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| Status |
Public on Sep 10, 2008 |
| Title |
Screen of oligonucleotides for microarray transcriptome analysis of Populus deltoides and P. trichocarpa |
| Platform organism |
Populus trichocarpa |
| Sample organisms |
Populus trichocarpa x Populus deltoides; Populus deltoides |
| Experiment type |
Expression profiling by genome tiling array
|
| Summary |
The purpose of this study was to evaluate a set of 6-7 long oligonucleotide probes developed based on the sequence of the Populus trichocarpa genome, that are optimal for gene expression analysis of P. deltoides and a hybrid of P. deltoides and P. trichocarpa. To evaluate these probes, multiple tissues (differentiating xyle, leaf and whole-root) of a pure P. deltoides and a hybrid (P. deltoides X P. trichocarpa) were transcript profiled for identification of one or more probes that are not biased towards one or the other genotype.
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| Overall design |
Three vegetative tissues (root, leaf and xylem) harvested from two biological replicates from each genotypes of Populus deltoides (genotype D124) and a Populus hybrid (P. deltoides X P. trichocarpa, genotype 52-225) were hybridized separately to microarrays in a single-dye experiment.
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| Contributor(s) |
Kirst M, Drost D, Novaes E |
| Citation missing |
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| |
| Submission date |
Aug 19, 2008 |
| Last update date |
Mar 20, 2012 |
| Contact name |
Matias Kirst |
| E-mail(s) |
mkirst@ufl.edu
|
| Phone |
352-8460900
|
| Organization name |
University of Florida
|
| Department |
|
| Street address |
|
| City |
Gainesville |
| State/province |
FL |
| ZIP/Postal code |
32611 |
| Country |
USA |
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| Platforms (1) |
| GPL7169 |
Populus trichocarpa microarray |
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| Samples (12)
|
| GSM313718 |
Populus deltoides X Populus trichocarpa Leaf Sample1 |
| GSM313719 |
Populus deltoides X Populus trichocarpa Root Sample1 |
| GSM313720 |
Populus deltoides X Populus trichocarpa Xylem Sample1 |
| GSM313773 |
Populus deltoides X Populus trichocarpa Leaf Sample5 |
| GSM313774 |
Populus deltoides X Populus trichocarpa Root Sample5 |
| GSM313775 |
Populus deltoides X Populus trichocarpa Xylem Sample6 |
| GSM313776 |
Populus deltoides Leaf Sample12 |
| GSM313777 |
Populus deltoides Root Sample12 |
| GSM313778 |
Populus deltoides Xylem Sample12 |
| GSM313779 |
Populus deltoides Leaf Sample17 |
| GSM313780 |
Populus deltoides Root Sample17 |
| GSM313799 |
Populus deltoides Xylem Sample17 |
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| Relations |
| BioProject |
PRJNA112971 |
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