|
| Status |
Public on Jan 01, 2022 |
| Title |
72 h_vehicle_mouse kidney, biological rep1 |
| Sample type |
RNA |
| |
|
| Source name |
72 h after PBS (vehicle) injection, mouse kidney
|
| Organism |
Mus musculus |
| Characteristics |
tissue: kidney from PBS-injected mouse
genotype: C57BL/6 (wild type)
weight: 19-22 g
|
| Treatment protocol |
Stx2 (5 ng/20 g body weight) was injected intraperitoneally, and kidneys were collected at 2, 4, 6, 8, 12, 24, 48 and 72 hours. Control kidneys without Stx2 (0 h samples) were collected. PBS (vehicle)-injected mice kidneys were also collected at 72 h as no LPS contamination control.
|
| Growth protocol |
Mice, C57BL/6, male, 19-22 g, specific pathogen-free. Three mice per time point were used.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extraction was performed with Rneasy Midi kit (Qiagen) according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were synthesized according to the Affymetrix protocol using 5 ug total RNA.
|
| |
|
| Hybridization protocol |
Labelled cRNA were hybridized on GeneChip Mouse Genome 430A 2.0 Array according to Affymetrix instruction. GeneChips were washed and stained.
|
| Scan protocol |
GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
|
| Description |
Gene expression data from 72 h after PBS injection, mouse kidney
|
| Data processing |
The data from CEL files were normalized with robust multi-chip averaging (RMA), and calculation of RNA copy numbers and fold changes against 0 h were performed in R (v.3.6.0) with affy package and RankProd 2.0.
|
| |
|
| Submission date |
Apr 20, 2021 |
| Last update date |
Jan 01, 2022 |
| Contact name |
Fumiko Obata |
| E-mail(s) |
fumikoobata@hotmail.com
|
| Phone |
08087238369
|
| Organization name |
Tottori University
|
| Department |
Bacteriology
|
| Street address |
86 Nichicho
|
| City |
Yonago |
| State/province |
Tottori |
| ZIP/Postal code |
683-8503 |
| Country |
Japan |
| |
|
| Platform ID |
GPL339 |
| Series (1) |
| GSE172465 |
Expression data from Stx2-injected (i.p.) mouse kidneys |
|
