Rice Oligonucleotide Array Database

Rice Expression Analysis

Data Source

All the raw data were downloaded from public databases, including NCBI GEO, ArrayExpress and PLEXdb.

Data Processing

One-channel Array
MAS 5.0 method provided by R package affy was used to convert Affymetrix probe level data to expression values. The trimmed mean target intensity of each array was arbitrarily set to 500. The data were log2 transformed.

Two-channel Array
R package marray in Bioconductor was used to do the normalization of two-channel array. Within-array Lowess normalization and between-array MAD scale normalization were used.

Data Download

Affymetrix_log.zip Whole Affymetrix normalized data (zip, 187M)
Agilent22K.zip Whole Agilent 22K normalized data (zip, 6M)
Agilent44K.zip Whole Agilent 44K normalized data (zip, 9M)
BGIYale.zip Whole BGI/Yale normalized data (zip, 45M)
NSF20K.zip Whole NSF 20K normalized data (zip, 6M)
NSF45K.zip Whole NSF 45K normalized data (zip, 10M)

Last modified: Wednesday, 13-Jul-2011 22:08:22 Pacific Daylight Time