User talk:John J. Dennehy: Difference between revisions

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==Some workgroup help==
== Student microbe list? ==
{{workgroup introduction}}


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


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)
== [[Example microbe]] ==


Wonderful to see you at work, so quickly. [[User:Nancy Sculerati|Nancy Sculerati]] 15:27, 27 April 2007 (CDT)
Hi John,
I took the liberty to adapt the formatting a bit, to facilitate maintenance of these articles here at CZ. I filled the {{tl|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, --[[User:Daniel Mietchen|Daniel Mietchen]] 15:22, 4 March 2009 (UTC)
:Please take a look at [http://forum.citizendium.org/index.php?topic=2597.new this forum thread] and comment. Thanks! --[[User:Daniel Mietchen|Daniel Mietchen]] 12:05, 11 March 2009 (UTC)
::Please also take a look at [[Special:WhatLinksHere/CZ:Biol_201:_General_Microbiology/EZnotice]] (e.g. [[Naegleria fowleri]]) and revert or modify [http://en.citizendium.org/wiki?title=CZ:Biol_201:_General_Microbiology/EZnotice&curid=100102915&diff=100462198&oldid=100462192 this edit] once you're done. --[[User:Daniel Mietchen|Daniel Mietchen]] 14:56, 11 March 2009 (UTC)


== Image problem ==
== FYI ==


{{badimage}} [[User:Stephen Ewen|Stephen Ewen]] 20:14, 27 April 2007 (CDT)
I made [http://en.citizendium.org/wiki?title=CZ%3AStudent_Microbe_list&diff=100465435&oldid=100465434 this] change to reflect the new account that she now uses. [[User:D. Matt Innis|D. Matt Innis]] 19:30, 18 March 2009 (UTC)
:Thanks you've been a great help![[User:John J. Dennehy|John J. Dennehy]] 22:02, 18 March 2009 (UTC)


==Hellow==
==What is a micriobe?==
Hi John, good to see you trying this out on the class again. I'd be interested to know the feed back you are getting from the students. As an aside, what is the definition you use for a microbe?  I notice that a few of your students are choosing mushrooms and one even has C. elegans.  Is that pushing the threshold on the size side, or is that within the current usage? [[User:Chris Day|Chris Day]] 19:37, 18 March 2009 (UTC)
:OK, I answered my own question. http://www.microbeworld.org/know/largest.aspx They're bigger than I thought. [[User:Chris Day|Chris Day]] 19:42, 18 March 2009 (UTC)
::Hi Chris, I will probably create a page asking students to write a bit about their experience. It would be great to get some first hand feedback. As far as what is a microbe, definitions are often hard to pin down in biology. Biological systems often fall along continuums rather than discrete black/white categories. The classic definition is single-celled organisms not visible to the naked eye, but as you can see what that entails is quite expansive. I'm keeping a rather broad perspective, and fungi and C. elegans are acceptable. [[User:John J. Dennehy|John J. Dennehy]] 22:01, 18 March 2009 (UTC)


Another microbiologist-geneticist. Fabulous. Welcome to the wiki. [[User:David Tribe|David Tribe]] 19:32, 27 April 2007 (CDT)
== please consider approving the affiliation between the Biology Workgroup and Microbiology subgroup ==


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)
Apparently, I need an editor to say that the biology workgroup can be "affiliated" with the Microbiology subgroup which I have created. Please consider saying this is ok as a biology editor.  I also created an Infectious Disease subgroup, which I think will have different goals compared to a microbiology subgroup, and you can consider approving that as well for the biology affiliation if you would like. Some people will argue it is redundant, I don't think it is. [[User:Tom Kelly|Tom Kelly]] 06:17, 4 April 2009 (UTC)
:http://en.citizendium.org/wiki/Category_talk:Biology_Affiliated_Subgroups


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).
::Of course! Where should I put my approval? The talk page? Also the vast majority of microbes are non pathogenic so it is entirely appropriate that there be a distinction between microbiology and infectious diseases. [[User:John J. Dennehy|John J. Dennehy]] 13:11, 4 April 2009 (UTC)


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)
:::Given the number of elected pathogens, should the Politics workgroup sign off on Infectious Disease? :-) [[User:Howard C. Berkowitz|Howard C. Berkowitz]] 14:03, 4 April 2009 (UTC)


:: 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)
== BW-related articles ==


::::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).
Taking the defined articles from [[Select Agent Program/Agents]], I tried to make them consistent with the new subgroups for microbiology and infectious disease. Tentativelly, I added the Military subgroup since these are organisms with declared biological warfare potential; I have not yet so changed the templates to include the additional organisms in [[CDC Bioterrorism Agents-Disease list]], but will do so if there is consensus.
:::: 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 ==
The Military assignment is a separate argument from Microbiology and Infectious Disease.


