|
| Status |
Public on Jul 25, 2009 |
| Title |
TM1 Fiber 2 DPA (58057) |
| Sample type |
RNA |
| |
|
| Source name |
Fiber 2 DPA
|
| Organism |
Gossypium hirsutum |
| Characteristics |
genome: AD1
polyploid level: 4x
tissue & age: Fiber 2 DPA
soil type: Bessey Mix
soil mix: "50% Canadian Spagum Peat : 40% Coarse Perlite : 10% Mineral Soil (""Iowa Dirt"")"
date planted: 2/2/2008
planting location: "Pohl Conservatory, Bessey Hall, Ames, IA"
average temperature (c): 80 daytime - 70 nighttime
day light regime: ambient daylight
light sources: sun and 10 hour day sodium supplemental lighting
night duration: natural
age at harvest: 20 weeks
developmental stage at harvest: Mature plant
harvest time(hours after daybreak): 5
harvested tissue type: Fiber
number of plants harvested: 5
|
| Biomaterial provider |
The Wendel Lab at Iowa State University
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Hot-borate / Li precipitation method("Wilkins and Smart, 1996")
|
| Label |
Cy3
|
| Label protocol |
Labelling by NimbleGen
|
| |
|
| Hybridization protocol |
Hybridization by NimbleGen
|
| Scan protocol |
Scanning by NimbleGen
|
| Description |
TM1 Fiber 2 DPA (58057)
|
| Data processing |
The procedure for spot detection was performed by NimbleGen. All values of the 42,429 genes with 7 redundant probes per gene were median polished with Tukey's biweight prior to performing a standard mixed linear model (LM) analysis of the data for expression differences between each fiber developmental stage within and between accessions of G. barbadense.
|
| |
|
| Submission date |
Jul 24, 2009 |
| Last update date |
Jul 24, 2009 |
| Contact name |
Alan R Gingle |
| E-mail(s) |
agingle@uga.edu
|
| Organization name |
University of Georgia
|
| Department |
Center for Applied Genetics Technologies
|
| Lab |
Gingle lab
|
| Street address |
111 Riverbend Rd.
|
| City |
Athens |
| State/province |
GA |
| ZIP/Postal code |
30602 |
| Country |
USA |
| |
|
| Platform ID |
GPL6989 |
| Series (1) |
| GSE17084 |
Parallel expression evolution of oxidative stress-related genes in fiber of wild/domesticated & diploid/polyploid cotton |
|
| Data table header descriptions |
| ID_REF |
|
| SEQ_ID |
Sequence identifier |
| VALUE1 |
Signal intensity for probe 1 |
| VALUE2 |
Signal intensity for probe 2 |
| VALUE3 |
Signal intensity for probe 3 |
| VALUE4 |
Signal intensity for probe 4 |
| VALUE5 |
Signal intensity for probe 5 |
| VALUE6 |
Signal intensity for probe 6 |
| VALUE7 |
Signal intensity for probe 7 |
| VALUE |
Mean value of probe signal intensities |
