affy

[…] medical campus microarray and sequencing resource. cel files were normalized to produce gene-level expression values using the implementation of the robust multiarray average (rma) [32] in the affy package (version 1.36.1)[33] included within in the bioconductor software suite (version 2.11) and an entrez gene-specific probeset mapping (version 17.0.0) from the molecular and behavioral […]

[…] meta-analyses were conducted to increase the statistical significance and to minimize the noise intrinsic to gene expression measurements. microarray datasets were normalized using frma61 from the r affy package67. when multiple probes matched the same gene symbol, probes presenting the greatest inter-quartile range were selected. only genes present in all the selected platforms were considered […]

[…] of patients used in this study was shown in table 2., raw microarray data files (.cel files) of the three datasets were analyzed using the robust multichip average (rma) algorithm by the r package affy36. after that, the linear models for microarray data (limma) package in r was used to calculate the probability of probes being differentially expressed between cases and controls37. p value […]

[…] identify potential drug targets for ras. we firstly downloaded the gene microarray datasets with the accession number of gse37265 from geo and performed robust multi-array (rma) normalization with affy r programming package. secondly, differential expression genes (degs) in ras samples compared with control samples were identified based on limma package. enriched gene ontology (go) terms […]

[…] was analyzed using genechip® human transcriptome array 2.0 microarrays (affymetrix; thermo fisher scientific, inc.) according to the manufacturer's protocol. the raw data were analyzed by using the affy package (version 1.55.0; affymetrix; thermo fisher scientific, inc.) in r (10). the robust multi-array average method was employed to corrects probe intensity values and the microarray data […]