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:
Would you consider it worth making it a priority, to assist your Eduzendium project, if I returned to build out [[biological weapon]]?


*[[:Image:Phage_lifecycle.gif]]
[[User:Howard C. Berkowitz|Howard C. Berkowitz]] 18:04, 4 April 2009 (UTC)
*[[: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)
== A brief tutorial into CZ ==


: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)
Hi John,
please take a look at the following series of edits I made to explain the workings of CZ to one of your students.
# [http://en.citizendium.org/wiki?title=Vibrio_fischeri&curid=100105432&diff=100473528&oldid=100473527 preparation of article]
# [http://en.citizendium.org/wiki?title=Template:Vibrio_fischeri/Metadata&curid=100105433&action=history create the article's metadata]
# [http://en.citizendium.org/wiki?title=Talk:Vibrio_fischeri&curid=100105434&action=history create the article's talk page]
# [http://en.citizendium.org/wiki?title=Vibrio_fischeri&curid=100105432&diff=100473531&oldid=100473528 start adding content]
# [http://en.citizendium.org/wiki?title=Vibrio_fischeri&curid=100105432&diff=100473532&oldid=100473531 link your article to other articles via intrawiki links]
# [http://en.citizendium.org/wiki?title=Vibrio_fischeri/Related_Articles&curid=100105435&action=history put your article in context via the Related Articles subpage]  
# [http://en.citizendium.org/wiki?title=CZ:Start_Article&curid=100010555&action=history clean up any earlier tries that did not work out]
# [http://en.citizendium.org/wiki?title=Brochothrix_thermosphacta&diff=prev&oldid=100462100 if the course is over, remove the EZ notice]


==Suggestion==
I hope these may be useful for others.
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)
Cheers, --[[User:Daniel Mietchen|Daniel Mietchen]] 14:42, 11 April 2009 (UTC)Daniel


==phage==
:I'd add that metadata can be complex from the beginner; I and others would be happy to help set up that CZ overhead. Errors in metadata can have effects in other places in the Wiki, so if help is needed, a note on a user page, an email to constables@citizendium.org, etc., can get help. I've been creating some. As I mentioned, it may also be helpful for CZ regulars to add to Related Articles, as they may know what is already here, naming conventions, etc. [[User:Howard C. Berkowitz|Howard C. Berkowitz]] 17:18, 11 April 2009 (UTC)
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)
==You've been Nominated!==
Someone has nominated you for a position in the new Citizendium. They have noticed you're dedication to the project and like what they see. To be listed on the ballot for the position, it is necessary that you accept the nomination on the [[Archive:Citizendium Ballot for the Management Council|Nomination page].  Just place accept next to your name along with the four tildes. The nomination period will close at midnight October 7 (UTC).  Article 54 of the new charter details the requirements:


(Dont forget to use you 4~s)  [[User:David Tribe|David Tribe]] 18:01, 16 May 2007 (CDT)
===Article 54===


*In conjunction with the Declaration of the Editor-in-Chief regarding the effectivity of this Charter, there shall be a call for nominations for the following offices: Managament Council (five seats), Editorial Council (seven seats), Managing Editor (one), Ombudsman (one).  This shall be the effective date of the Charter.
*Any Citizen may nominate candidates for these positions. 
*Nominations shall be collected and collated by the Chief Constable.
*Nominations shall be accepted no more than fourteen days after the effective date of the charter; the ballot shall be available starting on the twentieth day after the effective date  of the charter; the election shall be completed no more than twenty-eight days after the effective date of the charter; all elected officials shall begin their term of office on the thirtieth day after the effective date of the charter. 
*Only candidates who accept their nomination shall be eligible to appear on the ballot. Nominated candidates can accept nominations for no more than two official functions.  Accepting a nomination serves as a declaration of commitment, in the case of being elected, to fulfill this function until the limit of the term.
*All positions shall be elected by a simple majority of the voting citizenry. In the case of a tie, an immediate run-off election shall be held.
*In the event that a candidate has been elected for two functions, the candidate shall declare which one he or she accepts within three days of announcement of the election results. In the event that such a declaration has not been made during this period, the candidate shall be considered elected for the position for which the nomination was accepted first. The same procedure applies to a reserve member that becomes elected by a seat being vacated this way.


orright its up. Expect a week of annoying but useful comments (but quite like 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 It would hamper me being seen as 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)
If you would like to make a statement to help voters, click the "Statement" link to the right of your name. 
 
Thanks again for the commitment you're making to assure that Citizendium becomes the premier quality online source we all have envisioned.
 
