7 protocols
AccessionNameType
P-MTAB-25999
labeling
10 ug total RNA was amplified and labelled using Ambion Amino Allyl MessageAmp II aRNA Amplification Kit per the manufacturer's protocol.
P-MTAB-26002
bioassay_data_transformation
Raw array data were read into J-Express Pro and filtered for controlls and saturated, non-uniform, population outliers, or low intensity spots. The data were stored as log2(experiment/control).
P-MTAB-26003
bioassay_data_transformation
Lowess normalization.
P-MTAB-26001
image_acquisition
Scanning was performed with an Agilent G2505B DNA Microarray scanner using default parameters (100% PMT, 10 um resolution) at RT. Microarray images were analysed using Agilent Feature Extraction software version 8.5.1.1
P-MTAB-26000
hybridization
Labelled cRNA corresponding to 20 pmol cyanine dye each of experimental and UHR samples were mixed and hybridized to Agilent Whole Human Genome Oligo Microarrays (1x44k format) per manufacturer's 60-mer oligo microarray processing protocol (Ver. 4.1)
P-MTAB-26004
specified_biomaterial_action
Tissue samples were obtained as core needle biopsies using a 16 Gauge core needle under ultrasound guidance and immediately placed into RNAlater. The stabilized samples were stored at -80 C until processing.
P-MTAB-25998
nucleic_acid_extraction
RNA was isolated with Trizol per the manufacturer's protocol.