Selected article for: "expression change and reference list"
Author: Mohammad Saeed; Alejandro Ibáñez-Costa; Alejandra María Patiño-Trives; Eduardo Collantes Estevez; María Ángeles Aguirre; Chary López-Pedrera
Title: Genomic convergence of locus-based GWAS meta-analysis identifies DDX11 as a novel Systemic Lupus Erythematosus gene
  • Document date: 2020_4_18
    • ID: 27szdvgd_38
    Snippet: Genomic convergence methodology employed in this study. Two GWAS (Db1 and Db2) were analyzed using OASIS locus-based testing, which identified 30 overlapping SLE loci. SNIPPER was used to identify 410 genes in these 30 loci and this reference gene list was used for gene expression analysis in 3 SLE GEO datasets and 1 dataset from Cordoba, Spain. DDX11 was the only gene identified across all expression datasets with consistently significant expres.....
    Document: Genomic convergence methodology employed in this study. Two GWAS (Db1 and Db2) were analyzed using OASIS locus-based testing, which identified 30 overlapping SLE loci. SNIPPER was used to identify 410 genes in these 30 loci and this reference gene list was used for gene expression analysis in 3 SLE GEO datasets and 1 dataset from Cordoba, Spain. DDX11 was the only gene identified across all expression datasets with consistently significant expression change in SLE. STRING protein network analysis of 187 unique genes (S1a) that had significant change in expression in 6 GEO datasets and were located in the 30 SLE loci. STRING analysis of 55 genes (S1b) having significant differential expression in at least 2 GEO datasets and with their expression directionally aligned. Minimum interaction score of 0.15 was chosen for either Co-expression or Experimental interaction.

    Search related documents:
    Co phrase search for related documents
    • GEO dataset and network analysis: 1, 2, 3, 4
    • GEO dataset and reference gene: 1
    • GEO dataset and reference gene list: 1
    • interaction score and minimum interaction score: 1
    • interaction score and network analysis: 1
    • interaction score and string analysis: 1
    • network analysis and reference gene: 1
    • network analysis and significant change: 1, 2, 3
    • network analysis and string analysis: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13
    • network analysis and unique gene: 1, 2
    • reference gene and significant change: 1
    • reference gene and SLE expression change: 1
    • reference gene and SLE loci: 1
    • reference gene and unique gene: 1
    • reference gene list and significant change: 1
    • reference gene list and SLE expression change: 1
    • reference gene list and SLE loci: 1
    • significant change and SLE expression change: 1, 2
    • significant change and SLE loci: 1, 2, 3