Xenopus Community

XenCommunity

Under Construction. Edits and suggestions welcome.

• See Synthetic Biology Community Pages for ideas.
• Edit help for this section or to make your own lab wiki
• Editing is easy with wiki edit instructions.
• It was a wonderful meeting in Japan, especially the meeting summary given by Jerry.

Discussion about having XenWiki on OWW or hosted at [XenBase]

• XenBase could set up and host a wiki for the Xen Community on its new server, or the XenWiki could be here on OWW. I justed added a few thoughts.

Advantages to hosting XenWiki on OWW

• general reasons to join OWW

1. Broader involvement with the non-Xenopus scientific community
2. Xen Labs will learn about other work going on in OWW labs, esp. Synthetic Biology
3. OWW has a lab-tweaked mediawiki
4. very interactive scientists with many interests are managing the OWW site
5. learning curve for wikitricks (editing, etc) is very good because of all the help and organization on OWW. This will help new XenLabs get wikified.
6. don't have to cope with administrative and technical overhead of setting up/maintaining the software and hardware to run the wiki
7. backed up every day -> moving to server with redundant hardware, diesel power backup, multiple server uplinks to internet, 1 hr hardware replacement guarantee, 24hr monitoring... et cetera
8. it does not hurt to try, and then move your wiki later. As long as you are using mediawiki (by far the largest wiki distribution), you can always move pages later. It really is just copying and pasting code. In fact, we could probably export the whole lot for you.

Advantages to hosting XenWiki through the [XenBase] server

1. direct links possible between Xenwiki and XenBase areas
   • this is possible (and probably easier) on OWW as we have experience with other databases (BioBricks), and could probably easily modify it to contain your information.
2. control
3. private spaces -> one could implement a scheme (not technically possible yet, but could be programmed in) where individual pages have different rights. Essentially, giving users the ability to place read/write controls on data.

Discuss and decide what we need so we can ask NIH, get involved with NIH "report" recommendations

• notes from 11th Xen Meeting: Instructions for submitting a proposal NHGRC: see 'white paper' instructions on web site (need the link)
• program announcement due Jan 18 2007, document on web site but applications that do the best produce a resource for the community and also do good science, US labs and non-US labs are considered.

Next Meeting

• will be in Germany, details TBA
• contact committee for ideas for next meeting

Collected from Bruce Blumberg's excellent Xine

• Xenopus Tutorial from Amy Sater
• 1050-marker genetic map for X. tropicalis

Xine in html format, back issues

• [1]
• [2]
• [3]

Links to useful sources of information for Xenopus (in no particular order) general interest and utility

• Trans NIH Xenopus initiative
• Harland lab X. tropicalis site
• Grainger lab X. tropicalis site
• Amy Sater's X. tropicalis genetic map site
• Information on the X. tropicalis listserver
• Peter Vize's Xenopus über database
• Zimmerman Lab X. tropicalis website, database of mutants
• metazome

Genomic resources

• XDB at NIBB - Naoto Ueno's X. laevis EST database
• Xenopus gene collection
• full length collection at the Gurdon Institute
• JGI X. tropicalis genome site with browser and other info
• AXELDB - Christof Niehrs' Xenopus database
• Xenbase

Other

• The Frog Store Isn't the internet wonderful?

<wikionly>

Recent changes

List of abbreviations:

N

This edit created a new page (also see list of new pages)

m

This is a minor edit

b

This edit was performed by a bot

(±123)

The page size changed by this number of bytes

6 April 2020

			N    11:24		BIOL478/S20:SARS-CoV-2 Spike Protein Structure Exercise‎‎ 6 changes history +8,422‎ [Kam D. Dahlquist‎ (6×)]
					11:24 (cur | prev) -64‎ Kam D. Dahlquist talk contribs →‎Exploring the Spike protein Structure: put in correct link
					11:24 (cur | prev) +55‎ Kam D. Dahlquist talk contribs →‎Exploring the Spike protein Structure: start adjusting questions
					11:22 (cur | prev) +4,031‎ Kam D. Dahlquist talk contribs →‎Data & Resources: add DNA sequence
					10:51 (cur | prev) +3,042‎ Kam D. Dahlquist talk contribs →‎Data & Resources: paste in from BIOL 368 F16, gp120
					10:48 (cur | prev) +1,243‎ Kam D. Dahlquist talk contribs just show protein sequences
			N		10:39 (cur | prev) +115‎ Kam D. Dahlquist talk contribs begin page