[[User:D. Matt Innis|D. Matt Innis]] 13:01, 3 October 2010 (UTC)
 
== Returning to Citizendium: an update on the project and how to get involved ==
 
Hello - some time ago you became part of the Citizendium project, but we haven't seen you around for a while. Perhaps you'd like to update your [[User:John J. Dennehy|public biography]] or check on the progress of [http://en.citizendium.org/wiki/Special:Contributions/John_J._Dennehy any pages you've edited so far].
 
Citizendium now has over [[:Category:CZ Live|16,000 articles]], with more than [[:Category:Approved Articles|150 approved]] by specialist [[CZ:The Editor Role|Editors]] such as yourself, but our contributor numbers require a boost. We have an initiative called '[[CZ:Eduzendium|Eduzendium]]' that brings in students enrolled on university courses to write articles for credit, but we still need more Editors across the community to write, discuss and approve material. There are some [[:Category:Biology_Developed_Articles|developed Biology articles]] that could be improved and approved, and some [[CZ:Biology_Workgroup#High_priority_articles|high-priority articles]] that we don't have yet. You can also create new articles via [[CZ:Start_Article|this guide]], and contribute to some Biology pages that have been [http://en.citizendium.org/wiki?title=Special:RecentChangesLinked&target=Category%3ABiology_tag recently edited] - or to [http://en.citizendium.org/wiki/Special:RecentChanges any others] on Citizendium, since you're a general [[CZ:The Author Role|Author]] as well as a specialist Editor. You may like to contribute to discussions in the [http://forum.citizendium.org forums], and might consider running for an elected position on the [[CZ:Management Council|Management]] and [http://ec.citizendium.org Editorial] Councils that oversee the project.
 
If you have any questions, let me know via my [[User talk:John Stephenson|Talk page]] or by leaving a message below this one. Thank you for signing up and reading this update; I hope that you will [http://en.citizendium.org/wiki?title=Special:UserLogin&returnto=Special:MyTalk look in] on our community soon. [[User:John Stephenson|John Stephenson]] 13:11, 19 November 2011 (UTC)

Latest revision as of 02:52, 8 March 2024

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)

Please take a look at this forum thread and comment. Thanks! --Daniel Mietchen 12:05, 11 March 2009 (UTC)
Please also take a look at Special:WhatLinksHere/CZ:Biol_201:_General_Microbiology/EZnotice (e.g. Naegleria fowleri) and revert or modify this edit once you're done. --Daniel Mietchen 14:56, 11 March 2009 (UTC)

FYI

I made this change to reflect the new account that she now uses. D. Matt Innis 19:30, 18 March 2009 (UTC)

Thanks you've been a great help!John J. Dennehy 22:02, 18 March 2009 (UTC)

What is a micriobe?

Hi John, good to see you trying this out on the class again. I'd be interested to know the feed back you are getting from the students. As an aside, what is the definition you use for a microbe? I notice that a few of your students are choosing mushrooms and one even has C. elegans. Is that pushing the threshold on the size side, or is that within the current usage? Chris Day 19:37, 18 March 2009 (UTC)

OK, I answered my own question. http://www.microbeworld.org/know/largest.aspx They're bigger than I thought. Chris Day 19:42, 18 March 2009 (UTC)
Hi Chris, I will probably create a page asking students to write a bit about their experience. It would be great to get some first hand feedback. As far as what is a microbe, definitions are often hard to pin down in biology. Biological systems often fall along continuums rather than discrete black/white categories. The classic definition is single-celled organisms not visible to the naked eye, but as you can see what that entails is quite expansive. I'm keeping a rather broad perspective, and fungi and C. elegans are acceptable. John J. Dennehy 22:01, 18 March 2009 (UTC)

please consider approving the affiliation between the Biology Workgroup and Microbiology subgroup

Apparently, I need an editor to say that the biology workgroup can be "affiliated" with the Microbiology subgroup which I have created. Please consider saying this is ok as a biology editor. I also created an Infectious Disease subgroup, which I think will have different goals compared to a microbiology subgroup, and you can consider approving that as well for the biology affiliation if you would like. Some people will argue it is redundant, I don't think it is. Tom Kelly 06:17, 4 April 2009 (UTC)

http://en.citizendium.org/wiki/Category_talk:Biology_Affiliated_Subgroups
Of course! Where should I put my approval? The talk page? Also the vast majority of microbes are non pathogenic so it is entirely appropriate that there be a distinction between microbiology and infectious diseases. John J. Dennehy 13:11, 4 April 2009 (UTC)
Given the number of elected pathogens, should the Politics workgroup sign off on Infectious Disease? :-) Howard C. Berkowitz 14:03, 4 April 2009 (UTC)

BW-related articles

Taking the defined articles from Select Agent Program/Agents, I tried to make them consistent with the new subgroups for microbiology and infectious disease. Tentativelly, I added the Military subgroup since these are organisms with declared biological warfare potential; I have not yet so changed the templates to include the additional organisms in CDC Bioterrorism Agents-Disease list, but will do so if there is consensus.

