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Status |
Public on Jan 01, 2022 |
Title |
72 h_Stx2_mouse kidney, biological rep2 |
Sample type |
RNA |
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Source name |
72 h after Stx2 injection, mouse kidney
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Organism |
Mus musculus |
Characteristics |
tissue: kidney from Stx2-injected mouse genotype: C57BL/6 (wild type) weight: 19-22 g
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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.
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Growth protocol |
Mice, C57BL/6, male, 19-22 g, specific pathogen-free. Three mice per time point were used.
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Extracted molecule |
total RNA |
Extraction protocol |
Total RNA extraction was performed with Rneasy Midi kit (Qiagen) according to the manufacturer's instructions.
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Label |
biotin
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Label protocol |
Biotinylated cRNA were synthesized according to the Affymetrix protocol using 5 ug total RNA.
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Hybridization protocol |
Labelled cRNA were hybridized on GeneChip Mouse Genome 430A 2.0 Array according to Affymetrix instruction. GeneChips were washed and stained.
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Scan protocol |
GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
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Description |
Gene expression data from 72 h after Stx2 injection, mouse kidney
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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.
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Submission date |
Apr 20, 2021 |
Last update date |
Jan 01, 2022 |
Contact name |
Fumiko Obata |
E-mail(s) |
fumikoobata@hotmail.com
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Phone |
08087238369
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Organization name |
Tottori University
|
Department |
Bacteriology
|
Street address |
86 Nichicho
|
City |
Yonago |
State/province |
Tottori |
ZIP/Postal code |
683-8503 |
Country |
Japan |
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|
Platform ID |
GPL339 |
Series (1) |
GSE172465 |
Expression data from Stx2-injected (i.p.) mouse kidneys |
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