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Xine Volume 10 - number 1, April 2010
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From Gert Veenstra

Xenopus tropicalis ChIP-chip tile path arrays

Chromatin immunoprecipitation combined with genome tile path microarrays (ChIP-chip) or deep sequencing (ChIP-seq) can be used to study genome-wide epigenetic profiles and the transcription factor binding repertoire in early embryos. Over the last couple of years we have designed and tested Xenopus tropicalis genome-tiling arrays, including a genome-wide 5-array set and a promoter array for ChIP-chip. These designs are now available for anyone to use, and can be purchased from Roche-NimbleGen (will be on their web site shortly, but until then the design files can be used for custom ordering).

For more information see:
Akkers et al. (2010) PLoS ONE, 5, e8820 (doi:10.1371/journal.pone.0008820)
<http://dx.doi.org/10.1371%2Fjournal.pone.0008820>
<http://www.ncmls.nl/gertjanveenstra/chipchip.asp>
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from Peter Vize

I have some free trops for anyone in Canada with an approved animal facility. All are fat and healthy. If you pay the shipping costs they are yours.

There are about 20 female out-bred Nigerians, originally from Nasco and about 20 crystallin-GFP females.
peter

Peter D. Vize
Department of Biological Sciences
University of Calgary
2500 University Drive NW
Calgary, Alberta T2N 1N4
Canada
ph 403 220 8502
fax 403 289 9311
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From Ken Cho

Dear Developmental Biology colleagues,

On behalf of the SCDB meeting organizing committee, it is my pleasure to announce the:

2010 Santa Cruz Developmental Biology Meeting
June 30-July 3rd 2010, UC Santa Cruz, California, USA

We invite you to visit the newly expanded meeting website featuring the confirmed speakers, meeting schedules, registration and abstract submission sites and general travel and site information. 21 talks will be chosen from the abstracts submitted by May 1st. This promises to be an exciting meeting and we look forward to seeing you and other colleagues there this summer!

Registration, housing and abstract deadlines: May 1st, 2010

Main meeting website:
<http://www.scdb2010.com>
Registration and Abstract submission can also be accessed directly:

Participant Registration:
<https://regstg.com/Registration/Introduction.aspx?rid=a18d30d5-8db8-4327-b402-dafc14334ca9>

Abstract:
<http://www2.ucsc.edu/conference/abstract>

Sincerely,
Dominique Bergmann
Ken Cho
Susan Strome
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Mark your calendars


13th International Xenopus Conference

September 12 - 16, 2010

Chateau Lake Louise, Alberta, Canada

Keynote Speaker: Nancy Papalopulu, University of Manchester

The Conference website ( http://www.xenopus2010.org ) is now live and registration is open.

The organizers of the 13th International Xenopus Conference invite you to register for the conference and submit your abstract. The conference will begin on Sunday afternoon, September 12th and will end lunchtime on Thursday September 16th. We have an excellent list of invited speakers, and will also be selecting some abstracts for oral presentations. We encourage as many students to attend as possible and will be awarding $250 travel awards to at least 100 students.

The conference is being held in Banff National Park in the Canadian Rockies at the Fairmont Lake Louise. The venue overlooks the lake and glacier and is surrounded by fantastic hikes. Special rates have been negotiated with the hotel for rooms and meals for the meeting plus for 3 days prior and following, should you wish to spend some additional vacation time at this amazing venue. Guests are welcome. White water rafting, heli-skiing, climbing and other options are available. A hostel is located 2 km down the road for those on a limited budget. Some free time for hiking will be available each afternoon and more adventurous options available on the last afternoon of the conference. Evenings will have full lectures by featured speakers followed by poster sessions.

To attend please visit the conference website at <http://www.xenopus2010.org/> and follow the detailed instructions. All pricing is in Canadian dollars, though US dollars are widely accepted in Canada. Attendees need to 1. register, 2. submit an abstract and 3. arrange accommodations/meals. The cost for accommodations, which includes all meals, coffee breaks etc. runs from CN$217-$311 a night. Some discounted accommodations are available for graduate students. Registration is CN$100. Details on travel arrangements are also available on the web site. Shuttles from the airport to the venue are being negotiated and details will be posted soon.

The conference will showcase all of the latest cutting edge research in Xenopus, encompassing cell, developmental and neurobiology plus of course genomics and genetics. The organizers are working hard to make this the best and most comprehensive Xenopus conference to date, and we very much hope you can join us at Lake Louise in September!

Sincerely,

Peter Vize, Marko Horb, Todd Stukenberg and Leon Browder

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Call for content

Xine could be used to disseminate information and
protocols of general utility to the research community. In order for
this to occur, please send any such contributions to the editor who
will include them in a future (or special) issue of Xine.
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If you wish to read Xine in html format and/or see back issues,
they are available at the following places

http://blumberg-lab.bio.uci.edu/xine/index.htm
http://blumberg.bio.uci.edu/xine/index.htm
http://www.xenbase.org/xine/xine.html
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Links to useful sources of information for Xenopus (in no particular order)

general interest and utility
<http://www.nih.gov/science/models/xenopus/> Trans NIH Xenopus
initiative
<http://tropicalis.berkeley.edu/home/> - Harland lab X. tropicalis site
<http://faculty.virginia.edu/xtropicalis/> - Grainger lab X. tropicalis site
<http://tropmap.biology.uh.edu/> - Amy Sater's X. tropicalis genetic map
<https://list.mail.virginia.edu/mailman/listinfo/troplist> - Information on the
X. tropicalis listserver
<http://list.mail.virginia.edu/pipermail/troplist/> - Troplist archives.
Lots of good information here.
<http://www.xenbase.org/> - Peter Vize's Xenopus ├╝ber database
<http://www.nimr.mrc.ac.uk/devbiol/zimmerman/> - Zimmerman Lab
X. tropicalis website, database of mutants

genomic resources
<http://xenopus.nibb.ac.jp/> - XDB at NIBB - Naoto Ueno's
X. laevis EST database <http://xgc.nci.nih.gov/> - Xenopus gene collection
<http://informatics.gurdon.cam.ac.uk/online/xt-fl-db.html> - full length
collection at the Gurdon Institute
<http://genome.jgi-psf.org/Xentr4/Xentr4.home.html> - JGI X. tropicalis
genome site with browser and other info
<http://www.dkfz-heidelberg.de/molecular_embryology/axeldb.htm>
AXELDB - Christof Niehrs' Xenopus database
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Subscription information

I have constructed the Xine mailing list from serveral sources. As
always, if you are not on the list and wish to be, want to update your
e-mail address or would rather not receive it at all, please contact
Bruce Blumberg ( mailto:blumberg@uci.edu ).

Until next time,

Bruce

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