[User:D. Matt Innis|D. Matt Innis]] 08:28, 3 April 2008 (CDT)
:::Thanks for noticing. I didnt see it because of the misspelling. --[[User:John J. Dennehy|John J. Dennehy]] 08:49, 3 April 2008 (CDT)
:::: Arck! Sorry, I'd noticed you'd created [[Trichomonas vaginalis]], so I assumed you'd realize that [[Thrichomonas vaginalis]] was a duplicate article. If you all move the content from [[Thrichomonas vaginalis]] to [[Trichomonas vaginalis]], we can turn the former into a {{MW|Redirect}}; since sites like NIH have that misspelling, it's probably a relatively common typo, one that's worth keeping. Let us know when it's all cleared out, and we'll fix it up and cart everything else (e.g. [[Talk:Thrichomonas vaginalis]]) off to the e-trash. [[User:J. Noel Chiappa|J. Noel Chiappa]] 10:55, 3 April 2008 (CDT)
:::::I dont think there is any real content on Thrichomonas vaginalis. I put the redirect in. --[[User:John J. Dennehy|John J. Dennehy]] 11:00, 3 April 2008 (CDT)
==Citing Wikipedia==
I notice at least one of your students is citing Wikipedia in their article. As I expect you know, the whole rationale for Citizendium is that Wikipedia isn't reliable... so to cite it in Citizendium articles is, errrr,  inappropriate! :-) Sure, using it as a tool to find material is fine (it has much good/useful content), but not as an authority. Can you please pass the word to them (which is probably easier for you to do in class than for me to do electronically)? Thanks! [[User:J. Noel Chiappa|J. Noel Chiappa]] 08:46, 6 April 2008 (CDT)
==Confused student?==
Is [[User:Michael Gary Tavitian|this person]] confused? (Look at the page, you'll see what I mean :-). [[User:J. Noel Chiappa|J. Noel Chiappa]] 13:21, 17 April 2008 (CDT)
: Oh, he's got a lot of good content. We can just move it to [[Herpes simplex virus]] (or wherever it is supposed to be) for him. [[User:J. Noel Chiappa|J. Noel Chiappa]] 23:18, 18 April 2008 (CDT)
==Eduzendium articles==
Are they open for editing now? --[[User:Robert W King|Robert W King]] 10:07, 18 April 2008 (CDT)
:I am going thru and grading them. As I do, I am removing the Eduzendium do not touch tag. --[[User:John J. Dennehy|John J. Dennehy]] 11:25, 18 April 2008 (CDT)
::Ok, just wanted clarification.  Thanks! --[[User:Robert W King|Robert W King]] 11:27, 18 April 2008 (CDT)
:: Thanks for this follow-up, John! --[[User:Larry Sanger|Larry Sanger]] 10:17, 19 May 2008 (CDT)
In addition to Larry's request for a writeup, can I ask if you have any lessons learned to pass on to others who might be interested in doing something similar - what works, what doesn't, what to watch out for, etc, etc. I'm not sure where to put that stuff - if you're feeling up to it, straight into whatever Eduzendium instuctions page would be good - but if not, anywhere is fine, and we can put it in the right place later. Thanks! [[User:J. Noel Chiappa|J. Noel Chiappa]] 12:39, 19 May 2008 (CDT)
: Ah, that's great, thanks! And I'd forgotten your earlier comment - there's so much going on here, so fast, some things just fade on out... :-) [[User:J. Noel Chiappa|J. Noel Chiappa]] 16:37, 19 May 2008 (CDT)
::John, thanks for the input about constable communication.  I'm working on improving our response.  What address did you send your emails to?  Or did you click on a link somewhere? [[User:D. Matt Innis|D. Matt Innis]] 21:55, 19 May 2008 (CDT)
== Please join us for Biology Week! ==
<table><tr valign=top><td>
Hello John,
I am giving you this personal invitation to join us this week for Biology Week!
Please join us on the wiki and add or edit biology articles.  Also, please let your friends and colleagues who are biologists, biology students, or naturalists, know about Biology Week and ask them to join us, too.  Any way you can help make it an event would be most welcome.  Think of it as a [[CZ:Biology Workgroup|Biology Workgroup]] open house.  Let's see if we can kick up activity a notch!
Thanks in advance! --[[User:Larry Sanger|Larry Sanger]] 12:15, 22 September 2008 (CDT)
</td><td>{{Biology open house}}</td></tr></table>


== Student microbe list? ==
== Student microbe list? ==

Revision as of 14:45, 4 March 2009


Student microbe list?

I cannot get an image of an E. coli bacillus filling out the College Boards with a very small #2 pencil in each flagellum. Howard C. Berkowitz 22:54, 27 February 2009 (UTC)

Example microbe

Hi John, I took the liberty to adapt the formatting a bit, to facilitate maintenance of these articles here at CZ. I filled the {{EZnotice}} fields with placeholders, please replace these with the correct information. If you have questions or need assistance with the formatting of the course pages, please let me know. Cheers, --Daniel Mietchen 15:22, 4 March 2009 (UTC)

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