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The raw data from the Illumina Microarray System contained expression signals from 45,281 probes across the 12 hybridizations.
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This microarray system contains total of 14,053 unique cDNAs with 7,937 unique cDNA clones from the neuroendocrine and reproductive systems as well as 9,833 unique cDNA clones from the metabolic and somatic systems [ 24].
The total system contained 19641 atoms.
This system contains no disjunction or existence.
Three separate types of microarray were used to carry out rat gene expression profiling: - Operon Rat v1.0 OpArray™ is a two-colour gene expression system, containing 5,717 oligonucleotides, almost entirely representative for unique well-documented genes.
The system contains 1e6 voxels.
miRNA and mRNA expression data from cell lines was produced using Agilent Tehcnologies' (Santa Clara, CA) miRNA microarray system (version 1 array containing 470 human and 64 viral miRNAs) 8 and Whole Human Genome Kit (4 × 44k) (Agilent Tehcnologies, Santa Clara, CA), respectively.
Tumour RNA extracts were hybridised together with patient-matched nontumoral thyroid tissues on Micromax Human cDNA microarray system (Perkin-Elmer, Wellesley, MA, USA), containing 2400 known human cDNA, mapping to ∼2100 UniGene (build 160) clusters.
Hybridization cocktails were applied to Affymetrix Rat Gene 2.0 microarrays and processed in accordance with the manufacturer's recommended procedure using the GCS3000 microarray system (Affymetrix).
Data were quality control assessed by using standard metrics and guidelines for the Affymetrix microarray system.
As shown in the Fig. 4, MB1 and MB2 were immobilized on one side of the microarray system.
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