|
| Status |
Public on Feb 11, 2010 |
| Title |
Halobacterium growth. Array 11304. OD600: 0.468 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Halobacterium NRC-1, OD:0.468, time:0890 min.
|
| Organism |
Halobacterium salinarum NRC-1 |
| Characteristics |
strain: Halobacterium NRC-1
|
| Biomaterial provider |
Baliga Group, Institute for Systems Biology
|
| Growth protocol |
Halobacterium grown in standard growth media to an OD600 of 0.468.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total DNA-free RNA prepared using the Absolutely RNA miniprep kit (Stratagene) and analyzed by PCR to rule out DNA contamination, with AgilentBioanalyzer to verify integrity, and in the spectrophotometer for quantification.
|
| Label |
Alexa 546
|
| Label protocol |
see Baliga NS, Bjork SJ, Bonneau R, Pan M, Iloanusi C, Kottemann MC, Hood L, DiRuggiero J. Systems level insights into the stress response to UV radiation in the halophilic archaeon Halobacterium NRC-1. Genome Res. 2004 Jun;14(6):1025-35
|
| |
|
| Channel 2 |
| Source name |
Halobacterium NRC-1 grown in standard growth media
|
| Organism |
Halobacterium salinarum NRC-1 |
| Characteristics |
strain: Halobacterium NRC-1
|
| Biomaterial provider |
Baliga Group, Institute for Systems Biology
|
| Growth protocol |
Standard mid-log phase (OD600 - 0.5-0.6) Halobacterium NRC-1 reference sample.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total DNA-free RNA prepared using the Absolutely RNA miniprep kit (Stratagene) and analyzed by PCR to rule out DNA contamination, with Agilent Bioanalyzer to verify integrity, and in the spectrophotometer for quantification.
|
| Label |
Alexa 647
|
| Label protocol |
see Baliga NS, Bjork SJ, Bonneau R, Pan M, Iloanusi C, Kottemann MC, Hood L, DiRuggiero J. Systems level insights into the stress response to UV radiation in the halophilic archaeon Halobacterium NRC-1. Genome Res. 2004 Jun;14(6):1025-35
|
| |
|
| |
| Hybridization protocol |
see Baliga NS, Bjork SJ, Bonneau R, Pan M, Iloanusi C, Kottemann MC, Hood L, DiRuggiero J. Systems level insights into the stress response to UV radiation in the halophilic archaeon Halobacterium NRC-1. Genome Res. 2004 Jun;14(6):1025-35
|
| Scan protocol |
ScanArray 5000, using Packard BioChip ScanArray software. See http://www.systemsbiology.org/Scientists_and_Research/Technology/ISB_Facilities/Microarray for microarray scanning details
|
| Description |
Halobacterium grown in standard media to an OD600 0.468 versus standard reference.
|
| Data processing |
AnalyzerDG software for spotfinding. see http://www.systemsbiology.org/Scientists_and_Research/Technology/Data_Management/Microarray_Pipeline for more details
|
| |
|
| Submission date |
Feb 11, 2009 |
| Last update date |
Feb 25, 2009 |
| Contact name |
Dan Tenenbaum |
| Organization name |
Institute for Systems Biology
|
| Street address |
1441 N. 34th St.
|
| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98103 |
| Country |
USA |
| |
|
| Platform ID |
GPL3739 |
| Series (2) |
| GSE14832 |
Halobacterium growth in standard growth media: time course |
| GSE14976 |
Halobacterium growth |
|
