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Sample GSM701624 Query DataSets for GSM701624
Status Public on Jul 29, 2011
Title hAMSC_endothelial-induced_2 weeks_rep1
Sample type RNA
 
Source name hAMSC, endothelial-induced hAMSC, 2 weeks
Organism Homo sapiens
Characteristics term placenta: 1
tissue: amnionic membrane
cell type: human amniotic mesenchymal stromal cells (hAMSC)
culture conditions: endothelial cell medium EGM-2
Treatment protocol Aliquots of hAMSC isolated from three different placenta were cultured either in DMEM + 15% FCS (non-induced hAMSC1, 2, 3) or EGM-2 (endothelial-induced hAMSC 1, 2, 3) on gelatin-coated culture flasks until cells reached 90% confluence (about 5-8 d). Then cells were reseeded and cultured in the respective media for 14 d before RNA isolation.
Growth protocol Human term placentas of normal pregnancies (range 38 to 42 weeks) were obtained after spontaneous delivery or caesarean section with informed consent. Approval of the Ethical Committee of the Medical University of Graz was granted (No. 21-079 ex 09/10). Isolation of amnion-derived mesenchymal stromal cells (hAMSC) was performed according to the protocol of Soncini et al. (J Tissue Eng Regen Med. 2007;1:296-305.). The amnion was manually separated from the chorion and washed with sterile 0.9% saline (Fresenius Kabi, Bad Homburg, Germany) supplemented with 150 IU/ml penicillin, 150 µg/ml streptomycin (both from PAA Laboratories, Pasching, Austria) and 0.4 µg/ml amphotericin B (Gibco, Invitrogen, Paisley, UK). The amnion was cut into small pieces and incubated in 2.5 U/ml dispase (BD Biosciences, Bedford, USA) at 37°C for 9 min. Subsequently, the amnion was transferred to DMEM low glucose (Gibco, Invitrogen) supplemented with 15% FBS Gold (Gibco, Invitrogen), 100 IU/ml penicillin and 100 µg/ml streptomycin for 10 min. Next, the amnion was incubated with 1.0 mg/ml Collagenase A and 0.01 mg/ml DNase (both from Roche, Penzberg, Germany) for 2 h. After centrifugation for 3 min at 150 x g, the supernatant was poured over a 100 µm cell strainer (BD Biosciences) and centrifuged for 10 min at 300 x g. The cell pellet was washed in PBS (Gibco, Invitrogen) and resuspended in either DMEM supplemented with 15% FBS, 100 IU/ml penicillin and 100 µg/ml streptomycin (non-induced hAMSC) or EGM-2 (Lonza, Walkersville, USA) for endothelial induction (induced hAMSC).
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using RNeasy Mini Kit (Qiagen, Hilden, Germany). The integrity of each RNA sample was determined using an Agilent 2100 Bioanalyzer (Agilent, Foster City, CA, USA) and only RNA samples with integrity values of 9.5-10 were used for hybridization.
Label biotin
Label protocol GeneChip® Whole Transcript (WT) Sense Target Labeling Assay
 
Hybridization protocol GeneChip® Expression Wash, Stain and Scan; For Cartridge Arrays (FS450_0007)
Scan protocol Affymetrix Scanner: GCS3000; AGCC (Command Console Software AGCC_3_1_1.)
Description Gene expression data from endothelial-induced hAMSC of placenta no. 1
induced hAMSC_1
Data processing Geneexpression Console v.1.1, Affymetrix (Expression Console EC_1_1_2) using Affymetrix default analysis settings for generation of CEL-files.
Data Pre-Processing and Filtering (Partek Software, v.6.4): RMA (background correction, quantile normalization accross all chips in the experiment, log2 transformation, median polish summarization); paired t-test
 
Submission date Apr 05, 2011
Last update date Jul 29, 2011
Contact name Julia König
E-mail(s) julia.koenig@medunigraz.at
Phone 0043-316-3804259
Fax 0043-316-3809625
Organization name Medical University of Graz
Department Institute of Cell Biology, Histology and Embryology
Street address Harrachgasse 21/7
City Graz
ZIP/Postal code 8010
Country Austria
 
Platform ID GPL6244
Series (1)
GSE28385 Endothelial differentiation potential of human amnion-derived mesenchymal stromal cells (hAMSC)

Data table header descriptions
ID_REF
VALUE RMA signal

Data table
ID_REF VALUE
7896736 4.58951
7896738 2.13259
7896740 2.14754
7896742 5.08474
7896744 3.17767
7896746 7.0948
7896748 7.72191
7896750 3.07094
7896752 7.66884
7896754 4.35029
7896756 4.42473
7896759 6.00699
7896761 6.05349
7896779 6.68894
7896798 6.24323
7896817 6.0279
7896822 7.50382
7896859 5.11149
7896861 3.06965
7896863 5.31963

Total number of rows: 28869

Table truncated, full table size 447 Kbytes.




Supplementary file Size Download File type/resource
GSM701624.CEL.gz 3.8 Mb (ftp)(http) CEL
Processed data included within Sample table

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