|
| Status |
Public on Apr 01, 2011 |
| Title |
SC05 vs. 3D7 CGH Hybe 2 |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
SC05 DNA
|
| Organism |
Plasmodium falciparum |
| Characteristics |
strain: SC05
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Phenol-chloroform extraction (Moll et al. 2008. Methods in Malaria Research. MR4/ATCC.)
|
| Label |
Cy3
|
| Label protocol |
Used NimbleGen's standard labeling protocol (http://www.nimblegen.com/products/lit/lit.html) with the following modification: used a custom 65% AT random nonamer mix from TriLink Biotechnologies
|
| |
|
| Channel 2 |
| Source name |
3D7 DNA
|
| Organism |
Plasmodium falciparum |
| Characteristics |
strain: 3D7
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Phenol-chloroform extraction (Moll et al. 2008. Methods in Malaria Research. MR4/ATCC.)
|
| Label |
Cy5
|
| Label protocol |
Used NimbleGen's standard labeling protocol (http://www.nimblegen.com/products/lit/lit.html) with the following modification: used a custom 65% AT random nonamer mix from TriLink Biotechnologies
|
| |
|
| |
| Hybridization protocol |
Used NimbleGen's standard CGH hybridization protocol (http://www.nimblegen.com/products/lit/lit.html) with the following modification: used 1x Denhardt's Solution in place of sample tracking control
|
| Scan protocol |
Arrays were scanned at 2um on a NimbleGen MS200 scanner with autogain per manufacturer's instructions (http://www.nimblegen.com/products/lit/lit.html)
|
| Data processing |
Arrays were processed using NimbleScan v2.5 per manufacturer's instructions (http://www.nimblegen.com/products/lit/lit.html)
|
| |
|
| Submission date |
Mar 31, 2011 |
| Last update date |
Apr 01, 2011 |
| Contact name |
Michael Ferdig |
| E-mail(s) |
ferdig.1@nd.edu
|
| Phone |
(574)631-9973
|
| Organization name |
University of Notre Dame
|
| Department |
Biological Sciences
|
| Lab |
Ferdig Lab
|
| Street address |
280 Galvin Life Science
|
| City |
Notre Dame |
| State/province |
IN |
| ZIP/Postal code |
46556 |
| Country |
USA |
| |
|
| Platform ID |
GPL13355 |
| Series (1) |
| GSE28287 |
Plasmodium falciparum CNV-SNP chip optimization |
|
