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Sample GSM588051 Query DataSets for GSM588051
Status Public on Aug 28, 2010
Title ASC_HS_P2_rep3
Sample type RNA
 
Source name ASC, Passage 2, HS
Organism Homo sapiens
Characteristics tissue: adipose tissue-derived mesenchymal stem cells
supplement: 10% human serum (HS)
Treatment protocol Cells were cultured under three different culture-conditions: basal DMEM, low glucose, supplemented with 10 % fetal bovine serum, 10% human serum or 10% thrombin-activated platelet releasate plasma (for reference Kocaömer et al. Stem Cells. 2007;25(5):1270-8.
Extracted molecule total RNA
Extraction protocol Cells were harvested when reaching at least 80% confluency. At passage 2, extraction of RNA was performed for each sample using the RNeasy Mini Kit (Qiagen). The quality of RNA was confirmed by checking the RNA integrity number using using the RNA 6000 Nano LabChip Kit and Agilent 2100 Bioanalyzer (Agilent Technologies).
Label cy3
Label protocol lHSel protocol: RNA from each sample was amplified and labeled using a Low input RNA fluorescent linear amplification kit (Agilent).
 
Hybridization protocol An in situ hybridization kit plus (Agilent) was used as a hybridization buffer. After hybridization in a hybridization chamber for 16 h at 65°C, microarrays were washed in washing solution 1+2 (20 × SSC and 10% Triton X-102) for 10 min each and in Agilent stabilization and drying solution.
Scan protocol Immediately after the washing process, microarrays were scanned by a GMS418 laser scanner (Affymetrix, Eurofins MWG GmbH) at an excitation wavelength of 543 nm (Cy3) and 633 nm (Cy5).
Description Gene expression of ACS from Passage 2 cultured in HS
Data processing Fluorescent intensities of scanned images were quantified by ArrayVision Ver.7 (Imaging research) and normalized applying Loess normalization procedure to adjust the Cy3 and Cy5 channels. Differential gene expression analysis was performed using the One-way ANOVA with the commercial software package SAS JMP7 Genomics 3.1 (SAS Institute). A false positive rate of a=0.05 with FDR correction was taken as the level of significance.
 
Submission date Aug 27, 2010
Last update date Aug 27, 2010
Contact name Karen Bieback
E-mail(s) karen.bieback@medma.uni-heidelberg.de
Organization name Institute of Transfusion Medicine and Immunology, Medical Faculty Mannheim, Heidelberg University
Department Institute of Transfusion Medicine and Immunology
Street address Ludolf-Krehl-Strasse 13-17
City Mannheim
ZIP/Postal code 68167
Country Germany
 
Platform ID GPL1708
Series (1)
GSE23851 Altered Gene Expression in Human Adipose Stem Cells Cultured with Fetal Bovine Serum Compared to Human Supplements

Data table header descriptions
ID_REF
VALUE Normalized signal intensity
RAW Raw signal intensity

Data table
ID_REF VALUE RAW
1 11.882 4180.58
431 8.187 306.623
861 8.513 363.739
1291 13.877 28414.783
1721 9.233 761.206
2151 8.550 364.812
2581 12.922 13779.435
3011 10.134 1528.275
3441 10.883 2403.797
3871 8.799 431.088
4301 8.583 367.652
4731 13.649 24880.855
5161 11.553 5375.725
5591 8.631 409.471
6021 8.585 402.087
6451 8.303 315.928
6881 9.296 893.638
7311 8.711 411.261
7741 11.924 4637.246
8171 10.009 1007.609

Total number of rows: 44290

Table truncated, full table size 891 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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