|
| Status |
Public on Jan 04, 2023 |
| Title |
WT, liver |
| Sample type |
RNA |
| |
|
| Source name |
1864 (Wild type liver)
|
| Organism |
Mus musculus |
| Characteristics |
tissue: liver
genotype: Wild-type
|
| Treatment protocol |
No special treatment. A small piece of freshly isolated liver (~ 50 milligrams) was immediately homogenized in 4 mls of RNAStat and processed according to manufacturers instructions. Total liver RNA was isolated from 3 mice from each group (non-fasted 5 week-old males) and equal amounts of each of the 3 individual RNAs were combined to produce a single RNA sample/group for the array analysis.
|
| Growth protocol |
5 week-old mice of the appropriate genotypes were humanely euthanized between 10am and noon. Livers were isolated and prioritized for immediate RNA extraction.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNAStat extraction of total liver RNA was performed according to manufacturers instructions. RNA quality/integrity was determined by standard agarose electrophoresis of 1-2 micrograms of each RNA to visualize intact 28S and 18S rRNAs (~2:1 ratio).
|
| Label |
Biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2.5 ug of RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Affymetrix 430_2 mouse expression arrays
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
|
| Data processing |
CEL files were processed with RMA using R/affy package and quantile normalized.
|
| |
|
| Submission date |
Aug 30, 2022 |
| Last update date |
Jan 05, 2023 |
| Contact name |
Yidong Chen |
| E-mail(s) |
cheny8@uthscsa.edu
|
| Phone |
2105629163
|
| Organization name |
UT Health Science Center at San Antonio
|
| Department |
Population Health Sciences
|
| Street address |
8403 Floyd Curl Drive, MSC 7784
|
| City |
San Antonio |
| State/province |
Texas |
| ZIP/Postal code |
78229 |
| Country |
USA |
| |
|
| Platform ID |
GPL1261 |
| Series (1) |
| GSE212363 |
mRNA expression data from livers of wild-type (WT) mice, mice that lack ribosomal protein S6 (Rps6) (DS6), mice that overexpress c-Myc (Myc) and livers that lack Rps6 and also overexpress c-Myc (DS6 Myc) |
|
