|
Status |
Public on Jul 04, 2014 |
Title |
TFOE_5913_3167c |
Sample type |
RNA |
|
|
Source name |
TFOE_5913_3167c
|
Organism |
Mycobacterium tuberculosis H37Rv |
Characteristics |
experiment: Rv3167c stress: Rv3167c overexpression time (hours): 18 concentration (ng): 100
|
Treatment protocol |
Transcription factor overexpression experiments done at 100 ng/ml of anhydrotetracycline after 18 hours of induction.
|
Growth protocol |
H37Rv was grown to log phase (0.1-0.5 OD600) in Middlebrook 7H9 media supplemented with ADC (Difco) at 37C.
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was extracted using the RNeasy Mini kit (Qiagen Inc., Valencia, CA, USA) and the RNAprotect reagent (Qiagen) and DNA was removed by on-column DNase digestion with the RNase-Free DNase set (Qiagen).
|
Label |
Cy5
|
Label protocol |
Labeling was performed using indirect labelling of amino-allyl dUTP using protocol from PFGRC (www.pfgrc.org).
|
|
|
Hybridization protocol |
Hybridization was performed following the standard operating protocol recommended by NimbleGen Systems Inc., Madison, WI, USA . See www.nimblegen.com.
|
Scan protocol |
Scanning was performed using a GenePix 4000B using a single intensity for all 12 arrays on each slide.
|
Description |
H37RvC:pEXCF-3167c
|
Data processing |
Data was normalized using RMA normalization with the 'affy' package for R.
|
|
|
Submission date |
Jul 03, 2014 |
Last update date |
Jul 04, 2014 |
Contact name |
Tige Rustad |
E-mail(s) |
trustad@gmail.com
|
Organization name |
Seattle BioMed
|
Lab |
Sherman
|
Street address |
1700 DAYTON AVE NE
|
City |
RENTON |
State/province |
WASHINGTON |
ZIP/Postal code |
98056 |
Country |
USA |
|
|
Platform ID |
GPL14824 |
Series (1) |
GSE59086 |
Mapping and manipulating the M. tuberculosis transcriptome using a transcription factor overexpression-derived regulatory network |
|
Relations |
Reanalysis of |
GSM1084459 |