|
Status |
Public on Sep 18, 2012 |
Title |
H37Rv, 0 hours, Rep C |
Sample type |
RNA |
|
|
Source name |
H37Rv treated with WR99210 for 0 hr
|
Organism |
Mycobacterium tuberculosis H37Rv |
Characteristics |
treated with: WR99210 for 0 hr
|
Treatment protocol |
Cultures were treated with 100 uM WR99210 for 0, 4, and 24 hours prior to RNA isolation.
|
Growth protocol |
M. tuberculosis strain H37Rv cultures were grown in 7H9+GAT. Samples for microarray were harvested in mid-log phase (OD600 = 0.3)
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was extracted TRIzol chloroform:isopropanol phase separation using phaselock gels to separate the aqueous phase. Samples were isolated by immobilization on Qiagen RNeasy columns as per manufacturer's instructions. On- and off-column DNase treatments were performed to minimuze genomic or plasmid nucleic acid contamination of the final sample.
|
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 arrays.
|
Description |
_Molly 7_N18A11cy 5
|
Data processing |
The raw data (.pair file) was subjected to RMA (Robust Multi-Array Analysis; Irizarry et al. Biostatistics 4(2):249) and quantile normalization (Bolstad et al. Bioinformatics 19(2):185).
|
|
|
Submission date |
Sep 16, 2012 |
Last update date |
Sep 18, 2012 |
Contact name |
Molly Nixon |
E-mail(s) |
molly.r.nixon@gmail.com
|
Organization name |
Seattle Biomedical Research Institute
|
Street address |
307 Westlake Ave N Ste 500
|
City |
Seattle |
State/province |
WA |
ZIP/Postal code |
98112 |
Country |
USA |
|
|
Platform ID |
GPL14824 |
Series (1) |
GSE40917 |
Expression Analysis of WR99210-treated Mycobacterium tuberculosis H37Rv |
|