|
| Status |
Public on Mar 30, 2014 |
| Title |
CGH: NE3001_v_Wm82 |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
DNA from soybean line NE3001
|
| Organism |
Glycine max |
| Characteristics |
genotype: NE3001
tissue: single plant leaf tissue
strain: NE3001
|
| Growth protocol |
single plant leaf tissue
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA samples were isolated using the Qiagen Plant DNeasy protocol
|
| Label |
Cy3
|
| Label protocol |
500 ng of genomic DNA was labeled and amplified using the NimbleGen Dual-Color Labeling Kit according to the NimbleGen CGH User Guide Ver 9.1.
|
| |
|
| Channel 2 |
| Source name |
DNA from soybean line Wm82-ISU-01
|
| Organism |
Glycine max |
| Characteristics |
genotype: Wm82-ISU-01
tissue: single plant leaf tissue
strain: Wm82-ISU-01
|
| Growth protocol |
single plant leaf tissue
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA samples were isolated using the Qiagen Plant DNeasy protocol
|
| Label |
Cy5
|
| Label protocol |
500 ng of genomic DNA was labeled and amplified using the NimbleGen Dual-Color Labeling Kit according to the NimbleGen CGH User Guide Ver 9.1.
|
| |
|
| |
| Hybridization protocol |
Genomic DNA were hybridized to the microarray according to the manufacturer instructions (NimbleGen CGH User Guide Ver 9.1)
|
| Scan protocol |
Slides were scanned on the NimbleGen MS 200 Scanner (Roche/NimbleGen, Madison,WI) according to the array manufacturer instructions (NimbleGen CGH User Guild Ver 9.1)
|
| Data processing |
The segMNT algorithm in the NimbleScan software (verison 2.5) was used to extract the raw data and normalize into log2 ratio value according to the default settings.
|
| |
|
| Submission date |
Mar 29, 2014 |
| Last update date |
Mar 30, 2014 |
| Contact name |
Robert M Stupar |
| E-mail(s) |
stup0004@umn.edu
|
| Organization name |
University of Minnesota
|
| Department |
Agronomy and Plant Genetics
|
| Street address |
1991 Upper Buford Circle
|
| City |
Saint Paul |
| State/province |
MN |
| ZIP/Postal code |
55108 |
| Country |
USA |
| |
|
| Platform ID |
GPL18500 |
| Series (1) |
| GSE56351 |
CGH: NAM parent lines vs. Wm82-ISU-01 |
|
