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Gene function can be inferred from microarray data analyzed by bioinformatics methods such as cluster analysis.
The P. falciparum microarray data analyzed in this study were generated from two-channel platforms.
The MPSS and microarray data analyzed using this test was generated from the same leaf sample and only the 88 NBS-LRR-encoding and related genes that had unique representative Affymetrix probe sets and MPSS sequence tags were included.
For our previous study [ 35], from which the microarray data analyzed here has been drawn, we measured expression using 18 Affymetrix Soybean Genome Array GeneChips (3 replications × 6 life stages) using a randomized complete block design with replications as blocks.
To explore the association of these signatures with breast cancer biology, microarray data were analyzed from 394 ER-positive primary human breast cancers pooled from three independent studies.
Microarray data was analyzed from 10 control children (pediatric patients with gastrointestinal complaints, but in whom the endoscopic histologically normal intestinal mucosa and clinico-laboratory investigations did not reveal abnormal organic etiology for their complaints; see Materials and Methods and Table S1A ).
We selected 16 of the upregulated genes from the microarray data and analyzed their proximal promoter within 4 kb upstream from the transcriptional start site.
NCI-H292, human lung mucoepidermoid carcinoma cell line, was exposed to the total particulate matter (TPM) and gas/vapor phase (GVP) from each prototype for 8 h and then the changes in gene expression from microarray data were analyzed.
Microarray data was analyzed with online software from Genesifter.
Microarray data were analyzed using Expressionist Pro software from Genedata Inc. Raw data in the form of.CEL files from the Affymetrix® GeneChip were uploaded to the platform, and the robust microarray analysis (RMA) algorithm [ 106] was used to condense and normalize all soybean probeset data with a median of ten thousand.
Finally, Log 2 ratio data from the microarray data was analyzed to determine which genes in the genome were greater then 1.5-fold responsive in any pair of replicate experiments in this meta data set.
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