|
| Status |
Public on Jul 01, 2019 |
| Title |
C57BL/6J, one-week, vehicle treated, biological rep2 |
| Sample type |
RNA |
| |
|
| Source name |
C57BL/6J_1-week 0.9% NaCl treated_drosal root ganglia
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6J
gender: female
age: 9 weeks
treated with: 0.9% NaCl
timepoint: 1-week
tissue: L4-L5 dorsal root ganglia
|
| Treatment protocol |
No treatment, 4mg/kg cisplatin, or 0.9% NaCl were admissistered twice weekly over the specified time period.
|
| Growth protocol |
Adult female C57BL6/J and A/J (20–30 g; The Jackson Laboratory, Bar Harbor, ME) mice were used for the study. All mice were housed on a 12:12 h light/dark cycle with food and water available ad libitum. All experiments were approved by the institutional animal care and use committee of the University of Maryland School of Medicine, and conducted in accordance with The International Association for the Study of Pain guidelines for investigations of pain in animals. On each experimental day, the mice were weighed to detect changes in food and water consumption. Any mouse that demonstrated signs of debilitation or weight loss > 10% vs. baseline was euthanized.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cDNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 100 ng of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse Genome 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the AffyMetrix GeneChip Scanner 3000 7G.
|
| Description |
Gene expression data from drosal root ganglia of vehicle treated C57BL/6J mice after one-week
C57BL6_DRG_VEHICLE_1wk_2
|
| Data processing |
The data were analyzed using the R software suite. Array intensities were normalized with the robust multichip average method and probe set to gene mapping was done using the BrainArray Custom CDF version 18 (Dai, M. et al., Evolving gene/transcript definitions significantly alter the interpretation of GeneChip data. Nucleic Acids Res 33 (20), 175 (2005)). Batch effect correction was performed using nonparametric empirical Bayes methods as implemented in ComBat with naive samples serving as covariates (Johnson, W., Rabinovic, A. & Li, C., Adjusting batch effects in microarray expression data using Empirical Bayes methods. Biostatistics 8 (1), 118-127 (2007)).
RMA, BrainArray Custom CDF version 18
|
| |
|
| Submission date |
Dec 15, 2014 |
| Last update date |
Jul 01, 2019 |
| Contact name |
Susan G Dorsey |
| E-mail(s) |
sdorsey@son.umaryland.edu
|
| Phone |
(410) 706-7250
|
| Organization name |
University Of Maryland, Baltimore
|
| Department |
University of Maryland School of Nursing
|
| Lab |
Center for the Advancement of Chronic Pain Research
|
| Street address |
655 W. Lombard Street, Room 727A
|
| City |
Baltimore |
| State/province |
MD |
| ZIP/Postal code |
21201 |
| Country |
USA |
| |
|
| Platform ID |
GPL19559 |
| Series (1) |
| GSE64174 |
Expression Data for Cisplatin Treated Dorsal Root Ganglia from A/J and C57BL/6J Mice |
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