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Sample GSM5251823 Query DataSets for GSM5251823
Status Public on Apr 19, 2021
Title Liver_WT_rep2
Sample type RNA
Source name 111018_osawa_02_wt3
Organism Mus musculus
Characteristics genotype: WT mouse liver with HFD
strain: C57BL/6J
age: adult
Treatment protocol For liver samples, mice were feeded with HFD or 12 weeks.
Growth protocol Maintain mice in normal circumstance (temperature and humidity). For aortic endothelial cell, primary endothalial cells were isolated from aorta of each mice, and cultured for several days.
Extracted molecule total RNA
Extraction protocol For liver sample, total RNA was extracted using RNeasy (QIAGEN) according to the manufacturer's instructions. For aorta sample, Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 100 ng total RNA.
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse Genome 430.2.0 Array.
Scan protocol GeneChips Scanner 3000 (Affymetrix)
Data processing The data were analyzed with GeneSpringGX (Version12.5) using Affymetrix default analysis settings and global scaling as normalization method, and Transcriptome Analysis Console (TAC) software. For global normalization, the average signal in the array was set to 100
Submission date Apr 18, 2021
Last update date Apr 19, 2021
Contact name Takashi Minami
Organization name Kumamoto University
Street address 2-2-1, Honjo
City Kumamoto
ZIP/Postal code 860-0811
Country Japan
Platform ID GPL1261
Series (1)
GSE172283 Loss of Down syndrome critical region-1 leads to cholesterol metabolic dysfunction that exaggerates hypercholesterolemia in ApoE-null background

Data table header descriptions
VALUE MAS5.0 signal intensity with target intensity=100 (Liver), and RMA (Aorta)

Data table
AFFX-BioB-5_at 467
AFFX-BioB-M_at 724
AFFX-BioB-3_at 261.2
AFFX-BioC-5_at 1248.9
AFFX-BioC-3_at 1845.2
AFFX-BioDn-5_at 2160.5
AFFX-BioDn-3_at 6205.6
AFFX-CreX-5_at 17509.8
AFFX-CreX-3_at 18713.9
AFFX-DapX-5_at 31.4
AFFX-DapX-M_at 27.2
AFFX-DapX-3_at 3
AFFX-LysX-5_at 6
AFFX-LysX-M_at 4
AFFX-LysX-3_at 35.9
AFFX-PheX-5_at 15.5
AFFX-PheX-M_at 3.1
AFFX-PheX-3_at 30.3
AFFX-ThrX-5_at 32.5
AFFX-ThrX-M_at 2

Total number of rows: 45101

Table truncated, full table size 713 Kbytes.

Supplementary file Size Download File type/resource
GSM5251823_111018_osawa_02_wt3.CEL.gz 5.7 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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