|
| Status |
Public on Jan 01, 2014 |
| Title |
biofilm 4 |
| Sample type |
RNA |
| |
|
| Source name |
biofilm (BF)
|
| Organism |
Bacteroides thetaiotaomicron VPI-5482 |
| Characteristics |
growth form: biofilm
|
| Growth protocol |
Bacteroides thetaiotaomicron was grown in 250 mL continuous flow bioreactors with TYG medium and a graphite paper surface for biofilm formation. Planktonic cells were harvested for extraction at 8 hours post inoculation. Biofilms were harvested after 8 days.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
QIAgen RNA Easy mini kit
|
| Label |
biotin
|
| Label protocol |
Sonnenburg JL, et al. (2005) Glycan foraging in vivo by an intestine-adapted bacterial symbiont. Science 307: 1955-59.
|
| |
|
| Hybridization protocol |
Sonnenburg JL, et al. (2005) Glycan foraging in vivo by an intestine-adapted bacterial symbiont. Science 307: 1955-59.
|
| Scan protocol |
Sonnenburg JL, et al. (2005) Glycan foraging in vivo by an intestine-adapted bacterial symbiont. Science 307: 1955-59.
|
| Description |
SAMPLE 4
|
| Data processing |
Probes for affymetrix control probes and organisms other than B. thetaiotaomicron were removed from data processing, because only B. thetaiotaomicron DNA was hybridized to the chip. The data was normalized to an average intensity of 500 using the Affymetrix Microarray Suite V 5.0 (MAS5.0). The filtering parameters are described above. No over data processing procedures were used on the uploaded data.
|
| |
|
| Submission date |
Jun 06, 2012 |
| Last update date |
Jan 01, 2014 |
| Contact name |
Michaela Anne TerAvest |
| E-mail(s) |
mat273@cornell.edu
|
| Organization name |
Cornell University
|
| Department |
Biological and Environmental Engineering
|
| Lab |
Lars Angenent
|
| Street address |
B45 Riley-Robb Hall
|
| City |
Ithaca |
| State/province |
New York |
| ZIP/Postal code |
14853 |
| Country |
USA |
| |
|
| Platform ID |
GPL1821 |
| Series (1) |
| GSE38534 |
Regulated expression of polysaccharide utilization and capsular biosynthesis loci in biofilm and planktonic Bacteroides thetaiotaomicron during growth in chemostats |
|
