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Sample GSM144636 Query DataSets for GSM144636
Status Public on Oct 11, 2007
Title ESC C Affy
Sample type RNA
Source name mouse embryonic stem cells, biological replicate C
Organism Mus musculus
Characteristics Strain: C57BL/6, Age: Embryo (E3), Tissue: Inner cell mass, Cell type: Embryonic stem cells
Growth protocol ES cells were grown in standard ES media (15 0.000000CS, LIF, P/S, glutamine, non-essential amino acids, BME, DMEM high glucose) on irradiated MEFs. Cells were plated feeder free before RNA sample collection
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using the RNAeasy microkit (Qiagen, Valencia, CA), DNAse treatment was performed on column
Label Biotin
Label protocol 100 ng of total cellular RNA was double amplified and labeled with the Two-Cycle Target Labeling and Control Reagents kit P/N 900494 (Affymetrix Inc., Santa Clara, CA) following the manufacturers' protocol.
Hybridization protocol Sample was hybridized to Affymetrix mouse 430 2.0 chips, washed, and scanned at the University of Minnesota Affymetrix Microarray Core Facility as described in the Affymetrix GeneChip Expression Analysis Technical Manual. Protocol EukGE-WS2v5_450 .
Scan protocol Array was scanned at the University of Minnesota Affymetrix Microarray Core Facility as described in the Affymetrix GeneChip Expression Analysis Technical Manual. Pixel Size 1.56. Filter 570. Scanner ID 50209060. Number of Scans 1. Scanner Type M10
Description mouse embryonic stem cells, biological replicate C, Affymetrix
Data processing CEL files were loaded into GeneData Expressionist Refiner (GeneData, San Francisco, CA) to assess overall quality and obtain condensed single intensity values per probeset using the Microarray Analysis Suite Statistical algorithm (MAS 5.0). The mean of mean intensity values for all chips (192) was used to normalize the mean intensity of each chip. Normalization Target: 192, Tau: 0.015, Alpha1: 0.05, Alpha2: 0.065
Submission date Nov 15, 2006
Last update date Aug 28, 2018
Contact name Fernando Ulloa Montoya
Phone +32 (0)16 33 02 92
Fax +32 (0)16 33 02 94
Organization name Katholieke Universiteit Leuven
Department Medicine
Lab Stem Cell Institute
Street address Herestraat 49 bus 804
City Leuven
ZIP/Postal code 3000
Country Belgium
Platform ID GPL1261
Series (1)
GSE6933 Unique Molecular Signature of Multipotent Adult Progenitor Cells (Affy)
Reanalyzed by GSE119085

Data table header descriptions
ID_REF Affymetrix Probe ID
VALUE MAS 5-calculated Signal intensity
DETECTION P-VALUE 'detection p-value', p-value that indicates the significance level of the detection call calculated using MAS 5.0

Data table
1425763_x_at 14.64 0.3662
1427768_s_at 1.237 0.9919
1417728_at 355 0.0007324
1421879_at 18.28 0.04614
1426362_at 81.61 0.0002441
1447616_at 0.5958 0.5
1439541_at 19.41 0.0376
1416683_at 207.4 0.0002441
1431091_at 20.68 0.01416
1452992_at 71.25 0.0002441
1451481_s_at 23.14 0.06763
1424883_s_at 5320 0.0002441
1451380_at 76.9 0.00293
1459952_at 66.74 0.0002441
1430816_at 15.62 0.06763
1448366_at 32.14 0.005859
1452145_at 116.4 0.03027
1437327_x_at 1623 0.0002441
1458049_at 1.415 0.8884
1445925_at 6.367 0.5339

Total number of rows: 45101

Table truncated, full table size 1115 Kbytes.

Supplementary file Size Download File type/resource
GSM144636.CEL.gz 6.1 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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