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Sample GSM1365146 Query DataSets for GSM1365146
Status Public on Apr 30, 2014
Title A549 control
Sample type RNA
Source name lung cancer cells_control vector
Organism Homo sapiens
Characteristics cell line: A549
cell type: lung adenocarcinoma
transduced with: control vector (pCMV6-Mock)
time point: 24h after transduction
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using the RNeasy Mini Kit (QIAGEN), according to the protocol provided by the manufacturer.
Label Cy3
Label protocol Cyanine-3 (Cy3) labeled cRNA was prepared from 0.1 ug RNA using the Low Input Quick Amplification Labeling kit (Agilent) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).
Hybridization protocol 0.6 ug of Cy3-labelled cRNA was fragmented at 60°C for 30 minutes in a reaction volume of 25 μl containing 25x Agilent fragmentation buffer following the manufacturers instructions. On completion of the fragmentation reaction, 25 μl of 2x Agilent hybridization buffer was added to the fragmentation mixture and hybridized to SurePrint G3 Human GE 8x60Karray slides (G4851A) for 17 hours at 65°C in a rotating Agilent hybridization oven. After hybridization, microarrays were washed 1 minute at room temperature with GE Wash Buffer 1 (Agilent) and 1 minute with 37°C GE Wash buffer 2 (Agilent), then dried immediately by brief centrifugation.
Scan protocol Slides were scanned immediately after washing on the Agilent DNA Microarray Scanner (G2565CA) using one color scan setting for 8x60k array slides
Description A549 control
Data processing The scanned images were analyzed with Feature Extraction Software (Agilent) using default parameters (protocol GE1_1010_Sep10 and Grid: 028004_D_F_20120411) to obtain background subtracted and spatially detrended Processed Signal intensities. Features flagged in Feature Extraction as Feature Non-uniform outliers were excluded.
Submission date Apr 08, 2014
Last update date Apr 30, 2014
Contact name Nozomi Yanagihara
Organization name Sapporo Medical University School of Medicine
Department Department of Clinical Laboratory Medicine
Street address South-1, West-16, Chuo-Ku
City Sapporo
ZIP/Postal code 060-8543
Country Japan
Platform ID GPL13607
Series (1)
GSE56595 Significance of SALL4 as a drug resistant factor in lung cancer

Data table header descriptions
VALUE Normalized signal intensity

Data table
4 821.7130555
5 2346.255141
6 159.61023
7 9562.386906
8 2637.779459
9 46.21423653
10 102.3386757
11 59.04150467
12 2785.911817
13 2320.91872
14 3501.248577
15 44681.85285
16 20.3459153
17 345.7746698
18 11.51296334
19 11.51675611
20 2006.834794
21 3737.490633
24 380.518085
25 394.8003323

Total number of rows: 58717

Table truncated, full table size 1015 Kbytes.

Supplementary file Size Download File type/resource
GSM1365146_AR1378_03raw.txt.gz 3.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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