User talk:Adenosine/Archive 1

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Welcome to the Wikipedia

Welcome, newcomer!

Here are some useful tips to ease you into the Wikipedia experience:

Also, here are some odds and ends that I find useful from time to time: Talk

Feel free to ask me anything the links and talk pages don't answer. You can most easily reach me by posting on my talk page.

You can sign your name on any page by typing 4 tildes, likes this: ~~~~.

Best of luck, and have fun!

ClockworkSoul 05:57, 21 Feb 2005 (UTC)

Talk page

There is no need to be rude. Correcting my ignorance is enough. JFW | T@lk 06:32, 14 July 2005 (UTC)

User page redirect

Why does your user page redirect to the article? I was hoping to read something about you. Axl 07:40, 19 July 2005 (UTC)

Admire your work! keept it up! Am currently in Highschool.. taking a big interest in Biochemical Biology at the moment. Love the way you have contributed.

LoVe

________________________/ I want to love you!!!!!!/ ________________________/

RuBisCO

--Deryck C. 14:25, 28 August 2005 (UTC)

I LOVE U TOO!!!!!!!!!!

Wikipedia:WikiProject Molecular and Cellular Biology

I am a cell biologist, so I hope you can make a major contribution from the Molecular Biology perspective of things. --JWSchmidt 17:08, 31 August 2005 (UTC)

Thanks for making Image:DNAreplicationModes.png. It looks great. I re-worked Semiconservative replication; I think it now does a much better job of decribing the three models of replication.
"I don't know what your intreset is in biochemistry" --> I was a biochemistry major as an undergraduate. I have taught biochemistry at the medical school level. --JWSchmidt 14:01, 15 September 2005 (UTC)

Phage

Hi, I noticed your phage image doesn't have an image copyright tag. Could you add the appropriate licence. Thanks. --nixie 05:28, 21 September 2005 (UTC)

Re: SCOTW

It's my own policy. As the number of candidates is relatively low, it's an unwise choice to prune the candidates without enough votes. If we really do that pruning, the SCOTW will shut down due to the running out of candidates. Deryck C. 09:57, 30 September 2005 (UTC)

Calvin cycle

Excellent diagram - as a Chemistry lecturer it's so nice to see one with molecules on it instead of three letter acronyms! I'll be using it in my undergrad lectures. Any chance of a similar one for the Hatch Slack (C4) pathway?

Fantastic! If by some miracle you had it done by 15th December I'd use it in this year's course. If not it'll go in next year

It looks great to me! The only thing I can see is that you are missing an "a" in "pyruvate" in the bundle sheath cell. Thanks for this - it's much appreciated

  • Thanks again - the diagrams went down really well with the students!--corylus

SVG

I am rather a fan of your diagrams, they are both clear and informative. Have you considered using the SVG format as opposed to PNG? The format, assuming you know nothing about it (don't take it personally ;)), "is an XML markup language for describing two-dimensional vector graphics, both static and animated (either declarative or scripted). It is an open standard created by the World Wide Web Consortium." Benefits include seemless scale-up (useful for teachers who may wish to use your diagrams in posters/presentations), editability and dynamicism. --Oldak Quill 19:53, 9 December 2005 (UTC)

Salmonella

There are only two species; S.enterica, S.bongori: http://www.scielo.br/scielo.php?pid=S0074-02762003000400013&script=sci_arttext&tlng=en --Eleassar my talk 13:08, 23 December 2005 (UTC)

Wikipedia:Science collaboration of the week

I saw your request on the talk page of this collaboration. I'd like to keep it going, and I set a date for the selection of a new article. I need someone to help out with the updating each Tuesday. Nominations need to be made regularly and we need to get experts and generalists to help in the actual collaboration. I can do some advertising to increase traffic and participation on this page. --Fenice 12:49, 3 January 2006 (UTC)

DNA microarray

Hi thanks for the kind words regarding the microarray image. It is a home-made spotted oligo (70-mer) array. The targets are cDNA direct labeled using the amino-allyl method. Good luck on your arrays! Paphrag | Talk 01:38, 9 February 2006 (UTC)

Voting only once on SCOTW

Hi Adenosine, thanks for your question on SCOTW. I think it is customary to allow people to vote only once. However, I would personally like to see protein purification improved, too, as I understand its central importance to biochemistry, and hence, biology. The SCOTW will resume on a weekly basis, so it should be successful in about ten days' time. Regards, - Samsara contrib talk 13:51, 18 February 2006 (UTC)

Protein purification is Science Collab of the Week

You voted for Protein purification and this article is now the current Science Collaboration of the Month!
Please help to improve it to match the quality of an ideal Wikipedia science article.

