gender: Male age (yrs): 73 diagnosis: gastric cancer tissue type: primary gastric adenocarcinoma
Extracted molecule
total RNA
Extraction protocol
Total RNA was isolated from tissues with mirVana RNA Isolation labeling kit (Ambion Inc) according to the manufacturer's protocol.
Label
Biotin
Label protocol
Biotin-labeled cRNA samples for hybridization were prepared according to Illumina's recommended sample labeling procedure: 500 ng of total RNA was used for cDNA synthesis, followed by an amplification/labeling step (in vitro transcription) to synthesize biotin-labeled cRNA using the Illumina TotalPrep RNA Amplification kit (Ambion Inc., Austin, TX). cRNA concentrations using spectrophotometer (Nanodrop, ND-1000)
Hybridization protocol
Labeled, amplified material (1,500 ng per array) was hybridized to a ver. 4 of the Illumina HT-12 expression beadChip according to the Manufacturer's instructions (Illumina, Inc., San Diego, CA). Array signals were developed by Amersham fluorolink streptavidin-Cy3 (GE Healthcare Bio-Sciences, Little Chalfont, UK) following the BeadChip manual
Scan protocol
Arrays were scanned with an Illumina Bead array Reader confocal scanner (BeadStation 500GXDW; Illumina, Inc., San Diego, CA) according to the Manufacturer's instructions
Description
6334167271_C
Data processing
Array data processing were performed on Illumina BeadStudio software. We normalized gene expression data using Quantile normalization and log2 transformation. To export to gene expression data based on unique gene, we used Sample Gene Profile option of Illumina BeadStudio software. The whole 47323 probes on the HumanHT-12 beadChip ver. 4 were used.
