Selected article for: "gene symbol and multiple probe"
Author: Noh, Heeju; Shoemaker, Jason E; Gunawan, Rudiyanto
Title: Network perturbation analysis of gene transcriptional profiles reveals protein targets and mechanism of action of drugs and influenza A viral infection
  • Document date: 2018_4_6
    • ID: j80hnhpb_8
    Snippet: The raw microarray data from genotoxicity study (25) in human HepG2 cell line were obtained from GEO (accession numbers: GSE28878 using Affymetrix GeneChip Human Genome U133 Plus 2.0 array and GSE58235 using Affymetrix HT Human Genome U133+ PM array). As with the drug synergy data, the microarray data were first normalized using justRMA, and the log 2 FCs and their adjusted P-values were calculated using limma in Bioconductor. Because the data ca.....
    Document: The raw microarray data from genotoxicity study (25) in human HepG2 cell line were obtained from GEO (accession numbers: GSE28878 using Affymetrix GeneChip Human Genome U133 Plus 2.0 array and GSE58235 using Affymetrix HT Human Genome U133+ PM array). As with the drug synergy data, the microarray data were first normalized using justRMA, and the log 2 FCs and their adjusted P-values were calculated using limma in Bioconductor. Because the data came from different microarray platforms, the gene symbols were matched separately for each platform using hgu133plus2.db annotation package (Entrez database of 27 September 2015) and HT HG-U133 Plus PM annotation file in Affymetrix, respectively. Likewise, in the case of multiple probe sets matching a gene symbol, the probe set with the smallest average adjusted P-value across all samples was chosen.

    Search related documents:
    Co phrase search for related documents
    • accession number and cell line: 1, 2
    • accession number and drug synergy: 1
    • accession number and Entrez database: 1, 2
    • accession number and gene symbol: 1, 2
    • accession number and genotoxicity study: 1
    • annotation file and gene symbol: 1
    • annotation package and drug synergy: 1
    • annotation package and Entrez database: 1
    • annotation package and gene symbol: 1
    • annotation package and genotoxicity study: 1
    • Bioconductor limma and Entrez database: 1
    • drug synergy and Entrez database: 1
    • drug synergy and gene symbol: 1
    • drug synergy and genotoxicity study: 1, 2, 3
    • Entrez database and gene symbol: 1, 2
    • Entrez database and genotoxicity study: 1
    • gene symbol and genotoxicity study: 1