Samsara contrib talk 00:33, 28 February 2006 (UTC)

SCOTW: Chronospecies finally makes it!

File:Chemistry-stub.png As a regular contributor to Science Collaboration of the Week, we thought you might like to know that the current collaboration is Chronospecies.
You are receiving this message because your username is listed on our list of regulars. To stop receiving these messages, simply remove your name!

These are the comments on the nomination, which may be helpful in improving the article:

  • Lots of potential for this little article like examples, causes, and general elaboration. Neum 04:38, 17 August 2005 (UTC)
  • A great fact to include would be the shortest time over which speciation of a sexual organism is known to have occurred. —James S. 21:06, 4 January 2006 (UTC)


In other news:

  • SCOTW needs a new maintainer, and could to with a maintenance bot. If you know of anybody who may be interested in either task, please let them know!

Samsara (talk • contribs) 22:58, 20 March 2006 (UTC)

Rosalind Franklin

You have contributed to the Rosalind Franklin article. It has recently had a rewrite and been had a request for peer review. Your comments would be appreciated. Alun 14:11, 15 April 2006 (UTC)

GVRD Maps

RE:GVRD Maps I beleive all GVRD maps (and all BC location maps for that matter) are already replaced (did that 2-3 weeks ago). Qyd(talk)13:39, 17 April 2006 (UTC)

SCOTW

File:Chemistry-stub.png As a regular contributor to Science Collaboration of the Week, we thought you might like to know that the current collaboration is Ammonia.
You are receiving this message because your username is listed on our list of regulars. To stop receiving these messages, simply remove your name!

SVG images problem

i believe it is a problem with wikipedia since it hapens to me too. sometimes changing the size of the image just slightly (from 200px to 210 px) helps. but that doesnt fix things on the galleries. i do believe it has to do with the svg format, even when i have it with png too it is far less often then. i will see what i can do on the cell nucleos page.

one of the reasons why i even with the problem i still use svg format is becouse commons asks for it and becouse i like that the file can be edited again:)LadyofHats 10:17, 28 April 2006 (UTC)

Stem cell

I noticed that you were having some problems with the stem cell article. I have apparently been having the same problem. You should try signing out and making your edits, or making your edits then signing out. See if that helps. I know that this situation is far from ideal, but it seems to work with me.--Nicholas 20:58, 4 May 2006 (UTC)

bacteria

When you last edited the bacteria article you duplicated some of the material that I moved in my previous edit under the "genetic variation" subheading - would you mind re-editing? cheers Jlk3 03:27, 8 May 2006 (UTC)

The Graphic Designer's Barnstar

The Graphic Designer's Barnstar
I award you this marvelous Barnstar for your equally marvelous contributions in the field of bioscience, in particular some excellent diagrams. Keep up the good work! Mushintalk 11:52, 18 May 2006 (UTC)

Large Hadron Collider is Science Collaboration of the Week

File:Chemistry-stub.png As a regular contributor to Science Collaboration of the Week, we thought you might like to know that the current collaboration is Large Hadron Collider.
You are receiving this message because your username is listed on our list of regulars. To stop receiving these messages, simply remove your name!

Samsara (talk • contribs) 11:52, 28 May 2006 (UTC)

Cell signaling project?

I am currently on forced vacation because of illness and have found that editing Wikipedia is a great way to kill time while a recover. I thought that it would be a good idea to set up a cell signaling/signal transduction project to organise and improve the articles on the subject, probably as a daughter project to Wikipedia:WikiProject_Molecular_and_Cellular_Biology. At the moment many (read most) articles on signaling pathways lack diagram, which I think are essential. You have done a lot excellent work on biochemical pathway diagrams. You support would definitely benefit the project if it is to be. Would you be interested to help? Peter Znamenskiy 21:29, 3 June 2006 (UTC)

