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Sample GSM590223 Query DataSets for GSM590223
Status Public on Sep 03, 2010
Title mesenchymal stromal cells (MSCs) sample 2
Sample type RNA
 
Source name mesenchymal stromal cells (MSCs) sample 2
Organism Rattus norvegicus
Characteristics cell passage: twiced-passaged cells
strain: Sprague Dawley
cell type: mesenchymal stromal cells (MSCs)
Extracted molecule total RNA
Extraction protocol RNA was extracted using Trizol (Invitrogen), as per the manufacturer’s instructions, followed by the RNeasy Mini Kit (Qiagen).
Label biotin
Label protocol Single-stranded cDNA was generated from the amplified cRNA with the WT cDNA Synthesis Kit (Affymetrix) and then fragmented and labeled with the WT Terminal Labeling Kit (Affymetrix).
 
Hybridization protocol Samples were hybridized with GeneChip Rat Gene 1.0 ST Arrays (Affymetrix) and scanned at the HSC Microarray Facility.
Scan protocol Array scanning was performed according to the manufacturer's instruction (Affymetrix)
Description RMA expression value derived from Expression Console software; gene-core analysis
Data processing The data were background corrected and normalized using standard RMA procedure implemented in the Affymetrix Expression Console software. The preprocessed data were analyzed using the LIMMA Bioconductor package to identify genes that show significant evidence of differential expression between SKPs and MSCs.
 
Submission date Sep 02, 2010
Last update date Sep 02, 2010
Contact name Freda Miller
E-mail(s) fredam@sickkids.ca
Organization name Hospital for Sick Children
Street address 555 University Avenue
City Toronto
State/province ON
ZIP/Postal code M5G1L7
Country Canada
 
Platform ID GPL6247
Series (1)
GSE23954 CONVERGENT GENESIS OF AN ADULT NEURAL CREST-LIKE DERMAL STEM CELL FROM DISTINCT DEVELOPMENTAL ORIGINS

Data table header descriptions
ID_REF
VALUE RMA normalized intensity

Data table
ID_REF VALUE
10700001 11.5191
10700002 6.15321
10700003 10.1553
10700004 3.60309
10700005 9.20592
10700006 1.54729
10700007 1.80367
10700008 1.6662
10700009 8.26861
10700010 2.1274
10700011 3.83019
10700012 3.09483
10700013 10.8903
10700014 10.3435
10700015 8.45925
10700016 1.55713
10700017 5.3016
10700018 1.45968
10700019 1.62993
10700020 11.6338

Total number of rows: 29215

Table truncated, full table size 481 Kbytes.




Supplementary file Size Download File type/resource
GSM590223_RaGene1_041708L_FM08_M-G-2.CEL.gz 3.8 Mb (ftp)(http) CEL
GSM590223_RaGene1_041708L_FM08_M-G-2.july22.rma-gene-default.chp.gz 230.1 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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