|
| Status |
Public on Dec 31, 2008 |
| Title |
UC317 |
| Sample type |
genomic |
| |
|
| Source name |
UC317
|
| Organism |
Lactococcus lactis subsp. lactis |
| Characteristics |
strain UC317
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA was isolated using the QiaAmp DNA Mini Kit (Qiagen GmbH, Hilden, Germany) according to the manufacturer's protocol for the isolation of genomic DNA from Gram-positive bacteria.
|
| Label |
Cy3
|
| Label protocol |
According to standard NimbleGen protocol (http://www.nimblegen.com/products/cgh/index.html)
|
| |
|
| Hybridization protocol |
According to standard NimbleGen protocol (http://www.nimblegen.com/products/cgh/index.html)
|
| Scan protocol |
According to standard NimbleGen protocol (http://www.nimblegen.com/products/cgh/index.html)
|
| Description |
UC317 is a L.lactis subsp. lactis strain isolated from dairy products.
|
| Data processing |
R package "fields" was used to normalize hybridisation data. Initially, a smooth three dimensional surface was fitted to the data. For each individual spot the height of the surface at the position of that spot is then subtracted from its raw signal intensity value. The height of this surface at a specific position represents the local average signal. In order to avoid negative values the overall mean of the smooth fit is added to all signal intensities.
|
| |
|
| Submission date |
Sep 01, 2008 |
| Last update date |
Dec 15, 2008 |
| Contact name |
Jumamurat Bayjanov |
| Organization name |
CMBI
|
| Street address |
Geert-Groteplein
|
| City |
Nijmegen |
| ZIP/Postal code |
6500 HB |
| Country |
Netherlands |
| |
|
| Platform ID |
GPL7231 |
| Series (1) |
| GSE12638 |
CGH analysis of 39 Lactococcus lactis strains. |
|
