|
| Status |
Public on Feb 23, 2007 |
| Title |
Halobacterium NRC-1 with pMTFcmyc expressing Cmyc grown to OD600 0.399 with mevinolin, Array 10007 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Halobacterium NRC1, Cmyc expression from plasmid pMTFcmyc
|
| Organism |
Halobacterium salinarum NRC-1 |
| Characteristics |
plasmid (pMTFcmyc) based expression of cmyc tagged transcription factor Cmyc grown in standard growth media with mevinolin
|
| Biomaterial provider |
Baliga Group, Institute for Systems Biology
|
| Growth protocol |
Halobacterium NRC-1 cells transformed with pMTFcmyc gene expressing Cmyc grown to OD600 0.399 in standard growth media with 20microgram/ml mevinolin
|
| 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 547
|
| 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):1025-41
|
| |
|
| Channel 2 |
| Source name |
Halobacterium NRC1, reference
|
| Organism |
Halobacterium salinarum NRC-1 |
| Characteristics |
Halobacterium NRC-1 grown in standard growth media
|
| Biomaterial provider |
Baliga Group, Institute for Systems Biology
|
| Growth protocol |
Mid-log phase (OD600 - 0.5-0.6) Halobacterium NRC-1
|
| 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 the ISB Microarray Facility website for microarray scanning details
|
| Description |
Halobacterium NRC-1 cells transformed with pMTFcmyc gene expressing Cmyc grown to OD600 0.399 in standard growth media with 20microgram/ml mevinolin versus standard reference
|
| Data processing |
AnalyzerDG software for spotfinding. see the ISB Microarray Pipeline webpage for more details
|
| |
|
| Submission date |
Jan 17, 2007 |
| Last update date |
Feb 23, 2007 |
| Contact name |
Marc Facciotti |
| E-mail(s) |
mfacciotti@systemsbiology.org
|
| Organization name |
Institute for Systems Biology
|
| Street address |
1441 North 34th Street
|
| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98103 |
| Country |
USA |
| |
|
| Platform ID |
GPL3739 |
| Series (1) |
| GSE6776 |
Halobacterium NRC-1 Growth curve and GTF perturbation |
|
