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| Status |
Public on Jun 12, 2008 |
| Title |
Expression profiling of cotton (Gossypium barbadense L. Pima S7) fiber transcriptome during the development |
| Platform organism |
Gossypium arboreum |
| Sample organism |
Gossypium barbadense |
| Experiment type |
Expression profiling by array
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| Summary |
To gain novel insights into the molecular mechanisms underlying Pima cotton fiber quality, expression profiling of the Pima fiber transcriptome was performed as a function of development. The profiling was performed at 6 developmental time points: 8, 11, 14, 17, 21, and 24dpa. The expression profiling using long oligonucleotide microarray showed dynamic changes to the fiber transcriptome that correlate to morphogenesis, and biological cellular processes. Differentially expressed genes were identified by being differentially regulated at various stages of fiber development, and they were used to develop stage-specific regulation patterns that correlate the dynamics of gene expression to fiber morphogenesis.
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| Overall design |
A bi-directional double loop hybridization (Kerr and Churchill, 2001) with dye swap experimental design encompassing a total of 28 hybridizations was employed to maximize discovery of significant changes between developmental stages. Self-hybridization controls were conducted to evaluate both within-array correlation and dye bias.
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| Contributor(s) |
Alabady MS, Arpat BA, Elshihy OM, Wilkins TA |
| Citation(s) |
18570655 |
| |
| Submission date |
Jun 04, 2008 |
| Last update date |
Mar 19, 2012 |
| Contact name |
Thea A Wilkins |
| URL |
http://genomics.ttu.edu
|
| Organization name |
Texas Tech University
|
| Department |
Plant and Soil Sciences
|
| Lab |
Plant Functional Genomics Lab
|
| Street address |
2500 Broadway,Campus Box 42122
|
| City |
Lubbock |
| State/province |
TX |
| ZIP/Postal code |
TX 79409 |
| Country |
USA |
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| Platforms (1) |
| GPL6917 |
Cotton Fiber Oligonucleotide Microarray.V1 |
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| Samples (6)
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| GSM296850 |
PimaS7 Cotton fiber Expression at 8dpa relative to 5dpa |
| GSM296851 |
PimaS7 Cotton fiber Expression at 11dpa relative to 5dpa |
| GSM296852 |
Pima S7 Cotton fiber Expression at 14dpa relative to 5dpa |
| GSM296853 |
Pima S7 Cotton fiber Expression at 17dpa relative to 5dpa |
| GSM296854 |
Pima S7 Cotton fiber Expression at 21dpa relative to 5dpa |
| GSM296855 |
Pima S7 Cotton fiber Expression at 24dpa relative to 5dpa |
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| Relations |
| BioProject |
PRJNA106095 |
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