GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM5251826 Query DataSets for GSM5251826
Status Public on Apr 19, 2021
Title Liver_ApoE-KO_rep1
Sample type RNA
Source name 111018_osawa_05_ap3
Organism Mus musculus
Characteristics genotype: ApoE-KO 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 1163
AFFX-BioB-M_at 2496.2
AFFX-BioB-3_at 1003.6
AFFX-BioC-5_at 4088.8
AFFX-BioC-3_at 5349.3
AFFX-BioDn-5_at 6559.1
AFFX-BioDn-3_at 19711.2
AFFX-CreX-5_at 51575.2
AFFX-CreX-3_at 53486.2
AFFX-DapX-5_at 6
AFFX-DapX-M_at 53.7
AFFX-DapX-3_at 16.5
AFFX-LysX-5_at 6.9
AFFX-LysX-M_at 3.9
AFFX-LysX-3_at 92.8
AFFX-PheX-5_at 5
AFFX-PheX-M_at 4.9
AFFX-PheX-3_at 79.3
AFFX-ThrX-5_at 11.7
AFFX-ThrX-M_at 2

Total number of rows: 45101

Table truncated, full table size 715 Kbytes.

Supplementary file Size Download File type/resource
GSM5251826_111018_osawa_05_ap3.CEL.gz 5.7 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap