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Sample GSM1442855 Query DataSets for GSM1442855
Status Public on Sep 09, 2014
Title hMSC AD D13 Rep3
Sample type RNA
 
Channel 1
Source name hMSC_adipocytic differentiation_day13
Organism Homo sapiens
Characteristics cell type: human bone marrow MSCs (hMSC-TERT)
time point: adipocytic differentiation for 13 days
Treatment protocol hMSC-TERT cells were cultured in basal medium in 24-well tissue culture plates. When cells reached 80-90% confluence, medium was replaced with Adipogenic induction medium (AIM) (DMEM medium supplemented with 10 % FBS, 10 % Horse Serum, 1 % Penicillin-Streptomycin, 100 nM dexamethasone, 0.45 mM isobutyl methyl xanthine (IBMX), 3 μg/mL insulin, and 1 μM Rosiglitazone. Control cells were cultured in parallel in normal DMEM medium. Cells pellets and RNA was extracted on days 0, 7, and 13.
Growth protocol Cells were grown in DMEM 4.5g/l glucose supplemented with 10% fetal bovine serum, 1% NEAA, 1% L-glutamine, 100 mg/l penicillin, and 100 mg/l streptomycin
Extracted molecule total RNA
Extraction protocol RNA was extracted using TRIZOL method
Label Cy3
Label protocol The samples were labeled using the miRCURY LNA™ microRNA Hi-Power Labeling Kit, Hy3™/Hy5™
 
Channel 2
Source name common reference RNA pool
Organism Homo sapiens
Characteristics sample type: equal amounts of all of the analyzed RNA samples
Treatment protocol hMSC-TERT cells were cultured in basal medium in 24-well tissue culture plates. When cells reached 80-90% confluence, medium was replaced with Adipogenic induction medium (AIM) (DMEM medium supplemented with 10 % FBS, 10 % Horse Serum, 1 % Penicillin-Streptomycin, 100 nM dexamethasone, 0.45 mM isobutyl methyl xanthine (IBMX), 3 μg/mL insulin, and 1 μM Rosiglitazone. Control cells were cultured in parallel in normal DMEM medium. Cells pellets and RNA was extracted on days 0, 7, and 13.
Growth protocol Cells were grown in DMEM 4.5g/l glucose supplemented with 10% fetal bovine serum, 1% NEAA, 1% L-glutamine, 100 mg/l penicillin, and 100 mg/l streptomycin
Extracted molecule total RNA
Extraction protocol RNA was extracted using TRIZOL method
Label Hy5
Label protocol The samples were labeled using the miRCURY LNA™ microRNA Hi-Power Labeling Kit, Hy3™/Hy5™
 
 
Hybridization protocol Labeled RNA was hybridized on the miRCURY LNA™ microRNA Array (6'th GEN). Array product number 208400 Array version 6'th GEN, Array batch number 34014, miRBase version 17, GPL16968.
Scan protocol The miRCURY LNA™ microRNA Array slides were scanned using the Agilent G2565BA Microarray Scanner System (Agilent Technologies, Inc., USA) and the image analysis was carried out using the ImaGene® 9 (miRCURY LNA™ microRNA Array Analysis Software, Exiqon, Denmark).
Description microRNA expression on MSCs differentiated into adipocytes (day 13)
AD D13 Rep3
Data processing The quantified signals were background corrected (Normexp with offset value 10, see Ritchie et al. 2007) and normalized using the global Lowess (LOcally WEighted Scatterplot Smoothing) regression algorithm.
 
Submission date Jul 23, 2014
Last update date Sep 09, 2014
Contact name Nehad M Alajez
E-mail(s) nalajez@gmail.com
Organization name King Saud University College of Medicine
Department Anatomy
Lab Stem Cell Unit
Street address 1st floor College of Medicne
City Riyadh
ZIP/Postal code 11461
Country Saudi Arabia
 
Platform ID GPL17382
Series (1)
GSE59684 microRNA expression profiling during Adipocytic differentiation of human MSCs (hMSC-TERT)

Data table header descriptions
ID_REF
VALUE log2 Lowess normalized Hy3/Hy5 ratio representing test/reference

Data table
ID_REF VALUE
42638 0.422
17519 0.209
46507 0.070
17928 -0.291
11134 -0.110
42812 -0.481
42918 0.589
42516 -0.129
46752 0.216
46427 -0.560
11052 0.427
42696 0.209
42754 -0.038
42818 -0.486
42810 0.431
42591 -0.099
17585 -0.634
42848 0.263
17506 0.340
42795 -0.441

Total number of rows: 1439

Table truncated, full table size 18 Kbytes.




Supplementary file Size Download File type/resource
GSM1442855_AD_D13_Rep3_Hy3.txt.gz 1.1 Mb (ftp)(http) TXT
GSM1442855_AD_D13_Rep3_Hy5.txt.gz 1017.6 Kb (ftp)(http) TXT
Processed data included within Sample table

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