The Military assignment is a separate argument from Microbiology and Infectious Disease.

Would you consider it worth making it a priority, to assist your Eduzendium project, if I returned to build out biological weapon?

Howard C. Berkowitz 18:04, 4 April 2009 (UTC)

A brief tutorial into CZ

Hi John, please take a look at the following series of edits I made to explain the workings of CZ to one of your students.

  1. preparation of article
  2. create the article's metadata
  3. create the article's talk page
  4. start adding content
  5. link your article to other articles via intrawiki links
  6. put your article in context via the Related Articles subpage
  7. clean up any earlier tries that did not work out
  8. if the course is over, remove the EZ notice

I hope these may be useful for others.

Cheers, --Daniel Mietchen 14:42, 11 April 2009 (UTC)Daniel

I'd add that metadata can be complex from the beginner; I and others would be happy to help set up that CZ overhead. Errors in metadata can have effects in other places in the Wiki, so if help is needed, a note on a user page, an email to constables@citizendium.org, etc., can get help. I've been creating some. As I mentioned, it may also be helpful for CZ regulars to add to Related Articles, as they may know what is already here, naming conventions, etc. Howard C. Berkowitz 17:18, 11 April 2009 (UTC)

You've been Nominated!

Someone has nominated you for a position in the new Citizendium. They have noticed you're dedication to the project and like what they see. To be listed on the ballot for the position, it is necessary that you accept the nomination on the [[Archive:Citizendium Ballot for the Management Council|Nomination page]. Just place accept next to your name along with the four tildes. The nomination period will close at midnight October 7 (UTC). Article 54 of the new charter details the requirements:

Article 54

  • In conjunction with the Declaration of the Editor-in-Chief regarding the effectivity of this Charter, there shall be a call for nominations for the following offices: Managament Council (five seats), Editorial Council (seven seats), Managing Editor (one), Ombudsman (one). This shall be the effective date of the Charter.
  • Any Citizen may nominate candidates for these positions.
  • Nominations shall be collected and collated by the Chief Constable.
  • Nominations shall be accepted no more than fourteen days after the effective date of the charter; the ballot shall be available starting on the twentieth day after the effective date of the charter; the election shall be completed no more than twenty-eight days after the effective date of the charter; all elected officials shall begin their term of office on the thirtieth day after the effective date of the charter.
  • Only candidates who accept their nomination shall be eligible to appear on the ballot. Nominated candidates can accept nominations for no more than two official functions. Accepting a nomination serves as a declaration of commitment, in the case of being elected, to fulfill this function until the limit of the term.
  • All positions shall be elected by a simple majority of the voting citizenry. In the case of a tie, an immediate run-off election shall be held.
  • In the event that a candidate has been elected for two functions, the candidate shall declare which one he or she accepts within three days of announcement of the election results. In the event that such a declaration has not been made during this period, the candidate shall be considered elected for the position for which the nomination was accepted first. The same procedure applies to a reserve member that becomes elected by a seat being vacated this way.

If you would like to make a statement to help voters, click the "Statement" link to the right of your name.

Thanks again for the commitment you're making to assure that Citizendium becomes the premier quality online source we all have envisioned.

D. Matt Innis 13:01, 3 October 2010 (UTC)

Returning to Citizendium: an update on the project and how to get involved

Hello - some time ago you became part of the Citizendium project, but we haven't seen you around for a while. Perhaps you'd like to update your public biography or check on the progress of any pages you've edited so far.

Citizendium now has over 16,000 articles, with more than 150 approved by specialist Editors such as yourself, but our contributor numbers require a boost. We have an initiative called 'Eduzendium' that brings in students enrolled on university courses to write articles for credit, but we still need more Editors across the community to write, discuss and approve material. There are some developed Biology articles that could be improved and approved, and some high-priority articles that we don't have yet. You can also create new articles via this guide, and contribute to some Biology pages that have been recently edited - or to any others on Citizendium, since you're a general Author as well as a specialist Editor. You may like to contribute to discussions in the forums, and might consider running for an elected position on the Management and Editorial Councils that oversee the project.

If you have any questions, let me know via my Talk page or by leaving a message below this one. Thank you for signing up and reading this update; I hope that you will look in on our community soon. John Stephenson 13:11, 19 November 2011 (UTC)