|
| Status |
Public on May 27, 2014 |
| Title |
S020909-239_ETIDRONATE_1005 mg/kg_ORAL GAVAGE_WATER_5 d_Male_102627.CEL |
| Sample type |
RNA |
| |
|
| Source name |
Thigh muscle , Etidronate, 5 d
|
| Organism |
Rattus norvegicus |
| Characteristics |
strain: Sprague Dawley, CD-IGS
tissue: Thigh muscle
compound: Etidronate
dose: 1005 mg/kg
time: 5 d
vehicle: Water
route: Oral Gavage
Sex: Male
rna extraction date: 39169
hybridization date: 39342
|
| Treatment protocol |
The 0.25 and 1-day time points were harvested starting at 1:00 p.m. and completed within 1–2 h, whereas the 3 and 5-day time points were harvested starting at 7:00 a.m. and completed within 2–4 h; all harvests used an appropriately staggered schedule so that the harvest times were accurate to ±30 min of the designed dose-to-harvest interval.
|
| Growth protocol |
Male Sprague–Dawley (Crl:CD® (SD)|GS BR) rats(aged 6–8 weeks) were purchased from Charles River Laboratories (Wilmington, MA). They were housed in plastic cages for 1 week for acclimation to the laboratory environment of a ventilated room (temperature, 22±3 ◦C; humidity 30–70%; 12-h light:12-h dark cycle per day, 6:00 a.m.–6:00 p.m.) until use. Certified Rodent Diet #5002 (PMI Feeds Inc.) and chlorinated tap water was available ad libitum.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Poly A(+) RNA was isolated using the MagNA Pure LC robot (Roche, Basel, Switzerland) in combination with the MagNA Pure LC mRNA Isolation kit I (Roche, Basel, Switzerland), concentrated by ethanol precipitation, resuspend in 7 ul DEPC-treated water, quantified by ribogreen fluorescence using Wallac Victor2 fluorometer (Perkin Elmer, Fremont CA) and transcribed to cDNA
|
| Label |
Biotin
|
| Label protocol |
Standard Affymetrix procedures
|
| |
|
| Hybridization protocol |
Standard Affymetrix procedures
|
| Scan protocol |
Standard Affymetrix procedures
|
| Description |
Complete Affymetrix Drug Matrix dataset for skeletal muscle; more details can be found at http://cebs.niehs.nih.gov/ under accession number 004-00008-0000-000-2
|
| Data processing |
Affymetrix CEL files were normalized using GeneSpring GX version 11.5.1 using RMA completed without baseline correction.
|
| |
|
| Submission date |
May 20, 2014 |
| Last update date |
Aug 31, 2022 |
| Contact name |
Scott Auerbach |
| E-mail(s) |
AuerbachS@niehs.nih.gov
|
| Organization name |
Division of the National Toxicology Program at NIEHS
|
| Street address |
111 TW Alexander Drive
|
| City |
Durham |
| State/province |
North Carolina |
| ZIP/Postal code |
27709 |
| Country |
USA |
| |
|
| Platform ID |
GPL1355 |
| Series (2) |
| GSE57816 |
Exposure of rat to a variety of toxicants, thigh muscle assayed by Affymetrix microarray |
| GSE57822 |
Drug Matrix Data - Affymetrix Arrays |
|
