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Sample GSM1078281 Query DataSets for GSM1078281
Status Public on Feb 05, 2014
Title untreated replicate C, card A
Sample type RNA
 
Source name MCF-10A Dox-on cells_control
Organism Homo sapiens
Characteristics cell type: Doxycycline-inducible MCF-10A cells
treated with: none (untreated control)
Extracted molecule total RNA
Extraction protocol Total RNA was harvested using the MicroRNeasy Mini Kit (Qiagen).
Label FAM
Label protocol Generation of cDNA and TaqMan qRT-PCR reactions were performed by the Dana-Farber Cancer Institute Molecular Diagnostics Laboratory as specified by the manufacturer. Briefly, 60ng of input RNA was reverse-transcribed using miRNA-specific stem-loop primers. Next, 12 cycles of pre-amplification reactions were performed using miRNA-specific forward primers and a universal reverse primer. Finally, the pre-amplification reactions were diluted, transferred to 384-well plates via microfluidic channels, and subjected to TaqMan miRNA amplification reactions using miRNA-specific FAM-labeled TaqMan probes.
 
Hybridization protocol n/a
Scan protocol n/a
Description SAMPLE 3
Data processing Non-normalized data consist of raw Ct values that were reported for each miRNA assayed. Ct values above 30 are considered unreliable, according to the experience of the Molecular Diagnostics Laboratory, due to high intra-sample variability in this regime. Samples that did not show any amplification up to 40 cycles were labeled 'Undetermined'. Normalized data were generated by subtracting the average Ct values of the housekeeping genes RNU44 and RNU48 in the sample from the Ct value of each miRNA. Fold-change data were calculated using the delta-delta Ct value method and are shown relative to untreated sample replicate A.
Normalized data report miRNA Ct values normalized against housekeeping genes (average Ct values of RNU44 and RNU48 for a particular sample). Fold-change data are relative to sample 1 (untreated condition, replicate A).
 
Submission date Feb 05, 2013
Last update date Feb 05, 2014
Contact name Michael Xiang
Organization name Dana-Farber Cancer Institute
Department Medical Oncology
Lab David A. Frank
Street address 44 Binney St
City Boston
State/province MA
ZIP/Postal code 02115
Country USA
 
Platform ID GPL14851
Series (1)
GSE44089 MicroRNA expression changes associated with specific STAT3 activation

Data table header descriptions
ID_REF
VALUE normalized

Data table
ID_REF VALUE
2 0.594347
3 -0.594347
4
6 4.204949
7 3.201668
8 9.176855
9 4.325813
10 1.818779
11 8.057028
12 5.45491
13
14 2.168635
15 10.194735
16 6.302495
17
18 -0.035141
19 4.406567
20 11.247408
21 13.575505
22

Total number of rows: 371

Table truncated, full table size 3 Kbytes.




Supplementary data files not provided
Processed data included within Sample table
Processed data are available on Series record

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