10:36

Dahlquist:Protocols‎ diffhist +62‎ Kam D. Dahlquist talk contribs →‎COVID-19 Resources: add redlink to new BIOL 478 exercise

00:28

Lee:JC‎ diffhist +22‎ Wooin Lee talk contribs →‎2020

5 April 2020

			22:55		Mking44 Week 11‎‎ 11 changes history +5,157‎ [Mking44‎ (11×)]
					22:55 (cur | prev) +729‎ Mking44 talk contribs →‎SARS-CoV S Elicits Neutralizing Abs Against SARS-CoV-2 S: added results
					22:34 (cur | prev) +1,389‎ Mking44 talk contribs →‎Architecture of the SARS-CoV-2 S Glycoprotein Trimer: added results and new heading
					22:13 (cur | prev) +548‎ Mking44 talk contribs →‎SARS-CoV-2 Recognizes hACE2 with Comparable Affinity to SARS-CoV: added results
					22:07 (cur | prev) +43‎ Mking44 talk contribs →‎Critiques: added critiques
					22:07 (cur | prev) +500‎ Mking44 talk contribs →‎SARS-CoV-2 Recognizes hACE2 with Comparable Affinity to SARS-CoV: added methods
					21:37 (cur | prev) +108‎ Mking44 talk contribs →‎Critiques: added critiques
					21:36 (cur | prev) +560‎ Mking44 talk contribs →‎ACE2 Is an Entry Receptor for SARS-CoV-2: added methods
					21:26 (cur | prev) +565‎ Mking44 talk contribs →‎ACE2 Is an Entry Receptor for SARS-CoV-2: added methods
					21:14 (cur | prev) +37‎ Mking44 talk contribs →‎ACE2 Is an Entry Receptor for SARS-CoV-2: modified
					21:14 (cur | prev) +2‎ Mking44 talk contribs →‎ACE2 Is an Entry Receptor for SARS-CoV-2: added bullet points
					21:13 (cur | prev) +676‎ Mking44 talk contribs →‎Outline: added to outline

			22:50		PhoneticSci‎‎ 16 changes history +829‎ [Shantanu Ghosh‎ (16×)]
			m		22:50 (cur | prev) +7‎ Shantanu Ghosh talk contribs
			m		22:50 (cur | prev) +172‎ Shantanu Ghosh talk contribs
			m		22:43 (cur | prev) -34‎ Shantanu Ghosh talk contribs
					22:36 (cur | prev) +11‎ Shantanu Ghosh talk contribs
			m		22:35 (cur | prev) +30‎ Shantanu Ghosh talk contribs
			m		22:34 (cur | prev) +219‎ Shantanu Ghosh talk contribs
			m		22:27 (cur | prev) +48‎ Shantanu Ghosh talk contribs
			m		22:17 (cur | prev) +8‎ Shantanu Ghosh talk contribs
			m		22:16 (cur | prev) -3‎ Shantanu Ghosh talk contribs
					22:14 (cur | prev) +54‎ Shantanu Ghosh talk contribs
			m		22:12 (cur | prev) +81‎ Shantanu Ghosh talk contribs
					20:51 (cur | prev) +39‎ Shantanu Ghosh talk contribs
			m		20:49 (cur | prev) +37‎ Shantanu Ghosh talk contribs
			m		20:48 (cur | prev) -4‎ Shantanu Ghosh talk contribs
			m		20:47 (cur | prev) -16‎ Shantanu Ghosh talk contribs
			m		20:46 (cur | prev) +180‎ Shantanu Ghosh talk contribs

			16:24		Cdominguez Week 11‎‎ 9 changes history +1,751‎ [Cdominguez‎ (9×)]
					16:24 (cur | prev) +202‎ Cdominguez talk contribs →‎Purpose: add
					16:22 (cur | prev) -10‎ Cdominguez talk contribs →‎Outline: changed two questions into one
					16:21 (cur | prev) +36‎ Cdominguez talk contribs →‎Outline: changed title format
					16:16 (cur | prev) +30‎ Cdominguez talk contribs →‎Outline: answer line
					16:15 (cur | prev) +16‎ Cdominguez talk contribs invoke template
					16:14 (cur | prev) +166‎ Cdominguez talk contribs →‎References: finished adding definitions
					16:11 (cur | prev) +6‎ Cdominguez talk contribs →‎References: spelling correction
					16:08 (cur | prev) +1,205‎ Cdominguez talk contribs →‎References: added references from dic
					16:03 (cur | prev) +100‎ Cdominguez talk contribs →‎Definitions: in text citations

</wikionly>