|
| Status |
Public on Jan 18, 2009 |
| Title |
WT, experiment D |
| Sample type |
RNA |
| |
|
| Source name |
Streptococcus mutans UA159 WT, experiment D
|
| Organism |
Streptococcus mutans UA159 |
| Characteristics |
mid-log planktonic
|
| Treatment protocol |
semi-defined medium ~ 2micromolar MnCl2 via ICP
|
| Growth protocol |
Grown in semi-defined medium
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells resuspended in TRI Reagent (Ambion) were disrupted in BIO101 FastPrep machine. Ethanol-precipitated nucleic acid was DNAse treated on an RNAeasy column according to the recommendation of the supplier (Qiagen).
|
| Label |
Biotin
|
| Label protocol |
RNA samples were amplified using a Two-Cycle cDNA Synthesis Kit according to the manufacturerÕs instructions (Affymetrix, Santa Clara, CA). Following second cycle, second strand cDNA synthesis, and cleanup, biotinylated-cRNA was prepared by in vitro transcription, fragmented and labeled using a streptavadin-phycoerythrin conjugate.
|
| |
|
| Hybridization protocol |
Samples were applied to Affymetrix Gene Chip at 45C for 16 hr.
|
| Scan protocol |
Biotinylated anti-streptavadin antibodies were used to amplify the signal. Probe arrays were scanned using a Hewlett-Packard Gene Array Scanner (Agilent Technologies).
|
| Description |
WT, experiment D
|
| Data processing |
RMA
|
| |
|
| Submission date |
Jan 20, 2008 |
| Last update date |
Jan 22, 2008 |
| Contact name |
Jeffrey P Bond |
| Organization name |
University of Vermont
|
| Department |
Microbiology and Molecular Genetics
|
| Street address |
95 Carrigan Dri e
|
| City |
Burlington |
| State/province |
VT |
| ZIP/Postal code |
05405 |
| Country |
USA |
| |
|
| Platform ID |
GPL6395 |
| Series (1) |
| GSE10215 |
Global transcriptional analysis of S. mutans metalloregulation |
|