Excellent! I've just created the article on lipid signaling in the inital effort to build a sample article for the project. It still needs a lot of work, but the mechanism is there and could really use a diagram to go with it. I think it would be a good one to start with. Basicly the cascade goes: RTKs and G proteins (previously activated by GPCRs) activate PLCs. PLCs hydrolise PIP2 in the plasma membrane to DAG and IP3. DAG remains membrane bound and activates PKC, which phosphorylates many cellular proteins. IP3 diffuses to IP3 receptors on the endoplasmic reticulum, triggering the release of calcium from the ER. Calcium contributes to PKC activation and regulates the function of many other proteins, such as calmodulin. The articles for PIP2, IP3 and DAG conviniently have their chemical structures. Let me know if you have any questions! Peter Znamenskiy 13:51, 4 June 2006 (UTC)
There is also a sort of feed-back loop in the pathway, which I added to the article. I'm not sure if it need illustration, it's up to you to decide. Peter Znamenskiy 20:35, 5 June 2006 (UTC)
There's been quite a discussion on what cell signaling diagrams should be like, see Wikipedia_talk:WikiProject_Cell_Signaling, and my talk page. Several Wikipedians are quite enthusiastic about making animated diagrams. Do you have any Macromedia Flash experience? :) Peter Z.Talk 20:58, 19 June 2006 (UTC)

Biopharmaceutical is the Science Collaboration of the Week

You voted for Biopharmaceutical and this article is now the current Science Collaboration of the Week!
Please help to improve it to match the quality of an ideal Wikipedia science article.

Samsara (talk • contribs) 20:45, 12 June 2006 (UTC)

Image:Tevenphage.png

Hi, Adenosine. Thanks for uploading Image:Tevenphage.png. I notice that it contains a typo: the word "icosahedral" is misspelled. I would fix it myself, except I don't have graphics software that will allow me to keep the alpha channel in the PNG. If this was made in a vector image editor, maybe you could also upload an SVG version. —Bkell (talk) 03:32, 2 July 2006 (UTC)

Request for peer-review

Hi there Could you have a look over the new enzyme kinetics section and see if I have missed anything out or become needlessly over-technical? Thanks --TimVickers 02:35, 3 July 2006 (UTC)

Hydrogen is the science collaboration for August 2006

Okay guys, now let's make this an FA!

File:Chemistry-stub.png As a regular contributor to Science Collaboration of the Month, we thought you might like to know that the current collaboration is Hydrogen.
You are receiving this message because your username is listed on our list of regulars. To stop receiving these messages, simply remove your name!

Samsara (talk • contribs) 08:37, 1 August 2006 (UTC)

Molecular and Cellular Biology Wikiproject Newsletter!

We have a new newsletter!
As you've no doubt noticed, there's a new Molecular and Cellular Biology Wikiproject newsletter, which will be sent out about once a month to all WP:MCB members. This newsletter is designed to perform two equally important functions. Firstly (and obviously, perhaps) it will serve to inform the members of the MCB project of such things as important discussions, votes, and article improvement drives. Secondly, and perhaps more importantly, the periodic correspondance will hopefully encourage a greater level of participation from the MCB community by acting as a gentle reminder of many of the the interesting tasks that are awaiting completion. If you prefer to receive this newsletter in the form of a link, or not receive it at all, you can add your name at Wikipedia:WikiProject Molecular and Cellular Biology/Newsletter/Opt Out List.
New project feature: MCB Article Improvement Drive
Have any pet MCB subjects that you think need attention? Have you been longing to be part of a team of like-minded editors working toward a common goal? If so, the MCB Article Improvement Drive is for you! On the first of every month a new article is selected by the MCB with the goal of promoting it to good article status. Make your nominations and cast your votes now, because the first article will be chosen on September 1!
In an effort to organize and motivate the MCB activities, it has recently been proposed that a member of the MCB project take the role of "director", who would be responsible for the administrative side of the MCB project, including but not limited to coordinating recruiting efforts, spamming the newsletter, and maintaining the Article Improvement Drive and MCB Portal. A special discussion/vote page has been created for this proposal, and the vote will run until 23:59, 10 September 2006 (UTC), unless the community decides otherwise.
Odds and ends: what else you got?
Signed...
ClockworkSoul
06:39, Sunday August 27, 2006 (UTC)
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Newsletter concept and layout blatantly "borrowed" from the Esperanza newsletter.

Graphics Design Suggestions

What software do you use to create your diagrams, how long do they take, and how did you learn to operate the software effectively? --Username132 (talk) 16:26, 30 August 2006 (UTC)

SCOTM

File:Chemistry-stub.png As a regular contributor to Science Collaboration of the Month, we thought you might like to know that the current collaboration is Human genome.
You are receiving this message because your username is listed on our list of regulars. To stop receiving these messages, simply remove your name!

