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Sample GSM986029 Query DataSets for GSM986029
Status Public on Dec 22, 2015
Title Amacr-/- mouse intestine, segment 2, biological rep3
Sample type RNA
Source name mouse intestine, segment 2, Amacr-/-
Organism Mus musculus
Characteristics strain: C57BL/6
genotype: Amacr-/-
tissue: intestine, segment 2
cell type: endothelial
gender: male
age: 3-3.5 months
Treatment protocol The intestine was rinsed with 0.85% NaCl and cut into four equal size segments, and the segments were opened with scissors.
Extracted molecule total RNA
Extraction protocol The intestine endothelial layer was collected by scraping and homogenized into TRIzol reagent (Invitrogen). Total RNA was isolated with the MagMAX-96 for Microarrays Total RNA isolation kit (Ambion).
Label biotin
Label protocol Labelling of the samples was carried out at the Microarray Facility in Leuven (MAF, Leuven, Belgium).
Hybridization protocol Hydridizations and washing of the chips were carried out at the Microarray Facility in Leuven (MAF, Leuven, Belgium).
Scan protocol Scanning of the chips was carried out at the Microarray Facility in Leuven (MAF, Leuven, Belgium).
Description knock-out 3, segment 2
Data processing The data were collected using the Affymetrix standard protocol and processed and normalized using Chipster Software Suite version 2.0 using Affymetrix default analysis settings and RMA as normalization method. Variances were not stabilized.
Submission date Aug 14, 2012
Last update date Dec 22, 2015
Contact name Kaija J Autio
Phone +358 294 48 1142
Organization name University of Oulu
Department Faculty of Biochemistry and Molecular Medicine
Street address P.O.Box 5400
City University of Oulu
ZIP/Postal code 90014
Country Finland
Platform ID GPL14661
Series (2)
GSE40124 Expression data from Amacr knock-out mouse intestine
GSE40125 Expression data from Amacr knock-out mouse liver and intestine

Data table header descriptions
VALUE RMA signal intensity
ABS_CALL the call in an absolute analysis that indicates if the transcript was present (P), absent (A), or marginal (M)

Data table
100009600_at 5.54 A
100012_at 3.54 A
100017_at 6.12 P
100019_at 5.68 A
100034251_at 6.33 A
100036521_at 9.04 P
100037258_at 9.12 P
100037278_at 4.78 P
100038570_at 5.98 A
100038635_at 4.41 A
100038680_at 4.25 M
100038887_at 10.11 P
100038959_at 12.35 P
100039026_at 5.7 P
100039027_at 4.32 A
100039094_at 5.16 A
100039235_at 5.7 A
100039282_at 3.12 A
100039284_at 5.82 A
100039307_at 5.69 A

Total number of rows: 16556

Table truncated, full table size 264 Kbytes.

Supplementary file Size Download File type/resource
GSM986029_hyb7258.CEL.gz 3.5 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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