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Sample GSM252016 Query DataSets for GSM252016
Status Public on Dec 16, 2008
Title apoE-adventitia-78-weeks-4
Sample type RNA
Source name adventitia of abdominal aorta outside of atherosclerotic lesion area
Organism Mus musculus
Characteristics strain: B6.129P2-Apoe<tm1Unc>/J
tissue: adventitia of abdominal aorta outside of atherosclerotic lesion area
gender: male
age: 78 weeks
Treatment protocol The abdominal aorta was exposed, perfused in situ with ice-cold PBS/2mM EDTA and was removed inclusive of paraaortal lymph nodes, adipose and connective tissue. The isolated abdominal aorta was cut in half and embedded in Tissue Tec (Sakura Finetek, Zoeterwoude, NL) and was frozen at -80 centigrade. 200 unstained 10 micrometer cryo-sections of aorta abdominalis were microdissected with a Palm MicroBeam laser system (P.A.L.M. Microlaser Technologies AG, Bernried, Germany) and pooled in Trizol (Invitrogen, Carlsbad, CA).
Growth protocol ApoE-/- and wild-type mice on the C57BL/6J background were from The Jackson Laboratories (Bar Harbor, Maine). Mice were housed in SPF conditions with standard chow diet and were euthanized by carbon dioxide inhalation.
Extracted molecule total RNA
Extraction protocol RNA was extracted using a phenol/chloroform extraction according to the manufacturer's instructions. As a last step of the extraction procedure, the RNA was purified with the RNeasy Micro-kit (Qiagen, Hilden, Germany).
Label Biotin/SAPE with Anti Streptavidin signal amplification
Label protocol T7-High-Yield-RNA-Transcript-Labeling-Kit (Enzo, Farmingdale, NY) with an IVT of 68h
Hybridization protocol 60rpm, 18h, 45 centigrade in Affymetrix Hybridization Buffer
Scan protocol Affymetrix Scanner 3000, single scan
Description Staining with Fluidic Station 450 Protocol: Midi-euk2v3_450
Data processing GCOS 1.4, scaled to 500
Submission date Dec 19, 2007
Last update date Nov 03, 2011
Contact name Andreas Johann Richard Habenicht
Organization name Ludwig Maximilians Universität München
Department Medicine
Lab Institute for Cardiovascular Disease Prevention
Street address Pettenkoferstraße 9a
City Munich
State/province Bavaria
ZIP/Postal code 80336
Country Germany
Platform ID GPL8321
Series (3)
GSE10000 Age-dependent aorta transcriptomes in wild-type and apoE-deficient C57BL/6J mice
GSE21419 Laser Capture Microdissection of Hyperlipidemic Mouse Aorta Atherosclerosis
GSE40156 Transcript atlases reveal that artery tertiary lymphoid organs but not secondary lymphoid organs control key steps of atherosclerosis T cell immunity in aged apoe-/- mice.

Data table header descriptions
VALUE Signal value scaled to 500 by GCOS
ABS_CALL Call by default alpha
DETECTION P-VALUE Detection p-value as calculated by GCOS

Data table
AFFX-BioB-5_at 2066.8 P 0.000044
AFFX-BioB-M_at 3434.6 P 0.000044
AFFX-BioB-3_at 2081.1 P 0.000044
AFFX-BioC-5_at 6185.9 P 0.000052
AFFX-BioC-3_at 6786.8 P 0.000044
AFFX-BioDn-5_at 11481.4 P 0.000044
AFFX-BioDn-3_at 18189.6 P 0.000044
AFFX-CreX-5_at 46569 P 0.000052
AFFX-CreX-3_at 41504.9 P 0.000044
AFFX-DapX-5_at 2973.2 P 0.000044
AFFX-DapX-M_at 5619.8 P 0.000052
AFFX-DapX-3_at 7397.5 P 0.000044
AFFX-LysX-5_at 422.7 P 0.000044
AFFX-LysX-M_at 630.5 P 0.000169
AFFX-LysX-3_at 1438.3 P 0.000044
AFFX-PheX-5_at 673.8 P 0.000044
AFFX-PheX-M_at 728.6 P 0.000052
AFFX-PheX-3_at 799.9 P 0.000044
AFFX-ThrX-5_at 655.7 P 0.000127
AFFX-ThrX-M_at 1209 P 0.000044

Total number of rows: 22690

Table truncated, full table size 619 Kbytes.

Supplementary file Size Download File type/resource
GSM252016.CEL.gz 1.9 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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