NCurse work 06:00, 1 September 2006 (UTC)

This month's WP:MCB Article Improvement Drive article

– ClockworkSoul 22:48, 4 September 2006 (UTC)

Use of common names

i noticed your recent edits at Arabidopsis thaliana. While i agree it is common to see Arabidopsis written in journals i am not sure this is actually correct. i have hunted for an official policy with respect to using Arabidopsis compared to arabidopsis but found none. Nevertheless i did come across disagreements in the community that may still be an ongoing theme.

Firstly, the plant physiology journals guidelines do confirm that the genus can be used as a common name. So arabidopsis can be written in a no italics form, however, they are ambiguous about the use of the 'capital A' or 'small a' since their only use of arabidopsis is at the start of a sentence.

"Common names can be used after first mention. Arabidopsis is an accepted common name for A. thaliana." [1]

Tobias Baskin wrote a short piece in an arabidopsis newsgroup in the 90's:

"There are two different issues, one is italics, the other is capitalization. The rule for capitalization is very simple: the genus name is always capitalized and the species name is never capitalized. No one has any problem with this in writing binomials. But for some reason a habit has developed to retain the capital when the genus name gets used as a common name for the species. In writing "this breathtaking Arabidopsis mutant", the word "Arabidopsis" is being used as the common name, like pea or wheat for those species, and not to refer to the genus, Arabidopsis, and so should not be capitalized. Despite the fact that this habit totally violates a long standing rule of taxonomy, it has become so ingrained that many editors and journals INSIST on the capital. I don't know why this habit started, (laziness?) but the same has happened for drosophila and xenopus, among others, and I don't think at this point that anything can be done."

And in 1994 Plant Molecular Biology Reporter (12(4):300-301) also endorsed using a small a:

Anyone exposed to introductory biology knows that Latin binomials are italicized, the first letter of the genus capitalized and the species lower case: Escherichia coli, Drosophila melanogaster, Arabidopsis thaliana. We find increasingly in scientific journals, however, the unitalicized terms "Drosophila" or "Arabidopsis." It is clear from the context that writers are not referring to the genus as a whole, but to their familiar species, D. melanogaster or A. thaliana. What is happening?
The favorite weed of molecular biologists has become so commonplace in science writing that the Latin formalism can be discarded. "A. thaliana" doesn't roll off the tongue as smoothly as "E. coli," so "arabidopsis" has simply been incorporated into ordinary English--at least, ordinary scientific English.
Other than for taxonomy, the rule is that foreign words are italicized in English: Weltanschauung, de gustibus, nom de plume. There is ample precedent, however, for the incorporation of foreign words into English, whereupon italics melt into plain roman: alter ego, chic, honcho, pizza, siesta, troika.
We need not look beyond the world of plants for more examples: Starting with A, we have abelia, acacia, agapanthus, ajuga, aloe, alyssum, amaranthus, amaryllis, anemone, aster. Each of these flowers are known by ordinary English words, each borrowed from the genus, and each familiar to every gardener. All English speakers are equally familiar with gladiolus, iris, and zinnia. Scientists (and most gardeners) know, however, that a reference to genus and species still gets the full treatment: as in Gladiolus nanus, Iris danfordiae, and Zinnia elegans.
It is equally appropriate, therefore, to write "petunia" or "Petunia hybrida" but note that "petunia" in ordinary English is in lower case; it is not "Petunia."
Welcoming our favorite weed into scientific English, the REPORTER henceforth will print its name as "arabidopsis." On the advice of our consultant in Greek, we offer no recommendations on its pronunciation.

Lastly, reading the international code of botanical nomenclature (ICBN) principles it is clear that they recommend that common names such as arabidopsis use a small first letter.

So what is the current status, 'small a' or 'capital A'? Is use of the capital A just lazyness, as Tobias Baskin suggested, or is this now standard practice? David D. (Talk) 05:39, 6 September 2006 (UTC)

Nuclear transport diagram

Hey, we're looking around for someone to make a diagram for the cell nucleus article. Specifically the nuclear transport section which at the moment may overwhelm the reader in a barrage of acronyms. (To see an eg. of what we're sort of looking for, see the links in my talk page). If you can... ShaiM 08:13, 17 September 2006 (UTC)

That's great. Can't wait to see what you can come up with! Re. that link, the only differencess I think needed, would be to write GEF instead of RCC1, and instead of exportin 1 just write exportin. Less important, it would be nice if in the step RanGTP→RanGDP you could show a Pi coming off, and for RanGDP→RanGTP show GTP displacing a GDP.ShaiM 13:57, 20 September 2006 (UTC)

I think you've got a mistake in your pic, unless I'm confused. But exportin take cargo out of the nucleus. And your diagram shows it taking cargo in. That can be easily fixed by swapping the words nucleus and cytoplasm.

Other than than, I'm sorry to disappoint you, but I like it ;)ShaiM 13:52, 24 September 2006 (UTC)

Also: do you think you could crop your nuclear pore picture, ie. remove the empty space on the right. I don't have convenient access to any editing programs.ShaiM 15:20, 24 September 2006 (UTC)

Thanks for drawing the nucleus diagram. It looks very professional - as all your diagrams :) --Splette Talk 11:03, 19 October 2006 (UTC)

Molecular and Cellular Biology WikiProject Votes

The Molecular and Cellular Biology WikiProject has recently opened two surveys that will help to decide the direction of the project. First, nominations are currently being accepted for the position of coordinator of the project. Second, votes and additional suggestions for the official title of that position are also being taken. As a member of the project, we hope that you'll drop by and voice your opinion. – ClockworkSoul 03:48, 18 September 2006 (UTC)

Request for peer review of Enzyme kinetics

Hi Adenosine. Any feedback on this article to help bring it towards FA status would be a great help. Peer Review. Thank you. TimVickers 18:54, 25 September 2006 (UTC)

Hi Adenosine, if you have any comments or suggestions, this article is up for FA candidacy and the discussion page is here. Thank you.

Science Collaboration of the month

You voted for Karyotype and this article is now the current Science Collaboration of the Month!
Please help to improve it to match the quality of an ideal Wikipedia science article.

NCurse work 06:36, 1 October 2006 (UTC)

This month's WP:MCB Article Improvement Drive article‎

– ClockworkSoul 21:00, 2 October 2006 (UTC)

One more vote for the coordinator of the Molecular and Cellular Biology Wikiproject

Since two of the three editors nominated for Coordinator of the MCB Wikiproject declined their nominations, one more vote has been posted: should the remaining nominee, ClockworkSoul, be named as the coordinator, or should nominations be reopened? Every opinion counts, so please vote! – ClockworkSoul 17:45, 17 October 2006 (UTC)

Molecular and Cellular Biology Wikiproject Newsletter

The project main page has gotten a facelift!
When people visit the project, the very first thing that they see tends to be the project's main page, and with this in mind, the main page has been completely overhauled. To enhance readability the various "goals" sections have been merged, and a detailed "how you can help" section has been added. To increase accessibility for more established members, the links to any resources that were in the main body text have been moved onto the navigation bar on the right. Finally, the whole page has been nicely laid out and given a nice attractive look.
New project feature: peer review
I'm proud to announce the addition of out newest feature: peer review! The MCB peer review feature aims serve as a stepping stone to improve articles to featured article status by allowing editors to request the opinions of other members about articles that they might not otherwise see or contribute to.
Project progress
The article worklist
We’ve had quite a bit of progress on the worklist article in the past month. Not only has the list itself nearly doubled in size from 143 to 365 entries, but an amazing three articles have been advanced to FA status, thanks in great part to the efforts of our very own TimVickers! Remember, the state of the worklist is the closest thing we have to quantifying the progress of the project, so if you get the chance, please take a look at the list, pick a favorite article, and improve it!
Collaboration of the Month
Last month's Collaboration of the Month, cell nucleus, was a terrific success! In one month, the article went from a dismal stub to an A-class article. Many thanks to all of the collaborators who contributed, especially ShaiM, who took on the greatest part of the burden. This month's Collaboration of the Month, adenosine triphosphate, isn't getting nearly the attention of its predecessor, so if you can, please lend a hand!
Finally...
The project has a new coordinator, ClockworkSoul! The role - my role - of coordinator will be to harmonize the project's common efforts, in part by organizing the various tasks required to make the project run as smoothly and completely as possible. Many thanks to those who supported me and those participated in the selection process.
ClockworkSoul, project coordinator
18:16, 21 October 2006 (UTC)
If you wish to opt out of having the newsletter posted on your talk page in the future, you may add yourself to the opt out list
Newsletter concept and layout blatantly "borrowed" from the Esperanza newsletter.

Influenza FAC

Page now nominated as a FAC. Comments and suggestions are welcome on the review page. Thank you. TimVickers 16:27, 24 October 2006 (UTC)

This month's winner is proteasome!

– ClockworkSoul 22:05, 1 November 2006 (UTC)

Science Collaboration of the month

You voted for Antioxidant and this article is now the current Science Collaboration of the Month!
Please help to improve it to match the quality of an ideal Wikipedia science article.

NCurse work 07:46, 1 November 2006 (UTC)

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