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Sample GSM2971598 Query DataSets for GSM2971598
Status Public on Jan 30, 2021
Title Alport treated with metformin replicate 3
Sample type RNA
 
Source name Alport treated with metformin, kidney
Organism Mus musculus
Characteristics tissue: whole kidney
genotype: COL4A5 nonsense (G5X) hemi
age: 16-week-old
Treatment protocol Metformin was orally administered via drinking water at a dose of 2.5 mg/mL for 6 to 11 weeks-old, and 5 mg/mL for 12 to 20 weeks-old AS mice. Losartan was co-administered via drinking water at a dose of 125 µg/mL for 6 to 11 weeks-old, and 250 µg/mL from 12 to 20 weeks-old AS mice. The water containing these compounds was replenished twice a week.
Growth protocol wild type mice and Alport mice were sacrificed at 16-week-old.
Extracted molecule total RNA
Extraction protocol Total RNA was isolated from mouse kidney tissue using Rneasy Mini Kit (Qiagen, Valencia, CA)
Label biotin
Label protocol Biotinylated ssDNA were prepared according to the standard Affymetrix protocol from 100 ng total RNA (Manual target preparation for GeneChip Whole Transcript (WT), Affymetrix).
 
Hybridization protocol Following fragmentation, 5.2 ug of ssDNA were hybridized for 16 hr at 45C on Clariom S Array Chips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the GeneChip Scanner 3000 7G.
Description Alport M3
Data processing The data were analyzed with Transcriptome Analysis Console 4.0 (TAC4.0) using Affymetrix default analysis settings and global scaling as normalization method.
 
Submission date Jan 30, 2018
Last update date Jan 31, 2021
Contact name Kohei Omachi
E-mail(s) kohei.o.0420@gmail.com
Phone 81963714407
Organization name Kumamoto University
Department Molecular Medicine
Lab Molecular Medicine (PI: H Kai)
Street address 5-1, Oe-honmachi
City Kumammoto
ZIP/Postal code 8620973
Country Japan
 
Platform ID GPL23038
Series (1)
GSE109861 Expression data from kidney tissues treated with vehicle, losartan and metformin

Data table header descriptions
ID_REF
VALUE TAC4.0 signal intensity

Data table
ID_REF VALUE
TSUnmapped00000064.mm.2 3.1
TSUnmapped00000063.mm.2 3.77
TSUnmapped00000062.mm.2 3.52
TSUnmapped00000061.mm.2 3.32
TSUnmapped00000060.mm.2 3.9
TSUnmapped00000059.mm.2 3
TSUnmapped00000058.mm.2 5.04
TSUnmapped00000057.mm.2 3.64
TSUnmapped00000056.mm.2 3.05
TSUnmapped00000055.mm.2 4.31
TSUnmapped00000054.mm.2 3.53
TSUnmapped00000053.mm.2 5.31
TSUnmapped00000052.mm.2 3.41
TSUnmapped00000051.mm.2 3.59
TSUnmapped00000050.mm.2 4.17
TSUnmapped00000049.mm.2 5.71
TSUnmapped00000048.mm.2 5.43
TSUnmapped00000047.mm.2 4.87
TSUnmapped00000046.mm.2 6.28
TSUnmapped00000045.mm.2 4.72

Total number of rows: 22206

Table truncated, full table size 501 Kbytes.




Supplementary file Size Download File type/resource
GSM2971598_171215_Clariom_S_Mouse_AS_M3.CEL.gz 1.0 Mb (ftp)(http) CEL
GSM2971598_171215_Clariom_S_Mouse_AS_M3.sst-rma-gene-full.chp.gz 320.2 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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