|
| Status |
Public on May 07, 2008 |
| Title |
Cells grown with benzoate #1 |
| Sample type |
RNA |
| |
|
| Source name |
Rhodopseudomonas palustris strain CGA010 with benzoate #1
|
| Organism |
Rhodopseudomonas palustris |
| Characteristics |
Rhodopseudomonas palustris cells grown with benzoate #1
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Rhodopseudomonas palustris cells were disrupted by treatment with by bead beating and RNA was purified with the RNeasy Mini kit (Qiagen) including DNase treatment on the column.
|
| Label |
Biotinylated GeneChip reagent
|
| Label protocol |
As recommended by the manufacturer (Affymetrix)
|
| |
|
| Hybridization protocol |
As recommended by the manufacturer (Affymetrix)
|
| Scan protocol |
As recommended by the manufacturer (Affymetrix)
|
| Description |
A high-density oligonucleotide microarray (Affymetrix GeneChip) was custom designed and manufactured by Affymetrix based on the sequences of ORFs and intergenic regions. cDNA synthesis, fragmentation, labeling, hybridization, and processing of custom designed Rhodopseudomonas palustris GeneChips were carried out as recommended by the manufacturer. Experiments were performed in duplicate with independently prepared samples.
|
| Data processing |
The Affymetrix Microarray Suite was used for initial data acquisition and processing.
|
| |
|
| Submission date |
Nov 02, 2006 |
| Last update date |
May 07, 2008 |
| Contact name |
Yasuhiro Oda |
| E-mail(s) |
yasuhiro@uw.edu
|
| Organization name |
University of Washington
|
| Department |
Department of Microbiology
|
| Lab |
Harwood
|
| Street address |
Box 357242, 1705 N.E. Pacific Street, HSB K-354
|
| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98195-7242 |
| Country |
USA |
| |
|
| Platform ID |
GPL3954 |
| Series (1) |
| GSE6221 |
Characterization of anaerobic catabolism of p-coumarate in Rhodopseudomonas palustris |
|
