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Sample GSM397301 Query DataSets for GSM397301
Status Public on Apr 30, 2009
Title hMSCs_BV-transduced_rep4
Sample type RNA
Source name hMSCs, BV-transduced
Organism Homo sapiens
Characteristics cell type: Human mesenchymal stem cells (hMSCs)
hmscs passage number: 11th passage
Treatment protocol The virus transduction was performed on 6-well plates. Depending on the MOI, a certain volume of virus supernatant was mixed with NaHCO3-deficient a-MEM medium to adjust the final volume to 500 ml (per well). The transduction was initiated by adding the virus mixture to the cells and continued by gently shaking the plates on a rocking plate for 4 h at 25-27 oC. For mock-transduction, the cells were incubated under the same conditions with the solution consisting of 400 ml NaHCO3-deficient a-MEM and 100 ml fresh TNM-FH medium.
Growth protocol Bone marrow-derived hMSCs were obtained from Cambrex Co., selected, enriched, cultured in a-MEM medium containing 10% fetal bovine serum (FBS, Hyclone) , and expanded to passage 11 for all experiments.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted with the RNeasy® Mini Kit (Qiagen) according to manufacturer's specification.
Label Cy5
Label protocol cDNA were synthesized from the extracted total RNA by reverse transcription followed by second strand synthesis using the Amino Allyl MessageAmpII aRNA amplification Kit (Ambion) according to the manufacturer's specification. Amino allyl modified aRNA produced was subsequently coupled to Cy5 dye label.
Hybridization protocol Cy5-labeled aRNA were suspended in OneArray™ hybridization buffer (provided in HOA product package) at a final volume of 180 ul per bridization. The pre-hybridization blocking, array hybridization, and post-hybridization washes were performed according to the instruction provided in the HOA User Guide.
Scan protocol The arrays were scanned using DNA Microarray Scanner (Agilent Technologies) and the fluorescent intensities are extracted from the generated images by following the instructions and the conditions described in HOA User Guide.
Description hMSCs_BV-transduced_rep4
Data processing The raw data was preprocessed by log2 transformation and Global Lowess normalization. The preprocessed data was then analyzed by Limma package of R software. In this study, the significantly changed genes were identified and filtered based on one-way ANOVA (adjusted p<0.05).
Submission date Apr 24, 2009
Last update date Jun 26, 2012
Contact name Yu-Chen Hu
Organization name National Tsing Hua University
Department Chemical Engineering
Street address 101, Section 2, Kuang-Fu Road
City Hsinchu
ZIP/Postal code 30011
Country Taiwan
Platform ID GPL6254
Series (1)
GSE15810 The global responses of human bone marrow-derived mesenchymal stem cells to baculovirus transduction

Data table header descriptions
VALUE Normalized signal intensities.

Data table
PH_hs_0015259 3.284496099
PH_hs_0027756 4.823658638
PH_hs_0016855 8.535890778
PH_hs_0032242 3.495588422
PH_hs_0035253 4.483490199
PH_hs_0026012 5.319899942
PH_hs_0012933 3.290202948
PH_hs_0024497 2.545900821
PH_hs_0015588 5.460784979
PH_hs_0012809 7.311573359
PH_hs_0032244 3.087508019
PH_hs_0004792 5.354091629
PH_hs_0037688 3.708318031
PH_hs_0034114 7.316288729
PH_hs_0034570 3.388731497
PH_hs_0014268 5.018844626
PH_hs_0000369 2.3296447
PH_hs_0003283 2.010462152
PH_hs_0025404 8.756713829
PH_hs_0034659 2.707566232

Total number of rows: 30968

Table truncated, full table size 782 Kbytes.

Supplementary file Size Download File type/resource
GSM397301.gpr.gz 2.6 Mb (ftp)(http) GPR
Processed data included within Sample table

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