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Sample GSM322374 Query DataSets for GSM322374
Status Public on Sep 08, 2009
Title LM6, biological rep1
Sample type RNA
 
Source name Human lipoma-derived mesenchymal stem cells
Organism Homo sapiens
Characteristics Gender: female
Growth protocol LM6 cells and AM3 cells were cultured in the K-NAC medium that is a modified MCDB 153 medium (Keratinocyte-SFM, GIBCO-Invitrogen) supplemented with N-acetyl-L-cysteine (NAC; Sigma A8199) (2 mM) and L-ascorbic acid 2-phosphate (Asc 2P; sigma A8960) (0.2 mM).
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions. Total RNAs extracted using TRIZOL reagent were quantified spectrophotometrically. The cDNA synthesis was carried out by using SUPERSCRIPTTM one-step RT-PCR kit (Invitrogen). For the reverse transcription step, the whole 5 ul of the resuspended RNAs were incubated for 60 min at 42oC, then 15 min at 72oC in 50 ul of reaction mixture containing 25 ul of 2x Reaction Mix (Invitrogen) and 1 ul of RT/PLANTINUM Taq Mix (Invitrogen). 28.5 ul of the cDNAs present in the 50 ul RT reaction mixture purified by Microarray Target Purification Kit (Roche Applied Science, Indianapolis, ID, USA, http://www.roche-applies-science.com) were used as templates to amplify cDNA by Microarray Target Amplification Kit. The amplified cDNAs were purified by Microarray Target Purification Kit, and complementary RNAs (cRNAs) were synthesized from 200 ng cDNA with Microarray RNA Target Synthesis Kit (Roche Applied Science).
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 micrograms purified cRNA (Expression Analysis Technical Manual, 2004, Affymetrix).
 
Hybridization protocol Following fragmentation, 10 micrograms of cRNA were hybridized for 16 hr at 45oC on Affymetrix Human Genome U133 plus 2.0 GeneChip. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol GeneChips from the hybridization experiments were read by the Affymetrix GeneChip scanner 3000.
Description The mRNA profiles from LM6 cells and AM1cells were quantitatively determined.
Data processing The data were processed by GeneSpring software version 7.2 GC-RMA preprocessor to use on the CEL files
 
Submission date Sep 18, 2008
Last update date Aug 15, 2013
Contact name Sung-Liang Yu
E-mail(s) slyu@ntu.edu.tw
Phone 886-2-23958341
Organization name National Taiwan University
Department Clinical Laboratory Sciences and Medical Biotechnology
Lab Microarray Core Facility
Street address Jen Ai Road Section1
City Taipei
ZIP/Postal code 100
Country Taiwan
 
Platform ID GPL570
Series (1)
GSE12843 Comparative profiling of mRNA expression in human mesenchymal stem cells derived from adult adipose and lipoma tissues
Relations
Reanalyzed by GSE20125
Reanalyzed by GSE49910

Data table header descriptions
ID_REF Affymetrix Synthetic ID
VALUE GC-RMA-calculated Signal intensity

Data table
ID_REF VALUE
1007_s_at 0.271
1053_at 1.499
117_at 0.907
121_at 0.702
1255_g_at 0.831
1294_at 1.391
1316_at 0.664
1320_at 1.156
1405_i_at 0.786
1431_at 0.734
1438_at 0.384
1487_at 1.349
1494_f_at 1.014
1552256_a_at 1.76
1552257_a_at 2.519
1552258_at 1.345
1552261_at 0.748
1552263_at 2.265
1552264_a_at 1.171
1552266_at 0.924

Total number of rows: 54675

Table truncated, full table size 888 Kbytes.




Supplementary file Size Download File type/resource
GSM322374.CEL.gz 5.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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