version 2 microarray

Elizabeth Harris chlamy at duke.edu
Tue Feb 15 16:10:45 EST 2005

Arthur Grossman has sent the following announcement.  Please share it 
with other people in your lab, since not everyone is subscribed to 
this list/newsgroup.


The version 2 microarray has just been printed and an initial test 
has been performed.  This array consists of about 10,000 
oligonucleotides, each approximately 70 nucleotides long.  Each of 
the oligonucleotide should represent a unique gene.  The set of 
10,000 oligonucleotides was printed twice on the same slide (so each 
slide has duplicates). The oligonucleotides were prepared by 
Integrated DNA Technologies and their quality was checked by mass 
spectroscopy. The set of 'unigenes sequences' used for 
oligonucleotide generation was developed by Monica Jain and Stephan 
Eberhard in my laboratory.  The initial tests, performed by Stephan 
Eberhard, are currently being analyzed; additional testing will be 
performed over the next 2-3 weeks to insure that the quality is high 
and that the .gal file provides the proper sequence locations.  We 
will also provide information describing potentially empty and weak 
spots (there were very few of these in our initial examination). 
While the .gal file with a gene identifier and the sequence of the 
oligonucleotide used at each position on the array will be available, 
it may take a little more time to link whatever annotation is 
available to the individual spots (it will be a priority over the 
next month or two).  We will also put a protocol onto the web site 
(by the end of the month) that we used for the hybridizations and 
will try to address any technical questions that you might have 
concerning the array.  A manuscript describing how the unigene set 
was chosen and oligonucleotide design is in preparation, and we will 
make it available to people using the array as soon as possible.

We will start to take orders for the new array now, and the shipping 
of the arrays will begin by the middle of March (it depends a little 
on how the tests go).  Please send orders to:

Arthur Grossman
Department of Plant Biology
Carnegie Institution of Washington
260 Panama Street
Stanford, CA 94305
Email: arthurg at stanford.edu
Telephone: 650 325-1521 X 212

If you have any questions contact me by Email or phone.


Elizabeth H. Harris

Chlamydomonas Center - new web site: http://www.chlamy.org/
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