[Coral-List] Free share: Porites stress sequence/gene expression data
mikhail matz
matz at mail.utexas.edu
Mon Feb 11 23:53:59 EST 2008
Dear colleagues,
As a part of our new policy on data handling we posted the raw gene
expression and sequence data from our experiments on Porites stress:
http://www.bio.utexas.edu/research/matz%5Flab/matzlab/Data.html
We believe that the raw genomics data should be shared with the
community as soon as they are available. Such data themselves are
useless without the proper analysis, and the more groups participate
in it the more angles will be covered .
In Porites lobata, we analyzed bleaching induced by elevated heat-
light over 12 days and inflammation/regeneration response (also long-
term, 10-14 days) after mechanical injury. We also treated Porites
compressa with 40 uM CuSO4 overnight. The treatment and control
samples were subjected to two-way Suppression Subtractive
Hybridization (SSH) to enrich by up- or down-regulated transcripts,
and the resulting cDNA clones (3840 total from the three two-fold SSH
experiments) were spotted on a membrane array and hybridized with
cDNA from three biological replicates of the same experiments. Some
300 clones have been sequenced (more coming). The posted data include
raw array hybridization results (spot intensity counts), sequences
and BLASTX results.
While we are working on our own analysis of these data, we would like
to invite everybody interested to take a look from their own
perspective. If you find our data useful for your research, we would
appreciate a line of acknowledgment sounding something like "thanks
to the lab of Mikhail Matz at the University of Texas at Austin for
sharing the sequence [and/or gene expression] data", plus our funding
sources.
We will uphold the immediate data sharing policy in the future and
invite everybody involved in coral genomics to join us. The progress
of coral genomics will be much faster this way.
Eli Meyer ( elimeyer at mail.utexas.edu )
Misha Matz ( matz at mail.utexas.edu )
Integrative Biology
University of Texas at Austin
http://www.bio.utexas.edu/research/matz_lab
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